RGImain predicted ARO RGI main predicted name RGI main predicted AMR gene family RGI main cutoff PRM Infant ID Timepoint Contig length Top blastN hit RGIbwt Resistomes & Variants observed RGI kmer_query CARD*Prediction RGI kmer_query single species (chromosome) reads RGI kmer_query single species (chromosome or plasmid) reads RGI kmer_query single species (plasmid) reads RGI kmer_query Promiscuous plasmid reads Nearest neighbour from MOB-suite mob_recon Predicted host range overall name from MOB-Suite mob_recon Consensus Class Consensus Order Consensus Family Consensus Genus 3002189 MOX-7 MOX beta-lactamase Strict PRM429 NS7 Visit 1 1272 "Aeromonas caviae strain R25-2 chromosome, complete genome" Aeromonas caviae 0 0 0 0 0 NC_010500 Enterobacterales Gammaproteobacteria Aeromonadales Aeromonadaceae Aeromonas 3000190 tetO tetracycline-resistant ribosomal protection protein Strict PRM887 PS4 Visit 1 2171 Enterocloster clostridioformis strain FDAARGOS_739 chromosome Campylobacter jejuni; Enterococcus faecalis; Enterococcus faecium; Streptococcus agalactiae; Streptococcus pneumoniae; Streptococcus pyogenes; Campylobacter coli; Clostridioides difficile; Streptococcus anginosus; Streptococcus constellatus; Escherichia coli; Staphylococcus aureus; Salmonella enterica Campylobacter jejuni (chromosome or plasmid): 2; Streptococcus anginosus (chromosome or plasmid): 1; Campylobacter coli (chromosome or plasmid): 1; Campylobacter (chromosome or plasmid): 1; 0 Campylobacter jejuni: 2; Streptococcus anginosus: 1; Campylobacter coli: 1; 0 0 MK251542 Gammaproteobacteria Campylobacteria Campylobacterales Campylobacteraceae Campylobacter 3000190 tetO tetracycline-resistant ribosomal protection protein Strict PRM915 PS4 Visit 2 2450 "[Ruminococcus] gnavus ATCC 29149 chromosome, complete genome" Campylobacter jejuni; Enterococcus faecalis; Enterococcus faecium; Streptococcus agalactiae; Streptococcus pneumoniae; Streptococcus pyogenes; Campylobacter coli; Clostridioides difficile; Streptococcus anginosus; Streptococcus constellatus; Escherichia coli; Staphylococcus aureus; Salmonella enterica Escherichia coli (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; Campylobacter jejuni (chromosome or plasmid): 1; Enterococcus faecium (chromosome or plasmid): 1; Campylobacter coli (chromosome or plasmid): 1; Clostridioides difficile (chromosome or plasmid): 1; 0 Escherichia coli: 1; Salmonella enterica: 1; Campylobacter jejuni: 1; Enterococcus faecium: 1; Campylobacter coli: 1; Clostridioides difficile: 1; 0 0 MK251542 Gammaproteobacteria Campylobacteria Campylobacterales Campylobacteraceae Campylobacter 3002080 CMY-67 CMY beta-lactamase Strict PRM908 NS2 Visit 4 1815 "Citrobacter freundii strain E51 chromosome, complete genome" Citrobacter freundii Citrobacter freundii (chromosome): 24; Citrobacter freundii (chromosome or plasmid): 2; Citrobacter freundii: 24; Citrobacter freundii: 2; 0 0 LT985233 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Citrobacter 3002113 CMY-101 CMY beta-lactamase Strict PRM915 PS4 Visit 2 1868 Citrobacter braakii strain Colony313 chromosome Escherichia coli; Citrobacter freundii 0 0 0 0 0 MK251542 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Citrobacter 3002113 CMY-101 CMY beta-lactamase Strict PRM887 PS4 Visit 1 1875 Citrobacter braakii strain Colony313 chromosome Escherichia coli; Citrobacter freundii 0 0 0 0 0 MK251542 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Citrobacter 3002736 QnrB21 quinolone resistance protein (qnr) Strict PRM429 NS7 Visit 1 1775 "Citrobacter braakii strain FDAARGOS_253 chromosome, complete genome" Escherichia coli; Citrobacter freundii 0 0 0 0 0 NC_010500 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Citrobacter 3002781 QnrB69 quinolone resistance protein (qnr) Perfect PRM429 NS7 Visit 1 2368 Citrobacter werkmanii strain FDAARGOS_1524 chromosome Citrobacter freundii; Salmonella enterica Salmonella enterica (chromosome): 95; Salmonella enterica (chromosome or plasmid): 203; Salmonella enterica: 95; Salmonella enterica: 203; 0 0 NC_010500 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Citrobacter 3002703 cmx major facilitator superfamily (MFS) antibiotic efflux pump Perfect PRM933 NS13 Visit 4 3673 "Corynebacterium urealyticum strain NCTC12011 genome assembly, chromosome: 1" Corynebacterium striatum; Klebsiella oxytoca; Klebsiella pneumoniae; Pseudomonas aeruginosa; Stenotrophomonas maltophilia; Enterobacter asburiae; Serratia marcescens; Micrococcus luteus Micrococcus luteus (chromosome or plasmid): 1; 0 Micrococcus luteus: 1; 0 0 FN825254 Corynebacterium Actinobacteria Corynebacteriales Corynebacteriaceae Corynebacterium 3000595 ErmT Erm 23S ribosomal RNA methyltransferase Strict PRM587 NS12 In-hospital 1385 "Enterococcus faecium strain RBWH1 chromosome, complete genome" Plasmid pGT633; Enterococcus faecium; Escherichia coli; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus anginosus; Streptococcus pyogenes; Klebsiella pneumoniae 0 0 0 0 0 CP012742 Streptococcus Bacilli Lactobacillales Enterococcaceae Enterococcus 3000595 ErmT Erm 23S ribosomal RNA methyltransferase Strict PRM908 NS2 Visit 4 1490 "Enterococcus faecalis strain E165 plasmid pE165, complete sequence" Plasmid pGT633; Enterococcus faecium; Escherichia coli; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus anginosus; Streptococcus pyogenes; Klebsiella pneumoniae Enterococcus faecium (chromosome or plasmid): 2; Staphylococcus aureus (chromosome or plasmid): 1; 0 Enterococcus faecium: 2; Staphylococcus aureus: 1; 0 0 CP012742 Bacilli Bacilli Lactobacillales Enterococcaceae Enterococcus 3000595 ErmT Erm 23S ribosomal RNA methyltransferase Strict PRM901 PS5 Visit 1 1492 "Enterococcus faecalis strain E165 plasmid pE165, complete sequence" Plasmid pGT633; Enterococcus faecium; Escherichia coli; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus anginosus; Streptococcus pyogenes; Klebsiella pneumoniae 0 0 0 0 0 CP012742 Bacilli Bacilli Lactobacillales Enterococcaceae Enterococcus 3002868 dfrG trimethoprim resistant dihydrofolate reductase dfr Perfect GBS410 FT8 Visit 1 1711 "Enterococcus faecalis isolate 27688_1#45 genome assembly, plasmid: 2" Staphylococcus aureus; Staphylococcus epidermidis; Enterococcus faecalis; Enterococcus faecium; Escherichia coli; Klebsiella aerogenes; Klebsiella pneumoniae; Staphylococcus pseudintermedius; Streptococcus pyogenes Enterococcus faecalis (chromosome or plasmid): 1; 0 Enterococcus faecalis: 1; 0 0 CP024441 Staphylococcus Bacilli Lactobacillales Enterococcaceae Enterococcus 3000595 ErmT Erm 23S ribosomal RNA methyltransferase Strict PRM902 PS6 Visit 1 1409 "Enterococcus faecalis strain E165 plasmid pE165, complete sequence" Plasmid pGT633; Enterococcus faecium; Escherichia coli; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus anginosus; Streptococcus pyogenes; Klebsiella pneumoniae 0 0 0 0 0 KC991136 Streptococcus Bacilli Lactobacillales Enterococcaceae Enterococcus 3004442 tet(W/N/W) tetracycline-resistant ribosomal protection protein Strict PRM917 PS7 Visit 1 2061 "Enterococcus faecalis strain TH4125 chromosome, complete genome" uncultured bacterium; Streptococcus agalactiae; Enterococcus faecalis; Enterococcus faecium; Clostridioides difficile; Klebsiella pneumoniae 0 0 0 0 0 KJ842484 Enterobacterales Bacilli Lactobacillales Enterococcaceae Enterococcus 3003196 tet(45) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM795 NS12 Visit 3 2881 "Enterococcus faecium strain Dallas 158 chromosome, complete genome" Streptococcus agalactiae; Enterococcus faecalis; Enterococcus faecium; Staphylococcus aureus; Streptococcus pyogenes Enterococcus faecium (chromosome or plasmid): 2; 0 Enterococcus faecium: 2; 0 0 MF422120 Enterobacterales Bacilli Lactobacillales Enterococcaceae Enterococcus 3000595 ErmT Erm 23S ribosomal RNA methyltransferase Strict PRM933 NS13 Visit 4 1253 "Enterococcus faecalis strain E165 plasmid pE165, complete sequence" Enterococcus faecium; Escherichia coli; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus anginosus; Streptococcus pyogenes; Klebsiella pneumoniae 0 0 0 0 0 NC_004957 Bacilli Bacilli Lactobacillales Enterococcaceae Enterococcus 3000595 ErmT Erm 23S ribosomal RNA methyltransferase Strict PRM775 NS3 Visit 4 1420 "Enterococcus faecium strain RBWH1 chromosome, complete genome" Plasmid pGT633; Enterococcus faecium; Escherichia coli; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus anginosus; Streptococcus pyogenes; Klebsiella pneumoniae 0 0 0 0 0 NC_004957 Streptococcus Bacilli Lactobacillales Enterococcaceae Enterococcus 3002660 APH(6)-Id APH(6) Strict PRM587 NS12 In-hospital 3081 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Acinetobacter lwoffii; Mycobacteroides abscessus; Proteus vulgaris; Vibrio vulnificus; Staphylococcus aureus; Mycoplasma pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 28; Escherichia coli (chromosome or plasmid): 14; Acinetobacter baumannii (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 3; Vibrio cholerae (chromosome or plasmid): 3; Proteus vulgaris (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 2; Enterobacter hormaechei (chromosome or plasmid): 1; Shigella sonnei (chromosome or plasmid): 1; Pseudomonas aeruginosa (chromosome or plasmid): 1; Klebsiella pneumoniae (plasmid): 12; Shigella sonnei (plasmid): 4; 0 Klebsiella pneumoniae: 28; Escherichia coli: 14; Acinetobacter baumannii: 3; Shigella flexneri: 3; Vibrio cholerae: 3; Proteus vulgaris: 2; Salmonella enterica: 2; Enterobacter hormaechei: 1; Shigella sonnei: 1; Pseudomonas aeruginosa: 1; Klebsiella pneumoniae: 12; Shigella sonnei: 4; 16 NC_011795 Enterobacteriaceae Bacilli Lactobacillales Enterococcaceae Enterococcus 3003196 tet(45) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM587 NS12 In-hospital 2788 No hits Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Enterococcus faecalis; Klebsiella pneumoniae; Streptococcus anginosus; Streptococcus pyogenes; Campylobacter coli Enterococcus faecium (chromosome or plasmid): 59; Staphylococcus aureus (chromosome or plasmid): 1; 0 Enterococcus faecium: 59; Staphylococcus aureus: 1; 0 0 NC_016009 "Proteobacteria,Bacteroidetes,Firmicutes" Bacilli Lactobacillales Enterococcaceae Enterococcus 3004290 Escherichia coli ampC beta-lactamase ampC-type beta-lactamase Strict PRM839 NS5 Visit 4 1382 "Escherichia coli strain EcPF7 chromosome, complete genome" Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae; Shigella dysenteriae Escherichia coli (chromosome): 2; Escherichia coli (chromosome or plasmid): 4; Escherichia coli: 2; Escherichia coli: 4; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3004290 Escherichia coli ampC beta-lactamase ampC-type beta-lactamase Strict PRM795 NS12 Visit 3 1497 "Escherichia coli strain EcPF40 chromosome, complete genome" Escherichia coli; Shigella flexneri Escherichia coli (chromosome or plasmid): 12; 0 Escherichia coli: 12; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3004290 Escherichia coli ampC beta-lactamase ampC-type beta-lactamase Strict PRM955 PS8 Visit 2 1516 "Escherichia coli strain EcPF7 chromosome, complete genome" Escherichia coli Escherichia coli (chromosome): 8; Escherichia coli (chromosome or plasmid): 16; Escherichia coli: 8; Escherichia coli: 16; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3004290 Escherichia coli ampC beta-lactamase ampC-type beta-lactamase Strict GBS153 FT1 Visit 1 1771 "Escherichia coli strain EcPF15 chromosome, complete genome" Escherichia coli Escherichia coli (chromosome): 15; Escherichia coli (chromosome or plasmid): 22; Escherichia coli: 15; Escherichia coli: 22; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Strict PRM795 NS12 Visit 3 3176 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter lwoffii; Acinetobacter junii; Acinetobacter nosocomialis; Klebsiella pneumoniae; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Escherichia coli; Klebsiella oxytoca; Vibrio cholerae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Ralstonia pickettii; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Acinetobacter haemolyticus; Pseudomonas putida Escherichia coli (chromosome or plasmid): 9; Shigella flexneri (chromosome or plasmid): 2; Vibrio cholerae (chromosome or plasmid): 1; 0 Escherichia coli: 9; Shigella flexneri: 2; Vibrio cholerae: 1; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002639 APH(3'')-Ib APH(3'') Strict PRM955 PS8 Visit 2 3926 "Escherichia coli strain WCHEC020031 plasmid pOXA1_020031, complete sequence" Acinetobacter baumannii; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Klebsiella pneumoniae; Salmonella enterica; Proteus mirabilis; Acinetobacter lwoffii; Burkholderia cepacia; Shigella sonnei; Vibrio cholerae; Staphylococcus aureus; Shigella flexneri; Pseudomonas aeruginosa; Shigella dysenteriae Escherichia coli (chromosome or plasmid): 3; Klebsiella pneumoniae (chromosome or plasmid): 1; Acinetobacter baumannii (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; 0 Escherichia coli: 3; Klebsiella pneumoniae: 1; Acinetobacter baumannii: 1; Salmonella enterica: 1; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002660 APH(6)-Id APH(6) Strict PRM955 PS8 Visit 2 3926 "Escherichia coli strain WCHEC020031 plasmid pOXA1_020031, complete sequence" Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae; Mycobacteroides abscessus; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Pseudomonas aeruginosa; Salmonella enterica; Shigella dysenteriae; Vibrio cholerae; Shigella sonnei; Shigella flexneri; Citrobacter freundii; Vibrio parahaemolyticus; Pseudomonas putida; Mycoplasma pneumoniae; Staphylococcus aureus Escherichia coli (chromosome or plasmid): 6; Shigella sonnei (chromosome or plasmid): 3; Acinetobacter baumannii (chromosome or plasmid): 1; Vibrio cholerae (chromosome or plasmid): 1; Staphylococcus aureus (chromosome or plasmid): 1; Pseudomonas aeruginosa (chromosome or plasmid): 1; Proteus mirabilis (chromosome or plasmid): 1; 0 Escherichia coli: 6; Shigella sonnei: 3; Acinetobacter baumannii: 1; Vibrio cholerae: 1; Staphylococcus aureus: 1; Pseudomonas aeruginosa: 1; Proteus mirabilis: 1; 0 3 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Strict PRM955 PS8 Visit 2 3926 "Escherichia coli strain WCHEC020031 plasmid pOXA1_020031, complete sequence" Acinetobacter baumannii; Escherichia coli; Enterobacter hormaechei; Klebsiella pneumoniae; Providencia rettgeri; Salmonella enterica; Citrobacter freundii; Shigella flexneri; Shigella sonnei; Staphylococcus aureus; Enterobacter asburiae; Enterobacter cloacae Escherichia coli (chromosome or plasmid): 3; Salmonella enterica (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 1; 0 Escherichia coli: 3; Salmonella enterica: 2; Acinetobacter baumannii: 1; 0 1 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002639 APH(3'')-Ib APH(3'') Strict GBS153 FT1 Visit 1 4928 "Escherichia coli strain C16EC0166 plasmid pC16EC0166-1, complete sequence" Acinetobacter nosocomialis; Acinetobacter haemolyticus; Escherichia coli; Achromobacter xylosoxidans; Acinetobacter baumannii; Citrobacter amalonaticus; Citrobacter freundii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Klebsiella pneumoniae; Klebsiella oxytoca; Vibrio cholerae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Haemophilus influenzae; Staphylococcus aureus; Raoultella planticola; Enterococcus faecium Escherichia coli (chromosome or plasmid): 20; Salmonella enterica (chromosome or plasmid): 6; Vibrio cholerae (chromosome or plasmid): 4; Shigella flexneri (chromosome or plasmid): 4; Acinetobacter baumannii (chromosome or plasmid): 3; Enterobacter hormaechei (chromosome or plasmid): 3; Shigella sonnei (chromosome or plasmid): 2; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Escherichia coli: 20; Salmonella enterica: 6; Vibrio cholerae: 4; Shigella flexneri: 4; Acinetobacter baumannii: 3; Enterobacter hormaechei: 3; Shigella sonnei: 2; Klebsiella pneumoniae: 1; 0 1 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Perfect GBS153 FT1 Visit 1 4928 "Escherichia coli strain C16EC0166 plasmid pC16EC0166-1, complete sequence" Acinetobacter haemolyticus; Acinetobacter baumannii; Escherichia coli; Klebsiella pneumoniae; Salmonella enterica; Vibrio cholerae; Proteus mirabilis; Shigella sonnei; Enterobacter cloacae; Enterobacter hormaechei; Citrobacter freundii; Klebsiella aerogenes; Klebsiella oxytoca; Morganella morganii; Providencia rettgeri; Pseudomonas putida; Shigella flexneri; Pseudomonas aeruginosa; Vibrio parahaemolyticus; Serratia marcescens; Staphylococcus aureus; Legionella pneumophila; Enterobacter asburiae; Shigella dysenteriae Escherichia coli (chromosome or plasmid): 35; Acinetobacter baumannii (chromosome or plasmid): 8; Vibrio cholerae (chromosome or plasmid): 8; Shigella flexneri (chromosome or plasmid): 7; Klebsiella pneumoniae (chromosome or plasmid): 3; Salmonella enterica (chromosome or plasmid): 2; Proteus mirabilis (chromosome or plasmid): 1; Enterobacter (chromosome or plasmid): 1; 0 Escherichia coli: 35; Acinetobacter baumannii: 8; Vibrio cholerae: 8; Shigella flexneri: 7; Klebsiella pneumoniae: 3; Salmonella enterica: 2; Proteus mirabilis: 1; 0 6 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect GBS153 FT1 Visit 1 4928 "Escherichia coli strain C16EC0166 plasmid pC16EC0166-1, complete sequence" Salmonella enterica; Acinetobacter baumannii; Chlamydia trachomatis; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Raoultella planticola; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Citrobacter amalonaticus; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterococcus faecium; Haemophilus influenzae; Haemophilus parainfluenzae; Morganella morganii; Neisseria gonorrhoeae; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Shigella dysenteriae; Vibrio parahaemolyticus Escherichia coli (chromosome or plasmid): 20; Klebsiella pneumoniae (chromosome or plasmid): 6; Enterobacter hormaechei (chromosome or plasmid): 4; Streptococcus pyogenes (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 2; Pseudomonas aeruginosa (chromosome or plasmid): 2; Haemophilus parainfluenzae (chromosome or plasmid): 1; Shigella sonnei (chromosome or plasmid): 1; Neisseria gonorrhoeae (chromosome or plasmid): 1; Mycobacteroides abscessus (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; 0 Escherichia coli: 20; Klebsiella pneumoniae: 6; Enterobacter hormaechei: 4; Streptococcus pyogenes: 2; Acinetobacter baumannii: 2; Pseudomonas aeruginosa: 2; Haemophilus parainfluenzae: 1; Shigella sonnei: 1; Neisseria gonorrhoeae: 1; Mycobacteroides abscessus: 1; Salmonella enterica: 1; 0 10 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000491 acrD resistance-nodulation-cell division (RND) antibiotic efflux pump Strict PRM465 NS1 Visit 2 5410 "Escherichia coli strain NMBU-W13E19 chromosome, complete genome" Escherichia coli; Klebsiella oxytoca; Shigella sonnei; Shigella flexneri; Shigella dysenteriae Escherichia coli (chromosome): 6; Escherichia coli (chromosome or plasmid): 169; Shigella sonnei (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 1; Escherichia coli: 6; Escherichia coli: 169; Shigella sonnei: 3; Shigella flexneri: 1; 0 0 CP019906 Escherichia Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Perfect PRM534 NS5 In-hospital 3785 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter lwoffii; Acinetobacter junii; Acinetobacter nosocomialis; Klebsiella pneumoniae; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Escherichia coli; Klebsiella oxytoca; Vibrio cholerae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Ralstonia pickettii; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Acinetobacter haemolyticus; Staphylococcus aureus Escherichia coli (chromosome or plasmid): 13; Acinetobacter baumannii (chromosome or plasmid): 2; Shigella flexneri (chromosome or plasmid): 2; Vibrio cholerae (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; Providencia stuartii (chromosome or plasmid): 1; 0 Escherichia coli: 13; Acinetobacter baumannii: 2; Shigella flexneri: 2; Vibrio cholerae: 1; Klebsiella pneumoniae: 1; Providencia stuartii: 1; 0 0 CP023647 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3004290 Escherichia coli ampC beta-lactamase ampC-type beta-lactamase Strict PRM483 NS5 Visit 1 1493 "Escherichia coli strain EcPF7 chromosome, complete genome" Escherichia coli Escherichia coli (chromosome): 2; Escherichia coli (chromosome or plasmid): 6; Escherichia coli: 2; Escherichia coli: 6; 0 0 CP035011 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Perfect PRM483 NS5 Visit 1 3602 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Vibrio cholerae; Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter lwoffii; Acinetobacter junii; Acinetobacter nosocomialis; Klebsiella pneumoniae; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Escherichia coli; Klebsiella oxytoca; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Ralstonia pickettii; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Acinetobacter haemolyticus; Pseudomonas putida; Legionella pneumophila Escherichia coli (chromosome or plasmid): 15; Vibrio cholerae (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 1; Acinetobacter baumannii (chromosome or plasmid): 1; 0 Escherichia coli: 15; Vibrio cholerae: 3; Shigella flexneri: 1; Acinetobacter baumannii: 1; 0 1 CP035011 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000832 evgA major facilitator superfamily (MFS) antibiotic efflux pump; resistance-nodulation-cell division (RND) antibiotic efflux pump Perfect PRM832 NS10 Visit 2 5387 Escherichia coli strain 144 chromosome Escherichia coli; Shigella sonnei; Shigella dysenteriae; Shigella flexneri; Klebsiella pneumoniae Escherichia coli (chromosome): 1; Escherichia coli (chromosome or plasmid): 66; Shigella flexneri (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; Escherichia coli: 1; Escherichia coli: 66; Shigella flexneri: 1; Klebsiella pneumoniae: 1; 0 0 CP035352 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000833 evgS major facilitator superfamily (MFS) antibiotic efflux pump; resistance-nodulation-cell division (RND) antibiotic efflux pump Strict PRM832 NS10 Visit 2 5387 Escherichia coli strain 144 chromosome Enterobacter hormaechei; Klebsiella oxytoca; Escherichia coli; Shigella sonnei; Shigella flexneri; Klebsiella pneumoniae; Shigella dysenteriae Escherichia coli (chromosome): 5; Escherichia coli (chromosome or plasmid): 939; Shigella dysenteriae (chromosome or plasmid): 4; Shigella flexneri (chromosome or plasmid): 3; Enterobacter kobei (chromosome or plasmid): 2; Escherichia coli: 5; Escherichia coli: 939; Shigella dysenteriae: 4; Shigella flexneri: 3; Enterobacter kobei: 2; 0 0 CP035352 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect GBS394 FT7 Visit 1 4219 "Escherichia coli strain SCU-175 plasmid pSCU-175-2, complete sequence" Salmonella enterica; Acinetobacter baumannii; Chlamydia trachomatis; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Raoultella planticola; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Citrobacter amalonaticus; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterococcus faecium; Haemophilus influenzae; Haemophilus parainfluenzae; Morganella morganii; Neisseria gonorrhoeae; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Shigella dysenteriae; Vibrio parahaemolyticus Escherichia coli (chromosome or plasmid): 55; Klebsiella pneumoniae (chromosome or plasmid): 28; Haemophilus parainfluenzae (chromosome or plasmid): 3; Enterobacter hormaechei (chromosome or plasmid): 2; Shigella sonnei (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 1; Shigella flexneri (chromosome or plasmid): 1; 0 Escherichia coli: 55; Klebsiella pneumoniae: 28; Haemophilus parainfluenzae: 3; Enterobacter hormaechei: 2; Shigella sonnei: 2; Acinetobacter baumannii: 1; Shigella flexneri: 1; 0 0 CP036332 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect PRM483 NS5 Visit 1 1352 "Escherichia coli strain EcPF18 plasmid p1, complete sequence" Salmonella enterica; Acinetobacter baumannii; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Enterococcus faecium; Escherichia coli; Haemophilus influenzae; Haemophilus parainfluenzae; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Neisseria gonorrhoeae; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus Escherichia coli (chromosome or plasmid): 14; Klebsiella pneumoniae (chromosome or plasmid): 6; Enterobacter hormaechei (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 2; Pseudomonas aeruginosa (chromosome or plasmid): 1; Acinetobacter baumannii (chromosome or plasmid): 1; 0 Escherichia coli: 14; Klebsiella pneumoniae: 6; Enterobacter hormaechei: 2; Salmonella enterica: 2; Pseudomonas aeruginosa: 1; Acinetobacter baumannii: 1; 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3001877 CTX-M-14 CTX-M beta-lactamase Perfect PRM483 NS5 Visit 1 2391 "Escherichia coli strain 631 chromosome, complete genome" Escherichia coli; Citrobacter freundii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio parahaemolyticus; Klebsiella aerogenes 0 0 0 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002605 aadA5 ANT(3'') Perfect PRM839 NS5 Visit 4 4150 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Escherichia coli; Acinetobacter baumannii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Yersinia enterocolitica; Serratia marcescens Escherichia coli (chromosome or plasmid): 82; 0 Escherichia coli: 82; 0 1 CP042486 Corynebacterium Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002860 dfrA17 trimethoprim resistant dihydrofolate reductase dfr Perfect PRM839 NS5 Visit 4 4150 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Pseudomonas aeruginosa; Acinetobacter baumannii; Citrobacter freundii; Escherichia coli; Enterobacter hormaechei; Klebsiella pneumoniae; Shigella sonnei; Citrobacter amalonaticus; Enterobacter cloacae; Morganella morganii; Proteus mirabilis; Salmonella enterica; Burkholderia cenocepacia; Klebsiella aerogenes; Shigella dysenteriae; Shigella flexneri; Yersinia enterocolitica; Providencia rettgeri; Klebsiella oxytoca Escherichia coli (chromosome or plasmid): 33; Klebsiella pneumoniae (chromosome or plasmid): 3; 0 Escherichia coli: 33; Klebsiella pneumoniae: 3; 0 0 CP042486 Corynebacterium Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3004623 AAC(3)-IId AAC(3) Perfect PRM483 NS5 Visit 1 8112 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Escherichia coli; Acinetobacter baumannii; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio cholerae; Proteus vulgaris Klebsiella pneumoniae (chromosome or plasmid): 11; Pseudomonas aeruginosa (chromosome or plasmid): 2; Escherichia coli (chromosome or plasmid): 2; 0 Klebsiella pneumoniae: 11; Pseudomonas aeruginosa: 2; Escherichia coli: 2; 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002605 aadA5 ANT(3'') Perfect PRM483 NS5 Visit 1 8112 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Escherichia coli; Acinetobacter baumannii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Yersinia enterocolitica; Serratia marcescens Escherichia coli (chromosome or plasmid): 115; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Escherichia coli: 115; Klebsiella pneumoniae: 1; 0 2 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002860 dfrA17 trimethoprim resistant dihydrofolate reductase dfr Strict PRM483 NS5 Visit 1 8112 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Pseudomonas aeruginosa; Acinetobacter baumannii; Citrobacter freundii; Escherichia coli; Enterobacter hormaechei; Klebsiella pneumoniae; Shigella sonnei; Citrobacter amalonaticus; Enterobacter cloacae; Morganella morganii; Proteus mirabilis; Salmonella enterica; Burkholderia cenocepacia; Klebsiella aerogenes; Shigella dysenteriae; Shigella flexneri; Yersinia enterocolitica; Providencia rettgeri; Klebsiella oxytoca Escherichia coli (chromosome or plasmid): 46; Klebsiella pneumoniae (chromosome or plasmid): 10; Enterobacter hormaechei (chromosome or plasmid): 1; 0 Escherichia coli: 46; Klebsiella pneumoniae: 10; Enterobacter hormaechei: 1; 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002854 dfrA1 trimethoprim resistant dihydrofolate reductase dfr Strict PRM845 PS2 Visit 1 1937 "Escherichia coli strain AH01 chromosome, complete genome" Klebsiella oxytoca; Acinetobacter baumannii; Acinetobacter lwoffii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio vulnificus; Yersinia enterocolitica; Enterobacter asburiae; Klebsiella aerogenes; Raoultella planticola Escherichia coli (chromosome or plasmid): 6; Klebsiella pneumoniae (chromosome or plasmid): 5; Providencia rettgeri (chromosome or plasmid): 2; Shigella flexneri (chromosome or plasmid): 2; Proteus mirabilis (chromosome or plasmid): 1; 0 Escherichia coli: 6; Klebsiella pneumoniae: 5; Providencia rettgeri: 2; Shigella flexneri: 2; Proteus mirabilis: 1; 0 0 FR687372 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002854 dfrA1 trimethoprim resistant dihydrofolate reductase dfr Strict PRM850 PS1 Visit 1 2223 "Escherichia coli strain AH01 chromosome, complete genome" Klebsiella oxytoca; Acinetobacter baumannii; Acinetobacter lwoffii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio vulnificus; Yersinia enterocolitica; Enterobacter asburiae; Klebsiella aerogenes; Raoultella planticola Escherichia coli (chromosome or plasmid): 5; Klebsiella pneumoniae (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 2; Proteus mirabilis (chromosome or plasmid): 2; Klebsiella aerogenes (chromosome or plasmid): 1; 0 Escherichia coli: 5; Klebsiella pneumoniae: 3; Shigella flexneri: 2; Proteus mirabilis: 2; Klebsiella aerogenes: 1; 0 0 FR687372 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002854 dfrA1 trimethoprim resistant dihydrofolate reductase dfr Strict PRM878 PS1 Visit 2 2305 "Escherichia coli strain AH01 chromosome, complete genome" Klebsiella oxytoca; Acinetobacter baumannii; Acinetobacter lwoffii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio vulnificus; Yersinia enterocolitica; Enterobacter asburiae; Klebsiella aerogenes; Raoultella planticola Escherichia coli (chromosome or plasmid): 4; Shigella flexneri (chromosome or plasmid): 2; Klebsiella aerogenes (chromosome or plasmid): 2; Proteus mirabilis (chromosome or plasmid): 1; Shigella sonnei (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Escherichia coli: 4; Shigella flexneri: 2; Klebsiella aerogenes: 2; Proteus mirabilis: 1; Shigella sonnei: 1; Klebsiella pneumoniae: 1; 0 0 FR687372 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect PRM298 NS1 In-hospital 1438 "Escherichia coli strain EcPF18 plasmid p1, complete sequence" Escherichia coli Escherichia coli (chromosome or plasmid): 1; 0 Escherichia coli: 1; 0 0 KJ842484 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect PRM587 NS12 In-hospital 1914 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Salmonella enterica; Acinetobacter baumannii; Enterobacter cloacae; Escherichia coli; Klebsiella pneumoniae; Pseudomonas putida; Serratia marcescens; Shigella dysenteriae; Shigella sonnei; Vibrio cholerae; Haemophilus parainfluenzae; Enterobacter hormaechei; Citrobacter freundii; Providencia rettgeri; Enterobacter asburiae; Neisseria gonorrhoeae; Shigella flexneri; Haemophilus influenzae; Klebsiella aerogenes; Proteus mirabilis Escherichia coli (chromosome or plasmid): 11; Klebsiella pneumoniae (chromosome or plasmid): 9; Mycobacteroides abscessus (chromosome or plasmid): 2; Enterobacter hormaechei (chromosome or plasmid): 1; Shigella sonnei (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; Acinetobacter baumannii (chromosome or plasmid): 1; Streptococcus pyogenes (chromosome or plasmid): 1; 0 Escherichia coli: 11; Klebsiella pneumoniae: 9; Mycobacteroides abscessus: 2; Enterobacter hormaechei: 1; Shigella sonnei: 1; Salmonella enterica: 1; Acinetobacter baumannii: 1; Streptococcus pyogenes: 1; 0 0 KJ842484 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect PRM917 PS7 Visit 1 2051 "Escherichia coli strain SCU-175 plasmid pSCU-175-2, complete sequence" Acinetobacter baumannii; Haemophilus parainfluenzae; Enterobacter hormaechei; Enterobacter asburiae; Escherichia coli; Klebsiella pneumoniae; Salmonella enterica; Shigella sonnei; Citrobacter freundii; Enterobacter cloacae; Enterobacter kobei; Klebsiella aerogenes; Serratia marcescens; Neisseria gonorrhoeae; Shigella dysenteriae; Shigella flexneri; Vibrio cholerae; Haemophilus influenzae Escherichia coli (chromosome or plasmid): 3; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Escherichia coli: 3; Klebsiella pneumoniae: 1; 0 1 KJ842484 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002639 APH(3'')-Ib APH(3'') Strict PRM833 NS10 Visit 3 1918 "Klebsiella pneumoniae strain M297-1 plasmid pM297-1.1, complete sequence" Acinetobacter nosocomialis; Acinetobacter haemolyticus; Escherichia coli; Acinetobacter baumannii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Proteus mirabilis; Salmonella enterica; Serratia marcescens; Klebsiella pneumoniae; Shigella sonnei; Raoultella planticola; Shigella flexneri Escherichia coli (chromosome or plasmid): 1; 0 Escherichia coli: 1; 0 0 KP143090 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect PRM908 NS2 Visit 4 2109 "Escherichia coli strain SCU-105 plasmid pSCU-105-2, complete sequence" Salmonella enterica; Acinetobacter baumannii; Enterobacter cloacae; Escherichia coli; Klebsiella pneumoniae; Pseudomonas putida; Serratia marcescens; Shigella dysenteriae; Shigella sonnei; Vibrio cholerae; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Enterococcus faecium; Haemophilus influenzae; Haemophilus parainfluenzae; Klebsiella oxytoca; Morganella morganii; Neisseria gonorrhoeae; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Shigella flexneri; Vibrio parahaemolyticus Escherichia coli (chromosome or plasmid): 21; Klebsiella pneumoniae (chromosome or plasmid): 9; Enterobacter hormaechei (chromosome or plasmid): 3; Acinetobacter baumannii (chromosome or plasmid): 3; Shigella sonnei (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 1; 0 Escherichia coli: 21; Klebsiella pneumoniae: 9; Enterobacter hormaechei: 3; Acinetobacter baumannii: 3; Shigella sonnei: 2; Salmonella enterica: 1; 0 0 LT985233 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3004290 Escherichia coli ampC beta-lactamase ampC-type beta-lactamase Strict PRM427 NS10 In-hospital 1630 "Escherichia coli strain EcPF40 chromosome, complete genome" Escherichia coli; Shigella flexneri Escherichia coli (chromosome): 2; Escherichia coli (chromosome or plasmid): 9; Escherichia coli: 2; Escherichia coli: 9; 0 0 LT985307 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002601 aadA ANT(3'') Strict PRM495 NS3 Visit 2 3353 Enterobacter hormaechei strain AUH-ENM30 chromosome Escherichia coli; Acinetobacter baumannii; Acinetobacter nosocomialis; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella pneumoniae; Klebsiella aerogenes; Klebsiella oxytoca; Morganella morganii; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella sonnei; Yersinia enterocolitica; Enterobacter kobei; Vibrio cholerae; Shigella flexneri Escherichia coli (chromosome or plasmid): 3; 0 Escherichia coli: 3; 0 0 NC_010500 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3004290 Escherichia coli ampC beta-lactamase ampC-type beta-lactamase Strict PRM587 NS12 In-hospital 1928 "Escherichia coli strain EcPF40 chromosome, complete genome" Escherichia coli Escherichia coli (chromosome): 3; Escherichia coli (chromosome or plasmid): 12; Escherichia coli: 3; Escherichia coli: 12; 0 0 NC_011795 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002639 APH(3'')-Ib APH(3'') Strict PRM431 NS1 Visit 1 3033 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas aeruginosa; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Acinetobacter junii; Providencia rettgeri; Yersinia enterocolitica; Staphylococcus aureus; Proteus vulgaris; Shigella dysenteriae Escherichia coli (chromosome or plasmid): 4; Klebsiella pneumoniae (chromosome or plasmid): 4; Salmonella enterica (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 2; 0 Escherichia coli: 4; Klebsiella pneumoniae: 4; Salmonella enterica: 3; Shigella flexneri: 2; 0 0 NC_011795 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Strict PRM431 NS1 Visit 1 3033 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Acinetobacter baumannii; Shigella sonnei; Escherichia coli; Salmonella enterica; Klebsiella pneumoniae; Enterobacter hormaechei; Providencia rettgeri; Citrobacter freundii; Shigella flexneri; Vibrio cholerae; Proteus mirabilis; Providencia stuartii; Klebsiella aerogenes; Shigella dysenteriae Escherichia coli (chromosome or plasmid): 3; Klebsiella pneumoniae (chromosome or plasmid): 2; 0 Escherichia coli: 3; Klebsiella pneumoniae: 2; 0 0 NC_011795 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Perfect PRM587 NS12 In-hospital 3081 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Acinetobacter baumannii; Escherichia coli; Klebsiella pneumoniae; Proteus mirabilis; Salmonella enterica; Shigella sonnei; Enterobacter hormaechei; Citrobacter freundii; Enterobacter cloacae; Klebsiella aerogenes; Klebsiella oxytoca; Morganella morganii; Providencia rettgeri; Pseudomonas putida; Shigella flexneri; Vibrio cholerae; Vibrio parahaemolyticus; Legionella pneumophila; Providencia stuartii; Enterobacter asburiae Escherichia coli (chromosome or plasmid): 24; Acinetobacter baumannii (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 2; Klebsiella pneumoniae (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; 0 Escherichia coli: 24; Acinetobacter baumannii: 3; Shigella flexneri: 2; Klebsiella pneumoniae: 1; Salmonella enterica: 1; 0 0 NC_011795 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002859 dfrA14 trimethoprim resistant dihydrofolate reductase dfr Strict PRM956 PS8 Visit 3 1402 "Escherichia coli strain NMBU-W13E19 plasmid pNMBU-W13E19_01, complete sequence" Citrobacter freundii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Yersinia enterocolitica; Raoultella planticola Klebsiella pneumoniae (chromosome or plasmid): 6; 0 Klebsiella pneumoniae: 6; 0 2 NC_019070 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000832 evgA major facilitator superfamily (MFS) antibiotic efflux pump; resistance-nodulation-cell division (RND) antibiotic efflux pump Perfect PRM956 PS8 Visit 3 4929 "Escherichia coli E138 DNA, complete genome" Escherichia coli; Shigella sonnei; Klebsiella pneumoniae Escherichia coli (chromosome): 1; Escherichia coli (chromosome or plasmid): 14; Escherichia coli: 1; Escherichia coli: 14; 0 0 NC_019070 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000833 evgS major facilitator superfamily (MFS) antibiotic efflux pump; resistance-nodulation-cell division (RND) antibiotic efflux pump Strict PRM956 PS8 Visit 3 4929 "Escherichia coli E138 DNA, complete genome" Klebsiella oxytoca; Shigella sonnei; Escherichia coli; Shigella dysenteriae Escherichia coli (chromosome): 8; Escherichia coli (chromosome or plasmid): 154; Escherichia coli: 8; Escherichia coli: 154; 0 0 NC_019070 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000873 TEM-1 TEM beta-lactamase Perfect PRM465 NS1 Visit 2 2792 "Escherichia coli strain SCU-308 plasmid pSCU-308-1, complete sequence" Salmonella enterica; Acinetobacter baumannii; Chlamydia trachomatis; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Raoultella planticola; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Citrobacter amalonaticus; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterococcus faecium; Haemophilus influenzae; Haemophilus parainfluenzae; Morganella morganii; Neisseria gonorrhoeae; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Shigella dysenteriae; Vibrio parahaemolyticus Escherichia coli (chromosome or plasmid): 7; Shigella sonnei (chromosome or plasmid): 1; Shigella flexneri (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; Escherichia coli (plasmid): 1; 0 Escherichia coli: 7; Shigella sonnei: 1; Shigella flexneri: 1; Klebsiella pneumoniae: 1; Escherichia coli: 1; 0 NC_019091 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000316 mphA macrolide phosphotransferase (MPH) Perfect PRM465 NS1 Visit 2 3029 "Escherichia coli strain AH62 plasmid pAH62-3, complete sequence" Acinetobacter baumannii; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella pneumoniae; Klebsiella aerogenes; Klebsiella oxytoca; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae Escherichia coli (chromosome or plasmid): 17; Klebsiella pneumoniae (chromosome or plasmid): 1; Escherichia coli (plasmid): 1; 0 Escherichia coli: 17; Klebsiella pneumoniae: 1; Escherichia coli: 1; 0 NC_019091 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002639 APH(3'')-Ib APH(3'') Strict PRM465 NS1 Visit 2 4182 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Acinetobacter haemolyticus; Escherichia coli; Acinetobacter baumannii; Enterobacter hormaechei; Klebsiella pneumoniae; Salmonella enterica; Enterobacter cloacae; Proteus mirabilis; Acinetobacter junii; Shigella flexneri; Burkholderia cepacia; Enterobacter asburiae; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Serratia marcescens; Shigella sonnei; Providencia rettgeri; Shigella dysenteriae; Vibrio cholerae; Staphylococcus aureus; Pseudomonas aeruginosa Escherichia coli (chromosome or plasmid): 4; Acinetobacter baumannii (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 2; Vibrio cholerae (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Escherichia coli: 4; Acinetobacter baumannii: 2; Salmonella enterica: 2; Vibrio cholerae: 1; Klebsiella pneumoniae: 1; 0 NC_019091 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002660 APH(6)-Id APH(6) Strict PRM465 NS1 Visit 2 4182 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Vibrio vulnificus; Mycoplasma pneumoniae; Staphylococcus aureus Escherichia coli (chromosome or plasmid): 7; Shigella flexneri (chromosome or plasmid): 3; Shigella sonnei (chromosome or plasmid): 3; Acinetobacter baumannii (chromosome or plasmid): 2; Klebsiella pneumoniae (chromosome or plasmid): 2; Vibrio cholerae (chromosome or plasmid): 2; Staphylococcus aureus (chromosome or plasmid): 1; Shigella sonnei (plasmid): 2; 0 Escherichia coli: 7; Shigella flexneri: 3; Shigella sonnei: 3; Acinetobacter baumannii: 2; Klebsiella pneumoniae: 2; Vibrio cholerae: 2; Staphylococcus aureus: 1; Shigella sonnei: 2; 13 NC_019091 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000412 sul2 sulfonamide resistant sul Strict PRM465 NS1 Visit 2 4182 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Acinetobacter baumannii; Enterobacter hormaechei; Citrobacter freundii; Enterobacter cloacae; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas putida; Salmonella enterica; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Staphylococcus aureus; Legionella pneumophila; Providencia stuartii; Vibrio parahaemolyticus Escherichia coli (chromosome or plasmid): 6; Klebsiella pneumoniae (chromosome or plasmid): 2; Shigella flexneri (chromosome or plasmid): 2; 0 Escherichia coli: 6; Klebsiella pneumoniae: 2; Shigella flexneri: 2; 0 1 NC_019091 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002660 APH(6)-Id APH(6) Strict PRM795 NS12 Visit 3 3176 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Acinetobacter lwoffii; Mycobacteroides abscessus; Proteus vulgaris; Mycoplasma pneumoniae; Staphylococcus aureus Klebsiella pneumoniae (chromosome or plasmid): 22; Escherichia coli (chromosome or plasmid): 12; Shigella flexneri (chromosome or plasmid): 6; Acinetobacter baumannii (chromosome or plasmid): 4; Salmonella enterica (chromosome or plasmid): 4; Vibrio cholerae (chromosome or plasmid): 3; Enterobacter hormaechei (chromosome or plasmid): 3; Pseudomonas aeruginosa (chromosome or plasmid): 2; Shigella sonnei (plasmid): 1; Klebsiella pneumoniae (plasmid): 1; Shigella (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 22; Escherichia coli: 12; Shigella flexneri: 6; Acinetobacter baumannii: 4; Salmonella enterica: 4; Vibrio cholerae: 3; Enterobacter hormaechei: 3; Pseudomonas aeruginosa: 2; Shigella sonnei: 1; Klebsiella pneumoniae: 1; 4 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001117 SHV-62 SHV beta-lactamases Perfect PRM587 NS12 In-Hospital 1847 "Klebsiella pneumoniae strain ATCC 35657, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 37; 0 Klebsiella pneumoniae: 37; 0 0 CP015133 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001090 SHV-32 SHV beta-lactamases Perfect PRM484 NS4 Visit 2 2087 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 138; 0 Klebsiella pneumoniae: 138; 0 0 CP015133 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001090 SHV-32 SHV beta-lactamases Perfect PRM787 NS6 Visit 4 2895 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 13; Klebsiella pneumoniae (chromosome or plasmid): 1015; Klebsiella pneumoniae: 13; Klebsiella pneumoniae: 1015; 0 0 CP015133 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001090 SHV-32 SHV beta-lactamases Strict PRM507 NS3 Visit 3 3055 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 87; Klebsiella pneumoniae (chromosome or plasmid): 1474; Acinetobacter baumannii (chromosome or plasmid): 15; Klebsiella pneumoniae: 87; Klebsiella pneumoniae: 1474; Acinetobacter baumannii: 15; 0 0 CP015133 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001090 SHV-32 SHV beta-lactamases Perfect PRM501 NS6 Visit 2 3420 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 6; Klebsiella pneumoniae (chromosome or plasmid): 729; Klebsiella pneumoniae: 6; Klebsiella pneumoniae: 729; 0 0 CP015133 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001090 SHV-32 SHV beta-lactamases Perfect PRM775 NS3 Visit 4 2873 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 6; Klebsiella pneumoniae (chromosome or plasmid): 491; Klebsiella pneumoniae: 6; Klebsiella pneumoniae: 491; 0 0 CP022918 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002547 AAC(6')-Ib-cr AAC(6') Perfect PRM807 PS3 In-hospital 1422 "Klebsiella pneumoniae strain GH27TC plasmid pGH27TC_fusion, complete sequence" Citrobacter amalonaticus; Citrobacter freundii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Pseudomonas aeruginosa; Salmonella enterica; Shigella flexneri Klebsiella pneumoniae (chromosome or plasmid): 5; Enterobacter hormaechei (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 5; Enterobacter hormaechei: 1; 0 0 CP035352 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002848 arr-3 rifampin ADP-ribosyltransferase (Arr) Perfect PRM807 PS3 In-hospital 1422 "Klebsiella pneumoniae strain GH27TC plasmid pGH27TC_fusion, complete sequence" Escherichia coli; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Vibrio cholerae; Vibrio parahaemolyticus Klebsiella pneumoniae (chromosome or plasmid): 2; 0 Klebsiella pneumoniae: 2; 0 0 CP035352 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3004848 LEN-55 LEN beta-lactamase Strict PRM483 NS5 Visit 1 1325 "Klebsiella variicola strain AJ055 genome assembly, chromosome: 1" Klebsiella pneumoniae 0 0 0 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002428 OKP-A-11 OKP beta-lactamases Strict PRM938 PS3 Visit 3 1368 "Klebsiella quasipneumoniae DNA, complete genome, strain: WP4-S18-ESBL-06" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 46; Klebsiella pneumoniae: 46; 0 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002547 AAC(6')-Ib-cr AAC(6') Perfect PRM939 PS1 Visit 3 1454 "Klebsiella pneumoniae strain GH27TC plasmid pGH27TC_fusion, complete sequence" Enterobacter hormaechei; Escherichia coli; Citrobacter freundii; Morganella morganii; Klebsiella pneumoniae 0 0 0 0 0 CP042486 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002547 AAC(6')-Ib-cr AAC(6') Perfect PRM837 PS3 Visit 1 2366 "Klebsiella pneumoniae strain GH27TC plasmid pGH27TC_fusion, complete sequence" Escherichia coli; Enterobacter hormaechei; Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 1; 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002616 aadA16 ANT(3'') Strict PRM837 PS3 Visit 1 2366 "Klebsiella pneumoniae strain GH27TC plasmid pGH27TC_fusion, complete sequence" Acinetobacter baumannii; Citrobacter freundii; Enterobacter asburiae; Enterobacter hormaechei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Vibrio parahaemolyticus; Enterobacter cloacae Klebsiella pneumoniae (chromosome or plasmid): 1; Klebsiella pneumoniae (plasmid): 1; 0 Klebsiella pneumoniae: 1; Klebsiella pneumoniae: 1; 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002848 arr-3 rifampin ADP-ribosyltransferase (Arr) Strict PRM837 PS3 Visit 1 2366 "Klebsiella pneumoniae strain GH27TC plasmid pGH27TC_fusion, complete sequence" Escherichia coli; Citrobacter freundii; Salmonella enterica; Enterobacter asburiae; Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 1; 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002428 OKP-A-11 OKP beta-lactamases Strict PRM807 PS3 In-Hospital 4719 "Klebsiella quasipneumoniae strain JNQH473 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 2515; Klebsiella pneumoniae: 2515; 0 0 0 CP042486 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001059 SHV-1 SHV beta-lactamases Perfect PRM774 NS4 Visit 4 1984 "Klebsiella pneumoniae strain Bckp206 chromosome, complete genome" Klebsiella pneumoniae; Acinetobacter baumannii; Escherichia coli; Klebsiella oxytoca; Klebsiella aerogenes Klebsiella pneumoniae (chromosome or plasmid): 2; 0 Klebsiella pneumoniae: 2; 0 0 FM180570 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3004111 FosA6 fosfomycin thiol transferase Strict PRM587 NS12 In-hospital 1624 "Klebsiella pneumoniae strain RHBSTW-00610 chromosome, complete genome" Escherichia coli; Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 8; 0 Klebsiella pneumoniae: 8; 0 0 KJ842484 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3004111 FosA6 fosfomycin thiol transferase Strict PRM774 NS4 Visit 4 1756 "Klebsiella pneumoniae subsp. pneumoniae RTE-E3 DNA, complete genome: sequence1" Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae; Klebsiella aerogenes Klebsiella aerogenes (chromosome): 1; Klebsiella pneumoniae (chromosome or plasmid): 6; Klebsiella (chromosome or plasmid): 1; Klebsiella aerogenes: 1; Klebsiella pneumoniae: 6; 0 0 KJ842484 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001090 SHV-32 SHV beta-lactamases Strict PRM417 NS2 In-Hospital 5158 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 14; Klebsiella pneumoniae (chromosome or plasmid): 531; Acinetobacter baumannii (chromosome or plasmid): 2; Klebsiella pneumoniae: 14; Klebsiella pneumoniae: 531; Acinetobacter baumannii: 2; 0 0 LT985233 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002438 OKP-B-5 OKP beta-lactamases Perfect PRM640 NS13 Visit 1 4413 "Klebsiella quasipneumoniae strain NCTC11357 genome assembly, chromosome: 1" Klebsiella pneumoniae; Escherichia coli Klebsiella pneumoniae (chromosome): 129; Klebsiella pneumoniae: 129; 0 0 0 MF150122 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002428 OKP-A-11 OKP beta-lactamases Strict GBS162 FT3 Visit 1 3213 "Klebsiella quasipneumoniae strain A708 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 1146; Klebsiella pneumoniae: 1146; 0 0 0 NC_010500 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3005010 qacEdelta1 major facilitator superfamily (MFS) antibiotic efflux pump Perfect GBS162 FT3 Visit 1 3612 "Klebsiella pneumoniae strain AR_0126 plasmid tig00000001, complete sequence" Pseudomonas aeruginosa Klebsiella pneumoniae (chromosome or plasmid): 77; 0 Klebsiella pneumoniae: 77; 0 5 NC_010500 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001059 SHV-1 SHV beta-lactamases Perfect PRM495 NS3 Visit 2 1382 "Klebsiella pneumoniae subsp. pneumoniae strain 11219 chromosome, complete gen" Klebsiella pneumoniae 0 0 0 0 0 NC_011795 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3004089 ANT(3'')-IIa ANT(3'') Strict GBS162 FT3 Visit 1 3612 "Klebsiella pneumoniae strain AR_0126 plasmid tig00000001, complete sequence" Escherichia coli; Acinetobacter nosocomialis; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella oxytoca; Klebsiella pneumoniae; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas stutzeri; Vibrio cholerae; Acinetobacter baumannii; Salmonella enterica; Serratia marcescens; Shigella sonnei; Enterobacter asburiae; Proteus mirabilis; Enterobacter kobei; Klebsiella aerogenes; Shigella flexneri Shigella sonnei (chromosome or plasmid): 658; Escherichia coli (chromosome or plasmid): 98; Klebsiella pneumoniae (chromosome or plasmid): 17; Salmonella enterica (chromosome or plasmid): 14; Proteus mirabilis (chromosome or plasmid): 5; Pseudomonas aeruginosa (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 2; Enterobacter hormaechei (chromosome or plasmid): 1; Shigella sonnei (plasmid): 55; Acinetobacter baumannii (plasmid): 3; Salmonella enterica (plasmid): 1; 0 Shigella sonnei: 658; Escherichia coli: 98; Klebsiella pneumoniae: 17; Salmonella enterica: 14; Proteus mirabilis: 5; Pseudomonas aeruginosa: 2; Acinetobacter baumannii: 2; Enterobacter hormaechei: 1; Shigella sonnei: 55; Acinetobacter baumannii: 3; Salmonella enterica: 1; 34 NC_010500 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002605 aadA5 ANT(3'') Perfect PRM465 NS1 Visit 2 6071 "Escherichia coli strain 2017C-4173W12 plasmid p2017C-4173W12, complete sequence" Escherichia coli; Acinetobacter baumannii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Yersinia enterocolitica; Serratia marcescens Escherichia coli (chromosome or plasmid): 28; 0 Escherichia coli: 28; 0 1 NC_019091 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002639 APH(3'')-Ib APH(3'') Strict PRM795 NS12 Visit 3 3176 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Citrobacter amalonaticus; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Shigella dysenteriae; Stenotrophomonas maltophilia; Acinetobacter junii; Burkholderia cepacia; Pseudomonas stutzeri; Yersinia enterocolitica; Staphylococcus aureus Salmonella enterica (chromosome or plasmid): 10; Klebsiella pneumoniae (chromosome or plasmid): 8; Shigella flexneri (chromosome or plasmid): 7; Escherichia coli (chromosome or plasmid): 6; Pseudomonas aeruginosa (chromosome or plasmid): 5; Shigella sonnei (chromosome or plasmid): 3; Acinetobacter baumannii (chromosome or plasmid): 3; Vibrio cholerae (chromosome or plasmid): 2; Enterobacter hormaechei (chromosome or plasmid): 2; 0 Salmonella enterica: 10; Klebsiella pneumoniae: 8; Shigella flexneri: 7; Escherichia coli: 6; Pseudomonas aeruginosa: 5; Shigella sonnei: 3; Acinetobacter baumannii: 3; Vibrio cholerae: 2; Enterobacter hormaechei: 2; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002639 APH(3'')-Ib APH(3'') Strict PRM839 NS5 Visit 4 3253 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Acinetobacter junii; Providencia rettgeri; Yersinia enterocolitica; Shigella dysenteriae; Proteus vulgaris; Staphylococcus aureus Acinetobacter junii (chromosome or plasmid): 8; Escherichia coli (chromosome or plasmid): 4; Klebsiella pneumoniae (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 1; Acinetobacter baumannii (chromosome or plasmid): 1; 0 Acinetobacter junii: 8; Escherichia coli: 4; Klebsiella pneumoniae: 3; Shigella flexneri: 2; Salmonella enterica: 1; Acinetobacter baumannii: 1; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria None None None 3002639 APH(3'')-Ib APH(3'') Strict PRM534 NS5 In-hospital 3785 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter nosocomialis; Achromobacter xylosoxidans; Acinetobacter lwoffii; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas aeruginosa; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Citrobacter amalonaticus; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Shigella dysenteriae; Stenotrophomonas maltophilia; Acinetobacter junii; Burkholderia cepacia; Pseudomonas stutzeri; Yersinia enterocolitica; Staphylococcus aureus Acinetobacter junii (chromosome or plasmid): 34; Escherichia coli (chromosome or plasmid): 9; Shigella flexneri (chromosome or plasmid): 4; Salmonella enterica (chromosome or plasmid): 3; Vibrio cholerae (chromosome or plasmid): 3; Klebsiella pneumoniae (chromosome or plasmid): 3; Shigella sonnei (chromosome or plasmid): 1; Acinetobacter baumannii (chromosome or plasmid): 1; 0 Acinetobacter junii: 34; Escherichia coli: 9; Shigella flexneri: 4; Salmonella enterica: 3; Vibrio cholerae: 3; Klebsiella pneumoniae: 3; Shigella sonnei: 1; Acinetobacter baumannii: 1; 0 1 CP023647 Enterobacteriaceae Gammaproteobacteria None None None 3002639 APH(3'')-Ib APH(3'') Strict PRM483 NS5 Visit 1 3602 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Citrobacter amalonaticus; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Shigella dysenteriae; Stenotrophomonas maltophilia; Acinetobacter junii; Burkholderia cepacia; Pseudomonas stutzeri; Yersinia enterocolitica Acinetobacter junii (chromosome or plasmid): 11; Escherichia coli (chromosome or plasmid): 10; Salmonella enterica (chromosome or plasmid): 4; Vibrio cholerae (chromosome or plasmid): 3; Acinetobacter baumannii (chromosome or plasmid): 2; Shigella sonnei (chromosome or plasmid): 1; Shigella flexneri (chromosome or plasmid): 1; Enterobacter hormaechei (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Acinetobacter junii: 11; Escherichia coli: 10; Salmonella enterica: 4; Vibrio cholerae: 3; Acinetobacter baumannii: 2; Shigella sonnei: 1; Shigella flexneri: 1; Enterobacter hormaechei: 1; Klebsiella pneumoniae: 1; 0 0 CP035011 Enterobacteriaceae Gammaproteobacteria None None None 3002639 APH(3'')-Ib APH(3'') Strict PRM774 NS4 Visit 4 3278 "Haemophilus influenzae CHBN-V-3 DNA, complete genome" Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas aeruginosa; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Shigella dysenteriae Klebsiella pneumoniae (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 2; Acinetobacter baumannii: 1; 0 0 FM180570 Gammaproteobacteria Gammaproteobacteria None None None 3002639 APH(3'')-Ib APH(3'') Strict PRM933 NS13 Visit 4 3673 "Corynebacterium urealyticum strain NCTC12011 genome assembly, chromosome: 1" Acinetobacter nosocomialis; Acinetobacter baumannii; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Klebsiella pneumoniae; Salmonella enterica; Pseudomonas aeruginosa; Acinetobacter junii; Enterobacter asburiae; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Proteus mirabilis; Serratia marcescens; Providencia rettgeri; Shigella sonnei; Vibrio cholerae; Staphylococcus aureus; Shigella flexneri; Shigella dysenteriae Escherichia coli (chromosome or plasmid): 1; Pseudomonas aeruginosa (chromosome or plasmid): 1; Enterobacter hormaechei (chromosome or plasmid): 1; 0 Escherichia coli: 1; Pseudomonas aeruginosa: 1; Enterobacter hormaechei: 1; 0 0 FN825254 Corynebacterium None None None None 3002639 APH(3'')-Ib APH(3'') Strict PRM298 NS1 In-hospital 1326 "Escherichia coli strain E706 plasmid pLKJULY7989, complete sequence" Acinetobacter haemolyticus; Escherichia coli; Shigella sonnei; Klebsiella pneumoniae; Salmonella enterica 0 0 0 0 0 KJ842484 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002639 APH(3'')-Ib APH(3'') Strict PRM507 NS3 Visit 3 3023 "Haemophilus influenzae CHBN-V-3 DNA, complete genome" Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter nosocomialis; Achromobacter xylosoxidans; Acinetobacter lwoffii; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas aeruginosa; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Citrobacter amalonaticus; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Shigella dysenteriae; Stenotrophomonas maltophilia; Acinetobacter junii; Burkholderia cepacia; Yersinia enterocolitica; Staphylococcus aureus Escherichia coli (chromosome or plasmid): 10; Shigella flexneri (chromosome or plasmid): 9; Klebsiella pneumoniae (chromosome or plasmid): 5; Acinetobacter baumannii (chromosome or plasmid): 4; Shigella sonnei (chromosome or plasmid): 3; Vibrio cholerae (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 1; Enterobacter hormaechei (chromosome or plasmid): 1; Pseudomonas aeruginosa (chromosome or plasmid): 1; Raoultella planticola (chromosome or plasmid): 1; 0 Escherichia coli: 10; Shigella flexneri: 9; Klebsiella pneumoniae: 5; Acinetobacter baumannii: 4; Shigella sonnei: 3; Vibrio cholerae: 2; Salmonella enterica: 1; Enterobacter hormaechei: 1; Pseudomonas aeruginosa: 1; Raoultella planticola: 1; 0 0 NC_011795 Gammaproteobacteria Gammaproteobacteria None None None 3002639 APH(3'')-Ib APH(3'') Strict PRM587 NS12 In-hospital 3081 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Pseudomonas aeruginosa; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter nosocomialis; Achromobacter xylosoxidans; Acinetobacter lwoffii; Burkholderia cenocepacia; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Mycobacteroides abscessus; Proteus mirabilis; Pseudomonas fluorescens; Pseudomonas putida; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus; Citrobacter amalonaticus; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Shigella dysenteriae; Stenotrophomonas maltophilia; Acinetobacter junii; Burkholderia cepacia; Pseudomonas stutzeri; Yersinia enterocolitica Escherichia coli (chromosome or plasmid): 13; Klebsiella pneumoniae (chromosome or plasmid): 5; Pseudomonas aeruginosa (chromosome or plasmid): 4; Acinetobacter baumannii (chromosome or plasmid): 4; Salmonella enterica (chromosome or plasmid): 3; Shigella flexneri (chromosome or plasmid): 2; Proteus mirabilis (chromosome or plasmid): 1; Enterobacter hormaechei (chromosome or plasmid): 1; Acinetobacter junii (chromosome or plasmid): 1; Shigella sonnei (chromosome or plasmid): 1; Raoultella planticola (chromosome or plasmid): 1; 0 Escherichia coli: 13; Klebsiella pneumoniae: 5; Pseudomonas aeruginosa: 4; Acinetobacter baumannii: 4; Salmonella enterica: 3; Shigella flexneri: 2; Proteus mirabilis: 1; Enterobacter hormaechei: 1; Acinetobacter junii: 1; Shigella sonnei: 1; Raoultella planticola: 1; 0 1 NC_011795 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002639 APH(3'')-Ib APH(3'') Strict PRM956 PS8 Visit 3 2610 Salmonella Enteritidis Acinetobacter nosocomialis; Achromobacter xylosoxidans; Acinetobacter baumannii; Citrobacter amalonaticus; Citrobacter freundii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Escherichia coli; Klebsiella pneumoniae; Klebsiella oxytoca; Vibrio cholerae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Staphylococcus aureus 0 0 0 0 0 NC_019070 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict PRM839 NS5 Visit 4 3253 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Acinetobacter lwoffii; Mycobacteroides abscessus; Proteus vulgaris; Staphylococcus aureus; Mycoplasma pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 39; Escherichia coli (chromosome or plasmid): 7; Salmonella enterica (chromosome or plasmid): 5; Vibrio cholerae (chromosome or plasmid): 1; Acinetobacter baumannii (chromosome or plasmid): 1; Shigella sonnei (chromosome or plasmid): 1; Shigella flexneri (chromosome or plasmid): 1; Proteus mirabilis (chromosome or plasmid): 1; Escherichia coli (plasmid): 4; 0 Klebsiella pneumoniae: 39; Escherichia coli: 7; Salmonella enterica: 5; Vibrio cholerae: 1; Acinetobacter baumannii: 1; Shigella sonnei: 1; Shigella flexneri: 1; Proteus mirabilis: 1; Escherichia coli: 4; 6 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict GBS153 FT1 Visit 1 4928 "Escherichia coli strain C16EC0166 plasmid pC16EC0166-1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Acinetobacter lwoffii; Mycobacteroides abscessus; Proteus vulgaris; Vibrio vulnificus; Staphylococcus aureus; Mycoplasma pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 47; Escherichia coli (chromosome or plasmid): 17; Shigella flexneri (chromosome or plasmid): 7; Shigella sonnei (chromosome or plasmid): 7; Acinetobacter baumannii (chromosome or plasmid): 4; Vibrio cholerae (chromosome or plasmid): 2; Acinetobacter junii (chromosome or plasmid): 2; Staphylococcus aureus (chromosome or plasmid): 2; Enterobacter cloacae (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 1; Enterobacter hormaechei (chromosome or plasmid): 1; Shigella dysenteriae (chromosome or plasmid): 1; Proteus vulgaris (chromosome or plasmid): 1; Shigella sonnei (plasmid): 57; Klebsiella pneumoniae (plasmid): 1; 0 Klebsiella pneumoniae: 47; Escherichia coli: 17; Shigella flexneri: 7; Shigella sonnei: 7; Acinetobacter baumannii: 4; Vibrio cholerae: 2; Acinetobacter junii: 2; Staphylococcus aureus: 2; Enterobacter cloacae: 2; Salmonella enterica: 1; Enterobacter hormaechei: 1; Shigella dysenteriae: 1; Proteus vulgaris: 1; Shigella sonnei: 57; Klebsiella pneumoniae: 1; 29 CP001386 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict PRM534 NS5 In-hospital 3785 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Acinetobacter lwoffii; Mycobacteroides abscessus; Proteus vulgaris; Staphylococcus aureus; Mycoplasma pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 126; Escherichia coli (chromosome or plasmid): 15; Salmonella enterica (chromosome or plasmid): 8; Enterobacter hormaechei (chromosome or plasmid): 5; Acinetobacter baumannii (chromosome or plasmid): 4; Shigella sonnei (chromosome or plasmid): 3; Pseudomonas aeruginosa (chromosome or plasmid): 3; Enterobacter cloacae (chromosome or plasmid): 2; Vibrio cholerae (chromosome or plasmid): 1; Shigella dysenteriae (chromosome or plasmid): 1; Staphylococcus aureus (chromosome or plasmid): 1; Escherichia coli (plasmid): 7; Klebsiella pneumoniae (plasmid): 3; Shigella (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 126; Escherichia coli: 15; Salmonella enterica: 8; Enterobacter hormaechei: 5; Acinetobacter baumannii: 4; Shigella sonnei: 3; Pseudomonas aeruginosa: 3; Enterobacter cloacae: 2; Vibrio cholerae: 1; Shigella dysenteriae: 1; Staphylococcus aureus: 1; Escherichia coli: 7; Klebsiella pneumoniae: 3; 41 CP023647 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict PRM483 NS5 Visit 1 3602 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Acinetobacter lwoffii; Mycobacteroides abscessus; Proteus vulgaris; Mycoplasma pneumoniae; Staphylococcus aureus Klebsiella pneumoniae (chromosome or plasmid): 49; Escherichia coli (chromosome or plasmid): 19; Salmonella enterica (chromosome or plasmid): 5; Shigella flexneri (chromosome or plasmid): 5; Pseudomonas aeruginosa (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 1; Enterobacter hormaechei (chromosome or plasmid): 1; Escherichia coli (plasmid): 5; Klebsiella pneumoniae (plasmid): 3; Acinetobacter baumannii (plasmid): 1; 0 Klebsiella pneumoniae: 49; Escherichia coli: 19; Salmonella enterica: 5; Shigella flexneri: 5; Pseudomonas aeruginosa: 2; Acinetobacter baumannii: 1; Enterobacter hormaechei: 1; Escherichia coli: 5; Klebsiella pneumoniae: 3; Acinetobacter baumannii: 1; 18 CP035011 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict PRM774 NS4 Visit 4 3278 "Haemophilus influenzae CHBN-V-3 DNA, complete genome" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Proteus vulgaris Klebsiella pneumoniae (chromosome or plasmid): 6; Escherichia coli (chromosome or plasmid): 3; 0 Klebsiella pneumoniae: 6; Escherichia coli: 3; 0 0 FM180570 Gammaproteobacteria Gammaproteobacteria None None None 3002660 APH(6)-Id APH(6) Strict PRM933 NS13 Visit 4 3673 "Corynebacterium urealyticum strain NCTC12011 genome assembly, chromosome: 1" Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae; Mycobacteroides abscessus; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Pseudomonas aeruginosa; Salmonella enterica; Shigella dysenteriae; Vibrio cholerae; Klebsiella aerogenes; Shigella sonnei; Shigella flexneri; Citrobacter freundii; Staphylococcus aureus Klebsiella pneumoniae (chromosome or plasmid): 8; Escherichia coli (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; Klebsiella pneumoniae (plasmid): 4; 0 Klebsiella pneumoniae: 8; Escherichia coli: 1; Salmonella enterica: 1; 0 5 FN825254 Corynebacterium None None None None 3002660 APH(6)-Id APH(6) Strict PRM298 NS1 In-hospital 1326 "Escherichia coli strain E706 plasmid pLKJULY7989, complete sequence" Shigella sonnei; Escherichia coli; Klebsiella pneumoniae; Vibrio cholerae; Pseudomonas aeruginosa Vibrio cholerae (chromosome or plasmid): 1; 0 Vibrio cholerae: 1; 0 0 KJ842484 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict PRM474 NS13 In-hospital 1350 "Escherichia coli strain AH62 plasmid pAH62-3, complete sequence" Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica 0 0 0 0 0 KP143090 Corynebacterium None None None None 3002660 APH(6)-Id APH(6) Strict PRM833 NS10 Visit 3 1918 "Klebsiella pneumoniae strain M297-1 plasmid pM297-1.1, complete sequence" Acinetobacter baumannii; Klebsiella aerogenes; Klebsiella pneumoniae; Pseudomonas aeruginosa; Vibrio cholerae; Shigella flexneri; Acinetobacter junii; Enterobacter hormaechei; Citrobacter freundii; Shigella sonnei; Escherichia coli; Salmonella enterica; Shigella dysenteriae Escherichia coli (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Escherichia coli: 1; Klebsiella pneumoniae: 1; 0 1 KP143090 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict PRM507 NS3 Visit 3 3023 "Haemophilus influenzae CHBN-V-3 DNA, complete genome" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Acinetobacter lwoffii; Mycobacteroides abscessus; Proteus vulgaris; Enterococcus faecium Klebsiella pneumoniae (chromosome or plasmid): 27; Escherichia coli (chromosome or plasmid): 9; Shigella flexneri (chromosome or plasmid): 4; Enterobacter hormaechei (chromosome or plasmid): 3; Shigella sonnei (chromosome or plasmid): 3; Salmonella enterica (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 1; Vibrio cholerae (chromosome or plasmid): 1; Proteus mirabilis (chromosome or plasmid): 1; Pseudomonas aeruginosa (chromosome or plasmid): 1; Klebsiella pneumoniae (plasmid): 6; 0 Klebsiella pneumoniae: 27; Escherichia coli: 9; Shigella flexneri: 4; Enterobacter hormaechei: 3; Shigella sonnei: 3; Salmonella enterica: 2; Acinetobacter baumannii: 1; Vibrio cholerae: 1; Proteus mirabilis: 1; Pseudomonas aeruginosa: 1; Klebsiella pneumoniae: 6; 9 NC_011795 Gammaproteobacteria Gammaproteobacteria None None None 3002660 APH(6)-Id APH(6) Strict PRM431 NS1 Visit 1 3033 "Escherichia coli strain EcPF40 plasmid p1, complete sequence" Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Proteus mirabilis; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Burkholderia cepacia; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Enterobacter kobei; Vibrio cholerae; Haemophilus influenzae; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Legionella pneumophila; Morganella morganii; Providencia rettgeri; Providencia stuartii; Pseudomonas fluorescens; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Yersinia enterocolitica; Vibrio vulnificus; Mycoplasma pneumoniae; Proteus vulgaris; Staphylococcus aureus Escherichia coli (chromosome or plasmid): 8; Acinetobacter baumannii (chromosome or plasmid): 2; Enterobacter hormaechei (chromosome or plasmid): 1; Vibrio cholerae (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; Shigella flexneri (chromosome or plasmid): 1; Enterobacter cloacae (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; Shigella sonnei (plasmid): 3; 0 Escherichia coli: 8; Acinetobacter baumannii: 2; Enterobacter hormaechei: 1; Vibrio cholerae: 1; Klebsiella pneumoniae: 1; Shigella flexneri: 1; Enterobacter cloacae: 1; Salmonella enterica: 1; Shigella sonnei: 3; 4 NC_011795 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002660 APH(6)-Id APH(6) Strict PRM956 PS8 Visit 3 2610 Salmonella Enteritidis Pseudomonas aeruginosa; Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae; Mycobacteroides abscessus; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Salmonella enterica; Shigella dysenteriae; Vibrio cholerae; Shigella sonnei; Citrobacter freundii; Shigella flexneri 0 0 0 0 0 NC_019070 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3003652 CMY-132 CMY beta-lactamase Strict PRM534 NS5 In-hospital 1777 "Escherichia coli strain EcPF7 chromosome, complete genome" No data 0 0 0 0 0 CP023647 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3003652 CMY-132 CMY beta-lactamase Strict PRM431 NS1 Visit 1 1286 "Escherichia coli strain EcPF15 chromosome, complete genome" No data 0 0 0 0 0 NC_011795 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3000596 ErmX Erm 23S ribosomal RNA methyltransferase Strict PRM933 NS13 Visit 4 3195 "Bifidobacterium breve strain NRBB51 chromosome, complete genome" Plasmid pNG2; Mycobacterium tuberculosis 0 0 0 0 0 FN825254 Corynebacterium None None None None 3000180 tetA(P) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM364 NS4 In-hospital 3993 "Unidentified plasmid plasmid GF1-2_000231F, complete sequence" Clostridium perfringens; Clostridioides difficile Clostridium perfringens (chromosome or plasmid): 1549; Clostridium perfringens (plasmid): 389; 0 Clostridium perfringens: 1549; Clostridium perfringens: 389; 0 CP029330 Clostridium Clostridia Clostridiales Clostridiaceae_1 None 3000168 tet(D) major facilitator superfamily (MFS) antibiotic efflux pump Strict GBS394 FT7 Visit 1 1349 "Glaesserella parasuis strain HPS412 chromosome, complete genome" Escherichia coli; Salmonella enterica; Shigella flexneri 0 0 0 0 0 CP036332 Gammaproteobacteria Gammaproteobacteria None None None 3003479 tetR major facilitator superfamily (MFS) antibiotic efflux pump Strict GBS394 FT7 Visit 1 1349 "Glaesserella parasuis strain HPS412 chromosome, complete genome" No data 0 0 0 0 0 CP036332 Gammaproteobacteria Gammaproteobacteria None None None 3002734 QnrB19 quinolone resistance protein (qnr) Perfect PRM431 NS1 Visit 1 2382 "Salmonella enterica subsp. enterica serovar Agona strain 44 plasmid, partial sequence" Escherichia coli; Enterobacter hormaechei; Enterobacter cloacae; Klebsiella pneumoniae; Salmonella enterica; Serratia marcescens; Citrobacter freundii; Pseudomonas aeruginosa; Enterobacter asburiae Klebsiella pneumoniae (chromosome or plasmid): 2; Escherichia coli (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 2; Escherichia coli: 1; 0 0 GQ374157 Proteobacteria Gammaproteobacteria None None None 3000777 adeF resistance-nodulation-cell division (RND) antibiotic efflux pump Strict PRM640 NS13 Visit 1 4479 "Citrobacter youngae isolate BB1468 genome assembly, plasmid: pCY-CTXM-15_" Achromobacter xylosoxidans; Serratia liquefaciens; Enterobacter hormaechei; Enterobacter cloacae; Citrobacter freundii; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Raoultella planticola; Bordetella pertussis; Pseudomonas stutzeri; Serratia marcescens; Salmonella enterica; Pseudomonas fluorescens; Enterobacter asburiae; Pseudomonas putida; Citrobacter koseri; Serratia odorifera; Burkholderia pseudomallei; Citrobacter amalonaticus; Vibrio parahaemolyticus; Yersinia enterocolitica Klebsiella pneumoniae (chromosome): 1894; Klebsiella oxytoca (chromosome): 4; Klebsiella pneumoniae (chromosome or plasmid): 75; Enterobacter (chromosome): 12; Klebsiella (chromosome): 2; Enterobacter (chromosome or plasmid): 4; Klebsiella pneumoniae: 1894; Klebsiella oxytoca: 4; Klebsiella pneumoniae: 75; 0 0 MF150122 Enterobacteriaceae Gammaproteobacteria None None None 3002848 arr-3 rifampin ADP-ribosyltransferase (Arr) Perfect PRM939 PS1 Visit 3 1454 "Klebsiella pneumoniae strain GH27TC plasmid pGH27TC_fusion, complete sequence" Escherichia coli; Enterobacter hormaechei; Citrobacter freundii; Klebsiella pneumoniae 0 0 0 0 0 CP042486 Enterobacteriaceae Gammaproteobacteria None None None 3000412 sul2 sulfonamide resistant sul Perfect PRM839 NS5 Visit 4 3253 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Vibrio cholerae; Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter lwoffii; Acinetobacter junii; Acinetobacter nosocomialis; Klebsiella pneumoniae; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Escherichia coli; Klebsiella oxytoca; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Ralstonia pickettii; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Acinetobacter haemolyticus; Staphylococcus aureus; Bacillus anthracis Acinetobacter baumannii (chromosome or plasmid): 1; Escherichia coli (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; Shigella flexneri (chromosome or plasmid): 1; Enterobacter (chromosome or plasmid): 1; 0 Acinetobacter baumannii: 1; Escherichia coli: 1; Salmonella enterica: 1; Shigella flexneri: 1; 0 0 CP001386 Enterobacteriaceae Gammaproteobacteria None None None 3000412 sul2 sulfonamide resistant sul Perfect PRM832 NS10 Visit 2 1577 "Proteus mirabilis strain AR_0155 plasmid tig00000123, complete sequence" Vibrio cholerae; Acinetobacter baumannii; Escherichia coli; Klebsiella pneumoniae; Proteus mirabilis; Salmonella enterica; Shigella sonnei; Enterobacter hormaechei; Providencia rettgeri; Enterobacter cloacae; Shigella flexneri; Yersinia enterocolitica; Staphylococcus aureus; Vibrio parahaemolyticus; Shigella dysenteriae Acinetobacter baumannii (chromosome or plasmid): 9; Klebsiella pneumoniae (chromosome or plasmid): 1; Escherichia coli (chromosome or plasmid): 1; Acinetobacter baumannii (plasmid): 3; 0 Acinetobacter baumannii: 9; Klebsiella pneumoniae: 1; Escherichia coli: 1; Acinetobacter baumannii: 3; 0 CP035352 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3000410 sul1 sulfonamide resistant sul Perfect PRM939 PS1 Visit 3 1558 "Escherichia coli strain EcPF5 plasmid p1, complete sequence" Acinetobacter baumannii; Enterobacter hormaechei; Stenotrophomonas maltophilia; Escherichia coli; Salmonella enterica; Klebsiella pneumoniae; Proteus mirabilis; Pseudomonas aeruginosa; Vibrio cholerae; Enterobacter cloacae; Klebsiella oxytoca; Citrobacter freundii; Serratia marcescens; Shigella sonnei; Shigella flexneri; Enterobacter kobei; Pseudomonas putida; Enterobacter asburiae Klebsiella pneumoniae (chromosome or plasmid): 4; Escherichia coli (chromosome or plasmid): 1; Pseudomonas aeruginosa (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 4; Escherichia coli: 1; Pseudomonas aeruginosa: 1; Salmonella enterica: 1; 0 0 CP042486 Enterobacteriaceae Gammaproteobacteria None None None 3000410 Sul1 sulfonamide resistant sul Perfect PRM839 NS5 Visit 4 4150 "Escherichia coli strain SCU-103 plasmid pSCU-103-1, complete sequence" Achromobacter xylosoxidans; Acinetobacter baumannii; Citrobacter freundii; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter amalonaticus; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Klebsiella pneumoniae; Escherichia coli; Enterobacter kobei; Klebsiella oxytoca; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio cholerae; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Burkholderia cepacia; Micrococcus luteus Klebsiella pneumoniae (chromosome or plasmid): 12; Acinetobacter baumannii (chromosome or plasmid): 2; Pseudomonas aeruginosa (chromosome or plasmid): 1; Citrobacter freundii (chromosome or plasmid): 1; Escherichia coli (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; Proteus mirabilis (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 12; Acinetobacter baumannii: 2; Pseudomonas aeruginosa: 1; Citrobacter freundii: 1; Escherichia coli: 1; Salmonella enterica: 1; Proteus mirabilis: 1; 0 0 CP042486 Corynebacterium None None None None 3000410 sul1 sulfonamide resistant sul Perfect PRM483 NS5 Visit 1 8112 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Achromobacter xylosoxidans; Acinetobacter baumannii; Citrobacter freundii; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter amalonaticus; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Klebsiella pneumoniae; Escherichia coli; Enterobacter kobei; Klebsiella oxytoca; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio cholerae; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Micrococcus luteus; Mycobacteroides abscessus Klebsiella pneumoniae (chromosome or plasmid): 23; Escherichia coli (chromosome or plasmid): 10; Pseudomonas aeruginosa (chromosome or plasmid): 7; Acinetobacter baumannii (chromosome or plasmid): 2; Salmonella enterica (chromosome or plasmid): 2; Enterobacter hormaechei (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 23; Escherichia coli: 10; Pseudomonas aeruginosa: 7; Acinetobacter baumannii: 2; Salmonella enterica: 2; Enterobacter hormaechei: 1; 0 3 CP042486 Gammaproteobacteria Gammaproteobacteria None None None 3000412 sul2 sulfonamide resistant sul Perfect PRM774 NS4 Visit 4 3278 "Haemophilus influenzae CHBN-V-3 DNA, complete genome" Acinetobacter baumannii; Escherichia coli; Klebsiella pneumoniae; Salmonella enterica; Vibrio cholerae; Proteus mirabilis; Shigella sonnei; Enterobacter hormaechei; Providencia rettgeri; Yersinia enterocolitica; Shigella flexneri; Shigella dysenteriae Acinetobacter baumannii (chromosome or plasmid): 2; Escherichia coli (chromosome or plasmid): 1; 0 Acinetobacter baumannii: 2; Escherichia coli: 1; 0 0 FM180570 Gammaproteobacteria Gammaproteobacteria None None None 3000410 Sul1 sulfonamide resistant sul Strict PRM933 NS13 Visit 4 1673 "Corynebacterium propinquum strain FDAARGOS_1112 chromosome, complete genome" Acinetobacter baumannii; Escherichia coli; Salmonella enterica; Vibrio cholerae; Enterobacter hormaechei; Stenotrophomonas maltophilia; Klebsiella pneumoniae; Pseudomonas aeruginosa; Shigella flexneri; Enterobacter cloacae; Pseudomonas putida; Proteus mirabilis; Morganella morganii Escherichia coli (chromosome or plasmid): 9; 0 Escherichia coli: 9; 0 0 FN825254 Corynebacterium None None None None 3000412 sul2 sulfonamide resistant sul Perfect PRM427 NS10 In-hospital 2360 "Proteus mirabilis strain AR_0155 plasmid tig00000123, complete sequence" Vibrio cholerae; Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter lwoffii; Acinetobacter junii; Acinetobacter nosocomialis; Klebsiella pneumoniae; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Escherichia coli; Klebsiella oxytoca; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Ralstonia pickettii; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Acinetobacter haemolyticus; Staphylococcus aureus; Legionella pneumophila Acinetobacter baumannii (chromosome or plasmid): 37; Escherichia coli (chromosome or plasmid): 5; Salmonella enterica (chromosome or plasmid): 3; Vibrio cholerae (chromosome or plasmid): 1; Klebsiella pneumoniae (chromosome or plasmid): 1; Acinetobacter baumannii (plasmid): 4; 0 Acinetobacter baumannii: 37; Escherichia coli: 5; Salmonella enterica: 3; Vibrio cholerae: 1; Klebsiella pneumoniae: 1; Acinetobacter baumannii: 4; 0 LT985307 Enterobacteriaceae Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3000410 sul1 sulfonamide resistant sul Perfect GBS162 FT3 Visit 1 3612 "Klebsiella pneumoniae strain AR_0126 plasmid tig00000001, complete sequence" Vibrio fluvialis; Achromobacter xylosoxidans; Acinetobacter baumannii; Citrobacter freundii; Acinetobacter haemolyticus; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Burkholderia cenocepacia; Citrobacter amalonaticus; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Klebsiella pneumoniae; Escherichia coli; Enterobacter kobei; Klebsiella oxytoca; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas putida; Pseudomonas stutzeri; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio cholerae; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Burkholderia cepacia; Micrococcus luteus; Mycobacteroides abscessus Escherichia coli (chromosome): 2; Pseudomonas aeruginosa (chromosome): 1; Klebsiella pneumoniae (chromosome or plasmid): 294; Pseudomonas aeruginosa (chromosome or plasmid): 88; Escherichia coli (chromosome or plasmid): 70; Acinetobacter baumannii (chromosome or plasmid): 44; Salmonella enterica (chromosome or plasmid): 8; Enterobacter hormaechei (chromosome or plasmid): 7; Proteus mirabilis (chromosome or plasmid): 3; Enterobacter cloacae (chromosome or plasmid): 2; Klebsiella pneumoniae (plasmid): 2; Pseudomonas (chromosome or plasmid): 7; Escherichia coli: 2; Pseudomonas aeruginosa: 1; Klebsiella pneumoniae: 294; Pseudomonas aeruginosa: 88; Escherichia coli: 70; Acinetobacter baumannii: 44; Salmonella enterica: 8; Enterobacter hormaechei: 7; Proteus mirabilis: 3; Enterobacter cloacae: 2; Klebsiella pneumoniae: 2; 21 NC_010500 Gammaproteobacteria Gammaproteobacteria None None None 3000412 sul2 sulfonamide resistant sul Perfect PRM507 NS3 Visit 3 3023 "Haemophilus influenzae CHBN-V-3 DNA, complete genome" Achromobacter xylosoxidans; Acinetobacter baumannii; Acinetobacter lwoffii; Acinetobacter junii; Acinetobacter nosocomialis; Klebsiella pneumoniae; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Escherichia coli; Klebsiella oxytoca; Vibrio cholerae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Ralstonia pickettii; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio parahaemolyticus; Vibrio vulnificus; Yersinia enterocolitica; Acinetobacter haemolyticus Proteus mirabilis (chromosome): 1; Escherichia coli (chromosome or plasmid): 10; Acinetobacter baumannii (chromosome or plasmid): 4; Shigella flexneri (chromosome or plasmid): 4; Vibrio cholerae (chromosome or plasmid): 2; Klebsiella pneumoniae (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; Proteus mirabilis: 1; Escherichia coli: 10; Acinetobacter baumannii: 4; Shigella flexneri: 4; Vibrio cholerae: 2; Klebsiella pneumoniae: 1; Salmonella enterica: 1; 0 NC_011795 Gammaproteobacteria Gammaproteobacteria None None None 3000412 sul2 sulfonamide resistant sul Strict PRM956 PS8 Visit 3 2610 Salmonella Enteritidis Acinetobacter baumannii; Escherichia coli; Klebsiella pneumoniae; Salmonella enterica; Vibrio cholerae; Staphylococcus aureus 0 0 0 0 0 NC_019070 Enterobacterales Gammaproteobacteria None None None 3000873 TEM-1 TEM beta-lactamase Perfect PRM807 PS3 In-hospital 1428 "Haemophilus influenzae strain 6P32H1 chromosome, complete genome" Acinetobacter baumannii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella pneumoniae; Salmonella enterica; Serratia marcescens; Haemophilus influenzae 0 0 0 0 0 CP035352 Enterobacterales Gammaproteobacteria None None None 3000873 TEM-1 TEM beta-lactamase Perfect PRM832 NS10 Visit 2 1818 Escherichia coli strain NDM7 plasmid unnamed1 Acinetobacter baumannii; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Enterobacter kobei; Enterococcus faecium; Escherichia coli; Haemophilus influenzae; Haemophilus parainfluenzae; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Neisseria gonorrhoeae; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio parahaemolyticus Klebsiella pneumoniae (chromosome or plasmid): 5; Escherichia coli (chromosome or plasmid): 3; Streptococcus pyogenes (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 5; Escherichia coli: 3; Streptococcus pyogenes: 1; 0 0 CP035352 Enterobacterales Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3000873 TEM-1 TEM beta-lactamase Perfect PRM837 PS3 Visit 1 1906 "Haemophilus influenzae CHBN-V-3 DNA, complete genome" Salmonella enterica; Acinetobacter baumannii; Chlamydia trachomatis; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Raoultella planticola; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Citrobacter amalonaticus; Citrobacter koseri; Citrobacter youngae; Enterobacter asburiae; Enterococcus faecium; Haemophilus influenzae; Haemophilus parainfluenzae; Morganella morganii; Neisseria gonorrhoeae; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Shigella dysenteriae; Vibrio parahaemolyticus Escherichia coli (chromosome or plasmid): 2; Acinetobacter baumannii (chromosome or plasmid): 1; Enterobacter hormaechei (chromosome or plasmid): 1; 0 Escherichia coli: 2; Acinetobacter baumannii: 1; Enterobacter hormaechei: 1; 0 0 CP042486 Gammaproteobacteria Gammaproteobacteria None None None 3000873 TEM-1 TEM beta-lactamase Perfect PRM774 NS4 Visit 4 1472 "Haemophilus influenzae strain 0 transposon Tn6687, complete sequence" Acinetobacter baumannii; Chlamydia trachomatis; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Enterobacter asburiae Klebsiella pneumoniae (chromosome or plasmid): 3; 0 Klebsiella pneumoniae: 3; 0 0 KJ842484 Enterobacteriaceae Gammaproteobacteria None None None 3000873 TEM-1 TEM beta-lactamase Perfect PRM507 NS3 Visit 3 1856 "Haemophilus influenzae strain 0 transposon Tn6687, complete sequence" Salmonella enterica; Acinetobacter baumannii; Enterobacter hormaechei; Citrobacter freundii; Escherichia coli; Klebsiella pneumoniae; Providencia rettgeri; Shigella sonnei; Enterobacter asburiae; Enterobacter cloacae; Enterobacter kobei; Klebsiella aerogenes; Serratia marcescens; Neisseria gonorrhoeae; Shigella dysenteriae; Shigella flexneri; Vibrio cholerae; Haemophilus influenzae; Proteus mirabilis Escherichia coli (chromosome or plasmid): 11; Klebsiella pneumoniae (chromosome or plasmid): 4; Shigella sonnei (chromosome or plasmid): 1; Salmonella enterica (chromosome or plasmid): 1; 0 Escherichia coli: 11; Klebsiella pneumoniae: 4; Shigella sonnei: 1; Salmonella enterica: 1; 0 0 NC_011795 Gammaproteobacteria Gammaproteobacteria None None None 3000195 tetB(P) tetracycline-resistant ribosomal protection protein Strict PRM364 NS4 In-hospital 3993 "Unidentified plasmid plasmid GF1-2_000231F, complete sequence" Clostridium perfringens; Clostridioides difficile Clostridium perfringens (chromosome or plasmid): 1071; Clostridium perfringens (plasmid): 736; 0 Clostridium perfringens: 1071; Clostridium perfringens: 736; 0 CP029330 Clostridium Clostridia Clostridiales Clostridiaceae_1 None 3000186 tetM tetracycline-resistant ribosomal protection protein Strict PRM832 NS10 Visit 2 2788 "Enterococcus faecium strain V1836 chromosome, complete genome" Neisseria gonorrhoeae; Clostridioides difficile; Clostridium botulinum; Enterococcus faecalis; Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Streptococcus pyogenes; Listeria monocytogenes; Streptococcus anginosus; Clostridium perfringens; Neisseria meningitidis; Escherichia coli; Salmonella enterica; Shigella sonnei; Vibrio cholerae; Staphylococcus pseudintermedius Streptococcus agalactiae (chromosome or plasmid): 1; 0 Streptococcus agalactiae: 1; 0 0 CP035352 Enterobacterales None None None None 3000192 tetS tetracycline-resistant ribosomal protection protein Strict PRM897 NS7 Visit 4 2088 "Streptococcus canis strain HL_98_2 chromosome, complete genome" Listeria monocytogenes; Enterococcus faecalis; Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Streptococcus pyogenes 0 0 0 0 0 JX275965 Streptococcaceae Bacilli Lactobacillales None None 3000186 tetM tetracycline-resistant ribosomal protection protein Strict PRM795 NS12 Visit 3 2881 "Enterococcus faecium strain Dallas 158 chromosome, complete genome" Streptococcus agalactiae; Clostridioides difficile; Enterococcus faecalis; Enterococcus faecium; Listeria monocytogenes; Staphylococcus aureus; Streptococcus pyogenes; Streptococcus pneumoniae; Escherichia coli; Salmonella enterica; Shigella sonnei; Vibrio cholerae; Staphylococcus pseudintermedius Streptococcus pneumoniae (chromosome or plasmid): 1; Enterococcus faecium (chromosome or plasmid): 1; 0 Streptococcus pneumoniae: 1; Enterococcus faecium: 1; 0 0 MF422120 Enterobacterales Bacilli Lactobacillales None None 3004442 tet(W/N/W) tetracycline-resistant ribosomal protection protein STrict PRM495 NS3 Visit 2 2488 Uncultured bacterium clone AmoxDisc_TwinA_Time2_TE_4 genomic sequence Streptococcus pneumoniae; Enterococcus faecalis; Enterococcus faecium; Campylobacter jejuni; Clostridioides difficile; Campylobacter coli Clostridioides difficile (chromosome): 4; Clostridioides difficile (chromosome or plasmid): 3; Clostridioides difficile: 4; Clostridioides difficile: 3; 0 0 NC_010500 Enterobacterales None None None None 3004442 tet(W/N/W) tetracycline-resistant ribosomal protection protein Strict PRM956 PS8 Visit 3 1901 "Erysipelothrix rhusiopathiae strain ZJ chromosome, complete genome" Streptococcus agalactiae; Streptococcus pneumoniae; Escherichia coli; Enterococcus faecalis; Staphylococcus aureus; Enterococcus faecium; Campylobacter coli; Campylobacter jejuni; Streptococcus pyogenes Campylobacter coli (chromosome): 3; Campylobacter coli (chromosome or plasmid): 13; Campylobacter (chromosome): 3; Campylobacter (chromosome or plasmid): 7; Campylobacter coli: 3; Campylobacter coli: 13; 0 0 NC_019070 Enterobacterales None None None None 3002854 dfrA1 trimethoprim resistant dihydrofolate reductase dfr Strict PRM774 NS4 Visit 4 1886 "Escherichia coli strain AH01 chromosome, complete genome" Acinetobacter baumannii; Acinetobacter lwoffii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio vulnificus; Yersinia enterocolitica; Enterobacter asburiae; Klebsiella aerogenes; Raoultella planticola Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 1; 0 0 FM180570 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3002854 dfrA1 trimethoprim resistant dihydrofolate reductase dfr Perfect GBS162 FT3 Visit 1 3612 "Klebsiella pneumoniae strain AR_0126 plasmid tig00000001, complete sequence" Klebsiella oxytoca; Acinetobacter baumannii; Acinetobacter lwoffii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Pseudomonas stutzeri; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio vulnificus; Yersinia enterocolitica; Enterobacter asburiae; Klebsiella aerogenes; Raoultella planticola Shigella sonnei (chromosome or plasmid): 354; Escherichia coli (chromosome or plasmid): 28; Klebsiella pneumoniae (chromosome or plasmid): 9; Shigella flexneri (chromosome or plasmid): 7; Providencia rettgeri (chromosome or plasmid): 4; Enterobacter hormaechei (chromosome or plasmid): 4; Vibrio cholerae (chromosome or plasmid): 1; Shigella sonnei (plasmid): 49; 0 Shigella sonnei: 354; Escherichia coli: 28; Klebsiella pneumoniae: 9; Shigella flexneri: 7; Providencia rettgeri: 4; Enterobacter hormaechei: 4; Vibrio cholerae: 1; Shigella sonnei: 49; 13 NC_010500 Gammaproteobacteria Gammaproteobacteria Enterobacteriales Enterobacteriaceae None 3000215 mecR1 methicillin resistant PBP2 Strict PRM298 NS1 In-hospital 3541 "Staphylococcus aureus TPS3156 DNA, complete genome" Staphylococcus epidermidis; Staphylococcus aureus; Staphylococcus pseudintermedius Staphylococcus (chromosome): 17; 0 0 0 CP014395 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000617 mecA methicillin resistant PBP2 strict PRM298 NS1 In-hospital 3541 "Staphylococcus aureus TPS3156 DNA, complete genome" Staphylococcus epidermidis; Escherichia coli; Staphylococcus aureus; Staphylococcus pseudintermedius Staphylococcus aureus (chromosome): 1; Staphylococcus pseudintermedius (chromosome): 1; Staphylococcus aureus: 1; Staphylococcus pseudintermedius: 1; 0 0 0 CP014395 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict PRM599 NS8 VIsit 2 1278 "Staphylococcus aureus strain UP_1313 chromosome, complete genome" Staphylococcus aureus; Staphylococcus lugdunensis 0 0 0 0 0 CP027488 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000250 ErmC Erm 23S ribosomal RNA methyltransferase Strict GBS159 FT2 Visit 1 1363 "Staphylococcus aureus plasmid SAP078B, complete sequence" Staphylococcus aureus; Staphylococcus epidermidis; Listeria monocytogenes Staphylococcus aureus (chromosome or plasmid): 10; Staphylococcus aureus (plasmid): 2; Staphylococcus (chromosome or plasmid): 18; 0 Staphylococcus aureus: 10; Staphylococcus aureus: 2; 0 CP030487 Bacilli Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict PRM939 PS1 Visit 3 2027 "Staphylococcus aureus strain ER02826.3 plasmid unnamed1, complete sequence" Stenotrophomonas maltophilia; Staphylococcus epidermidis; Escherichia coli; Staphylococcus aureus Staphylococcus aureus (chromosome or plasmid): 17; Staphylococcus epidermidis (chromosome or plasmid): 2; 0 Staphylococcus aureus: 17; Staphylococcus epidermidis: 2; 0 0 CP030616 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict PRM939 PS1 Visit 3 2318 "Staphylococcus aureus strain ER02826.3 plasmid unnamed1, complete sequence" Enterobacter hormaechei; Staphylococcus aureus; Staphylococcus epidermidis; Streptococcus pneumoniae; Vibrio cholerae; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Enterococcus faecalis; Klebsiella pneumoniae Staphylococcus aureus (chromosome or plasmid): 68; Staphylococcus pseudintermedius (chromosome or plasmid): 2; Staphylococcus aureus (plasmid): 8; Staphylococcus (chromosome): 1; Staphylococcus (chromosome or plasmid): 7; 0 Staphylococcus aureus: 68; Staphylococcus pseudintermedius: 2; Staphylococcus aureus: 8; 0 CP030616 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM628 NS4 Visit 3 1953 "Staphylococcus haemolyticus strain Sh29/312/L2, complete genome" Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli; Mycobacteroides abscessus Staphylococcus epidermidis (chromosome or plasmid): 1; 0 Staphylococcus epidermidis: 1; 0 0 CP030679 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002829 vgaA ABC-F ATP-binding cassette ribosomal protection protein Strict GBS358 FT5 Visit 1 1810 Staphylococcus epidermidis strain SESURV_p3_1362 plasmid unnamed1 Staphylococcus epidermidis; Staphylococcus aureus; Escherichia coli Staphylococcus epidermidis (plasmid): 40; Staphylococcus (plasmid): 1; 0 0 Staphylococcus epidermidis: 40; 42 CP035352 Staphylococcaceae Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict GBS358 FT5 Visit 1 2006 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus aureus; Enterobacter hormaechei; Staphylococcus epidermidis; Streptococcus pneumoniae; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Enterococcus faecalis; Escherichia coli; Listeria monocytogenes Staphylococcus epidermidis (chromosome): 65; Staphylococcus aureus (chromosome): 15; Staphylococcus aureus (chromosome or plasmid): 120; Staphylococcus epidermidis (chromosome or plasmid): 16; Staphylococcus pseudintermedius (chromosome or plasmid): 5; Escherichia coli (chromosome or plasmid): 1; Staphylococcus (chromosome): 249; Staphylococcus (chromosome or plasmid): 1769; Staphylococcus epidermidis: 65; Staphylococcus aureus: 15; Staphylococcus aureus: 120; Staphylococcus epidermidis: 16; Staphylococcus pseudintermedius: 5; Escherichia coli: 1; 0 0 CP035352 Staphylococcaceae Bacilli Bacillales Staphylococcaceae Staphylococcus 3002841 vatB Streptogramin vat acetyltransferase Perfect PRM227 NS9 In-Hospital 2526 Staphylococcus epidermidis strain HD66 chromosome Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus (chromosome or plasmid): 29; 0 0 0 0 CP040865 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000118 vgaB ABC-F ATP-binding cassette ribosomal protection protein Perfect PRM468 NS3 Visit 1 2771 Staphylococcus epidermidis strain HD66 chromosome Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus (chromosome or plasmid): 59; 0 0 0 0 CP040865 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002841 vatB Streptogramin vat acetyltransferase Perfect PRM468 NS3 Visit 1 2771 Staphylococcus epidermidis strain HD66 chromosome Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus (chromosome or plasmid): 23; 0 0 0 0 CP040865 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000118 vgaB ABC-F ATP-binding cassette ribosomal protection protein Strict PRM474 NS13 In-hospital 2929 Staphylococcus epidermidis strain HD66 chromosome Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus (chromosome): 1; Staphylococcus (chromosome or plasmid): 266; 0 0 0 0 CP040865 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002841 vatB Streptogramin vat acetyltransferase Perfect PRM474 NS13 In-Hospital 2929 Staphylococcus epidermidis strain HD66 chromosome Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus (chromosome or plasmid): 131; 0 0 0 0 CP040865 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002865 dfrC trimethoprim resistant dihydrofolate reductase dfr Perfect PRM468 NS3 Visit 1 1352 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus epidermidis; Enterococcus faecalis; Serratia marcescens; Staphylococcus aureus; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Enterococcus faecium Staphylococcus epidermidis (chromosome): 35; Staphylococcus epidermidis (chromosome or plasmid): 290; Staphylococcus epidermidis: 35; Staphylococcus epidermidis: 290; 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002865 dfrC trimethoprim resistant dihydrofolate reductase dfr Perfect GBS153 FT1 Visit 1 1618 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus epidermidis; Burkholderia cepacia; Enterococcus faecalis; Serratia marcescens; Staphylococcus aureus; Staphylococcus pseudintermedius; Streptococcus pneumoniae Staphylococcus epidermidis (chromosome): 7; Staphylococcus epidermidis (chromosome or plasmid): 184; Staphylococcus epidermidis: 7; Staphylococcus epidermidis: 184; 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002865 dfrC trimethoprim resistant dihydrofolate reductase dfr Perfect PRM127 NS7 In-hospital 1624 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus epidermidis; Burkholderia cepacia; Enterococcus faecalis; Serratia marcescens; Staphylococcus aureus; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Listeria monocytogenes Staphylococcus epidermidis (chromosome): 123; Staphylococcus epidermidis (chromosome or plasmid): 1670; Staphylococcus aureus (chromosome or plasmid): 3; Staphylococcus (chromosome or plasmid): 2; Staphylococcus epidermidis: 123; Staphylococcus epidermidis: 1670; Staphylococcus aureus: 3; 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002865 dfrC trimethoprim resistant dihydrofolate reductase dfr Perfect GBS358 FT5 Visit 1 1733 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus epidermidis; Burkholderia cepacia; Enterococcus faecalis; Serratia marcescens; Staphylococcus aureus; Staphylococcus pseudintermedius; Streptococcus pneumoniae Staphylococcus epidermidis (chromosome): 43; Staphylococcus epidermidis (chromosome or plasmid): 852; Staphylococcus (chromosome or plasmid): 1; Staphylococcus epidermidis: 43; Staphylococcus epidermidis: 852; 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002865 dfrC trimethoprim resistant dihydrofolate reductase dfr Perfect GBS410 FT8 Visit 1 1852 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus epidermidis; Burkholderia cepacia; Enterococcus faecalis; Serratia marcescens; Staphylococcus aureus; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Listeria monocytogenes Staphylococcus epidermidis (chromosome): 19; Staphylococcus epidermidis (chromosome or plasmid): 563; Staphylococcus epidermidis: 19; Staphylococcus epidermidis: 563; 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict PRM468 NS3 Visit 1 2340 "Staphylococcus aureus KG-18 plasmid pKG-18 DNA, complete genome" Staphylococcus aureus; Enterobacter hormaechei; Stenotrophomonas maltophilia; Staphylococcus epidermidis; Streptococcus pneumoniae; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Enterococcus faecalis; Escherichia coli; Listeria monocytogenes; Klebsiella pneumoniae Staphylococcus epidermidis (chromosome): 1; Staphylococcus epidermidis (chromosome or plasmid): 122; Staphylococcus aureus (chromosome or plasmid): 29; Staphylococcus epidermidis (plasmid): 10; Staphylococcus (chromosome): 47; Staphylococcus (chromosome or plasmid): 380; Staphylococcus (plasmid): 1; Staphylococcus (no genomic information): 1; Staphylococcus epidermidis: 1; Staphylococcus epidermidis: 122; Staphylococcus aureus: 29; Staphylococcus epidermidis: 10; 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000617 mecA methicillin resistant PBP2 Strict PRM837 PS3 Visit 1 2899 "Staphylococcus aureus TPS3156 DNA, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Escherichia coli Staphylococcus aureus (chromosome): 2; Staphylococcus (chromosome): 1; Staphylococcus aureus: 2; 0 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000124 mecI methicillin resistant PBP2 Perfect PRM468 NS3 Visit 1 6152 Staphylococcus aureus strain WA-MRSA-59 pseudo SCCmec element mobile element sequence Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius Staphylococcus aureus (chromosome): 14; Staphylococcus epidermidis (chromosome): 1; Staphylococcus (chromosome): 129; Staphylococcus aureus: 14; Staphylococcus epidermidis: 1; 0 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000214 mecR1 methicillin resistant PBP2 Perfect PRM468 NS3 Visit 1 6152 Staphylococcus aureus strain WA-MRSA-59 pseudo SCCmec element mobile element sequence Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius Staphylococcus aureus (chromosome): 6; Staphylococcus (chromosome): 773; Staphylococcus aureus: 6; 0 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000617 mecA methicillin resistant PBP2 Strict PRM468 NS3 Visit 1 6152 Staphylococcus aureus strain WA-MRSA-59 pseudo SCCmec element mobile element sequence Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Staphylococcus lugdunensis; Escherichia coli; Klebsiella pneumoniae Staphylococcus aureus (chromosome): 69; Staphylococcus epidermidis (chromosome): 1; Staphylococcus (chromosome): 1; Staphylococcus aureus: 69; Staphylococcus epidermidis: 1; 0 0 0 CP042087 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002835 lnuA lincosamide nucleotidyltransferase (LNU) Strict GBS421 FT9 Visit 1 1623 "Staphylococcus warneri strain WB224 plasmid pWB224_6, complete sequence" Staphylococcus aureus; Staphylococcus epidermidis; Streptococcus pneumoniae; Listeria monocytogenes; Enterococcus faecium; Escherichia coli 0 0 0 0 246 EU350088 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002835 lnuA lincosamide nucleotidyltransferase (LNU) Strict GBS358 FT5 Visit 1 2923 "Staphylococcus warneri strain WB224 plasmid pWB224_6, complete sequence" Staphylococcus haemolyticus; Staphylococcus aureus; Staphylococcus epidermidis; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus pseudintermedius; Enterococcus faecium; Escherichia coli Staphylococcus aureus (plasmid): 5; Listeria monocytogenes (plasmid): 4; Staphylococcus epidermidis (plasmid): 2; Staphylococcus (plasmid): 6; Enterococcus (plasmid): 3; Enterococcus (no genomic information): 1; 0 0 Staphylococcus aureus: 5; Listeria monocytogenes: 4; Staphylococcus epidermidis: 2; 6911 EU350088 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000250 ErmC Erm 23S ribosomal RNA methyltransferase Strict GBS378 FT6 Visit 1 1666 "Staphylococcus aureus strain SR42 plasmid pSR42, complete sequence" Burkholderia cepacia; Mycobacteroides abscessus; Neisseria meningitidis; Serratia marcescens; Shigella sonnei; Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Streptococcus pyogenes Staphylococcus aureus (chromosome or plasmid): 6; 0 Staphylococcus aureus: 6; 0 0 EU350090 Bacilli Bacilli Bacillales Staphylococcaceae Staphylococcus 3000250 ErmC Erm 23S ribosomal RNA methyltransferase Strict GBS410 FT8 Visit 1 1880 "Staphylococcus aureus subsp. aureus strain SR100 plasmid pSR100, complete sequence" Staphylococcus epidermidis; Acinetobacter baumannii; Burkholderia cepacia; Mycobacteroides abscessus; Neisseria meningitidis; Serratia marcescens; Shigella sonnei; Staphylococcus aureus; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Streptococcus pyogenes; Escherichia coli; Enterococcus faecium; Listeria monocytogenes Staphylococcus aureus (chromosome or plasmid): 62; Staphylococcus epidermidis (chromosome or plasmid): 1; Staphylococcus aureus (plasmid): 4; Staphylococcus (chromosome or plasmid): 11; Staphylococcus (no genomic information): 1; 0 Staphylococcus aureus: 62; Staphylococcus epidermidis: 1; Staphylococcus aureus: 4; 0 EU350090 Bacilli Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict PRM916 PS8 Visit 1 1807 "Staphylococcus aureus strain UP_1313 chromosome, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Enterococcus faecalis; Klebsiella pneumoniae Staphylococcus pseudintermedius (chromosome): 1; Staphylococcus aureus (chromosome or plasmid): 11; Staphylococcus pseudintermedius (chromosome or plasmid): 1; Staphylococcus aureus (plasmid): 3; Staphylococcus (chromosome): 7; Staphylococcus (chromosome or plasmid): 21; Staphylococcus pseudintermedius: 1; Staphylococcus aureus: 11; Staphylococcus pseudintermedius: 1; Staphylococcus aureus: 3; 1 GQ900388 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict PRM916 PS8 Visit 1 1921 "Staphylococcus aureus strain ER02826.3 plasmid unnamed1, complete sequence" Stenotrophomonas maltophilia; Listeria monocytogenes; Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 2; 0 Staphylococcus aureus: 2; 0 0 GQ900388 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM916 PS8 Visit 1 2372 Staphylococcus epidermidis strain SESURV_p1_0563 chromosome Staphylococcus aureus; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli 0 0 0 0 0 GQ900388 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM785 PS4 In-hospital 2782 "Bifidobacterium bifidum strain PRI 1 chromosome, complete genome" Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli; Mycobacteroides abscessus Staphylococcus epidermidis (chromosome or plasmid): 3; Staphylococcus aureus (chromosome or plasmid): 1; 0 Staphylococcus epidermidis: 3; Staphylococcus aureus: 1; 0 0 GQ900388 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000251 msrA ABC-F ATP-binding cassette ribosomal protection protein Strict PRM785 PS4 In-hospital 3554 "Bifidobacterium bifidum strain PRI 1 chromosome, complete genome" Listeria monocytogenes; Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 1; Staphylococcus (chromosome or plasmid): 4; 0 Staphylococcus aureus: 1; 0 0 GQ900388 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict PRM785 PS4 In-hospital 3554 "Bifidobacterium bifidum strain PRI 1 chromosome, complete genome" Staphylococcus aureus; Enterobacter hormaechei; Vibrio cholerae; Enterococcus faecalis; Escherichia coli; Staphylococcus epidermidis; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Klebsiella pneumoniae Staphylococcus aureus (chromosome): 5; Staphylococcus aureus (chromosome or plasmid): 158; Staphylococcus epidermidis (chromosome or plasmid): 7; Staphylococcus pseudintermedius (chromosome or plasmid): 5; Escherichia coli (chromosome or plasmid): 1; Staphylococcus aureus (plasmid): 25; Staphylococcus epidermidis (plasmid): 1; Staphylococcus (chromosome or plasmid): 355; Staphylococcus (plasmid): 2; Staphylococcus (no genomic information): 1; Staphylococcus aureus: 5; Staphylococcus aureus: 158; Staphylococcus epidermidis: 7; Staphylococcus pseudintermedius: 5; Escherichia coli: 1; Staphylococcus aureus: 25; Staphylococcus epidermidis: 1; 5 GQ900388 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict PRM785 PS4 In-hospital 3554 "Bifidobacterium bifidum strain PRI 1 chromosome, complete genome" Stenotrophomonas maltophilia; Listeria monocytogenes; Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 20; 0 Staphylococcus aureus: 20; 0 0 GQ900388 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000250 ErmC Erm 23S ribosomal RNA methyltransferase Strict PRM468 NS3 Visit 1 2432 "Staphylococcus hominis strain FDAARGOS_661 plasmid unnamed5, complete sequence" Staphylococcus epidermidis; Acinetobacter baumannii; Burkholderia cepacia; Mycobacteroides abscessus; Neisseria meningitidis; Serratia marcescens; Shigella sonnei; Staphylococcus aureus; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Streptococcus pyogenes; Escherichia coli; Enterococcus faecium; Enterobacter kobei; Listeria monocytogenes Staphylococcus aureus (chromosome or plasmid): 72; Staphylococcus epidermidis (chromosome or plasmid): 12; Escherichia coli (chromosome or plasmid): 8; Staphylococcus pseudintermedius (chromosome or plasmid): 4; Staphylococcus (chromosome or plasmid): 15; Staphylococcus (no genomic information): 1; 0 Staphylococcus aureus: 72; Staphylococcus epidermidis: 12; Escherichia coli: 8; Staphylococcus pseudintermedius: 4; 0 17 KX011076 Bacilli Bacilli Bacillales Staphylococcaceae Staphylococcus 3002829 vgaA ABC-F ATP-binding cassette ribosomal protection protein Strict GBS394 FT7 Visit 1 1865 Staphylococcus epidermidis strain SESURV_p3_1362 plasmid unnamed1 Staphylococcus epidermidis; Staphylococcus aureus; Escherichia coli Staphylococcus epidermidis (plasmid): 19; Staphylococcus (plasmid): 1; 0 0 Staphylococcus epidermidis: 19; 27 KX712121 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000250 ErmC Erm 23S ribosomal RNA methyltransferase Strict PRM457 NS9 Visit 1 1407 "Staphylococcus epidermidis isolate BPH0662 genome assembly, plasmid: 1" Staphylococcus epidermidis; Acinetobacter baumannii; Burkholderia cepacia; Mycobacteroides abscessus; Neisseria meningitidis; Serratia marcescens; Shigella sonnei; Staphylococcus aureus; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Streptococcus pyogenes; Escherichia coli; Enterococcus faecium; Enterobacter kobei Staphylococcus aureus (chromosome or plasmid): 3; Staphylococcus pseudintermedius (chromosome or plasmid): 1; 0 Staphylococcus aureus: 3; Staphylococcus pseudintermedius: 1; 0 1 M13761 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000250 ErmC Erm 23S ribosomal RNA methyltransferase Strict PRM473 NS6 Visit 1 1996 "Staphylococcus epidermidis strain HD69-1 plasmid pHD69-1_2, complete sequence" Staphylococcus epidermidis; Acinetobacter baumannii; Burkholderia cepacia; Mycobacteroides abscessus; Neisseria meningitidis; Serratia marcescens; Shigella sonnei; Staphylococcus aureus; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Streptococcus pyogenes; Escherichia coli; Enterococcus faecium; Enterobacter kobei Staphylococcus aureus (chromosome or plasmid): 5; Staphylococcus (chromosome or plasmid): 1; 0 Staphylococcus aureus: 5; 0 2 M13761 Bacilli Bacilli Bacillales Staphylococcaceae Staphylococcus 3000617 mecA methicillin resistant PBP2 Strict PRM457 NS9 Visit 1 3412 "Staphylococcus aureus strain 14507 chromosome, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Escherichia coli Staphylococcus aureus (chromosome): 4; Staphylococcus aureus: 4; 0 0 0 M13761 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003905 ANT(4')-Ib ANT(4') Strict GBS162 FT3 Visit 1 1405 "Staphylococcus hominis strain FDAARGOS_661 plasmid unnamed2, complete sequence" Staphylococcus aureus Staphylococcus aureus (chromosome or plasmid): 3; 0 Staphylococcus aureus: 3; 0 0 M19465 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002865 dfrC trimethoprim resistant dihydrofolate reductase dfr Strict GBS162 FT3 Visit 1 1557 "Staphylococcus epidermidis strain none genome assembly, chromosome: 1" Staphylococcus epidermidis; Burkholderia cepacia; Enterococcus faecalis; Serratia marcescens; Staphylococcus aureus; Staphylococcus pseudintermedius; Streptococcus pneumoniae Staphylococcus epidermidis (chromosome): 26; Staphylococcus epidermidis (chromosome or plasmid): 85; Staphylococcus epidermidis: 26; Staphylococcus epidermidis: 85; 0 0 M19465 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000178 tet(K) major facilitator superfamily (MFS) antibiotic efflux pump Perfect GBS358 FT5 Visit 1 2121 "Staphylococcus aureus subsp. aureus strain ST20071176 plasmid pT45, complete sequence" Staphylococcus aureus; Pseudomonas aeruginosa; Shigella flexneri; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Listeria monocytogenes 0 0 0 0 0 MH090917 "Firmicutes,Proteobacteria" Bacilli Bacillales Staphylococcaceae Staphylococcus 3000178 tet(K) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM127 NS7 In-hospital 2700 "Staphylococcus epidermidis strain MCPSe216 plasmid pMCPSe216-01, complete sequence" Staphylococcus aureus; Mycobacterium tuberculosis; Pseudomonas aeruginosa; Shigella flexneri; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Vibrio cholerae; Escherichia coli; Salmonella enterica; Mycobacteroides abscessus; Clostridioides difficile; Listeria monocytogenes; Klebsiella pneumoniae Staphylococcus aureus (chromosome or plasmid): 46; Escherichia coli (chromosome or plasmid): 6; Staphylococcus epidermidis (chromosome or plasmid): 4; Staphylococcus pseudintermedius (chromosome or plasmid): 3; Clostridioides difficile (chromosome or plasmid): 2; Staphylococcus (chromosome or plasmid): 15; 0 Staphylococcus aureus: 46; Escherichia coli: 6; Staphylococcus epidermidis: 4; Staphylococcus pseudintermedius: 3; Clostridioides difficile: 2; 0 0 NC_001391 "Firmicutes,Bacteroidetes,Proteobacteria" Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict PRM429 NS7 Visit 1 1315 Staphylococcus epidermidis strain SESURV_p4_1553 chromosome Streptococcus pneumoniae; Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Escherichia coli Staphylococcus aureus (chromosome or plasmid): 6; Staphylococcus (chromosome): 1; Staphylococcus (chromosome or plasmid): 5; 0 Staphylococcus aureus: 6; 0 0 NC_006871 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000617 mecA methicillin resistant PBP2 Strict PRM429 NS7 Visit 1 2117 "Staphylococcus aureus TPS3156 DNA, complete genome" Staphylococcus epidermidis; Escherichia coli; Staphylococcus aureus; Staphylococcus pseudintermedius 0 0 0 0 0 NC_006871 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict GBS421 FT9 Visit 1 1303 "Staphylococcus epidermidis NBRC 100911 DNA, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Streptococcus pneumoniae; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Enterococcus faecalis; Escherichia coli Staphylococcus aureus (chromosome): 1; Staphylococcus epidermidis (chromosome): 1; Staphylococcus aureus (chromosome or plasmid): 8; Staphylococcus aureus (plasmid): 3; Staphylococcus (chromosome): 5; Staphylococcus (chromosome or plasmid): 87; Staphylococcus aureus: 1; Staphylococcus epidermidis: 1; Staphylococcus aureus: 8; Staphylococcus aureus: 3; 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict PRM955 PS8 Visit 2 1318 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Listeria monocytogenes; Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 2; 0 Staphylococcus aureus: 2; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict GBS378 FT6 Visit 1 1340 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus epidermidis; Staphylococcus aureus; Staphylococcus lugdunensis; Staphylococcus pseudintermedius Staphylococcus epidermidis (chromosome): 2; Staphylococcus aureus (chromosome or plasmid): 2; Staphylococcus (chromosome): 5; Staphylococcus (chromosome or plasmid): 37; Staphylococcus epidermidis: 2; Staphylococcus aureus: 2; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict PRM474 NS13 In-hospital 1346 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Staphylococcus epidermidis; Staphylococcus aureus Staphylococcus aureus (chromosome or plasmid): 2; 0 Staphylococcus aureus: 2; 0 0 NC_013382 Bacilli Bacilli Bacillales Staphylococcaceae Staphylococcus 3000251 msrA ABC-F ATP-binding cassette ribosomal protection protein Strict GBS378 FT6 Visit 1 1513 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Staphylococcus epidermidis; Staphylococcus aureus 0 0 0 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict GBS378 FT6 Visit 1 1513 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Staphylococcus aureus; Listeria monocytogenes; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 3; 0 Staphylococcus aureus: 3; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM484 NS4 Visit 2 1689 "Staphylococcus epidermidis strain HD12-1 chromosome, complete genome" Staphylococcus aureus; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli; Mycobacteroides abscessus Staphylococcus epidermidis (chromosome or plasmid): 15; 0 Staphylococcus epidermidis: 15; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM473 NS6 Visit 1 1843 "Staphylococcus haemolyticus strain Sh29/312/L2, complete genome" Staphylococcus aureus; Streptococcus agalactiae; Listeria monocytogenes; Staphylococcus epidermidis; Escherichia coli Staphylococcus epidermidis (chromosome or plasmid): 2; 0 Staphylococcus epidermidis: 2; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000251 msrA ABC-F ATP-binding cassette ribosomal protection protein Strict PRM298 NS1 In-hospital 1851 "Staphylococcus aureus strain UNC_SaCF07 plasmid unnamed, complete sequence" No data 0 0 0 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict PRM298 NS1 In-hospital 1851 "Staphylococcus aureus strain UNC_SaCF07 plasmid unnamed, complete sequence" Staphylococcus aureus Staphylococcus aureus (chromosome or plasmid): 2; 0 Staphylococcus aureus: 2; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM587 NS12 In-hospital 1944 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Staphylococcus aureus; Listeria monocytogenes; Staphylococcus epidermidis; Escherichia coli 0 0 0 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003047 qacB major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM915 PS4 Visit 2 1973 Staphylococcus epidermidis strain SESURV_p4_1553 plasmid unnamed2 Staphylococcus aureus; Staphylococcus epidermidis 0 0 0 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict GBS153 FT1 Visit 1 1977 "Staphylococcus aureus strain ER03910.3 chromosome, complete genome" Stenotrophomonas maltophilia; Listeria monocytogenes; Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 28; Staphylococcus epidermidis (chromosome or plasmid): 1; Staphylococcus aureus (plasmid): 1; 0 Staphylococcus aureus: 28; Staphylococcus epidermidis: 1; Staphylococcus aureus: 1; 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict PRM127 NS7 In-hospital 2095 "Staphylococcus epidermidis strain CBPA-ST-10002 isolate HPB10235 chromosome, complete genome" Staphylococcus aureus; Stenotrophomonas maltophilia; Listeria monocytogenes; Staphylococcus epidermidis; Escherichia coli Staphylococcus aureus (chromosome or plasmid): 66; Staphylococcus epidermidis (chromosome or plasmid): 1; Staphylococcus (chromosome or plasmid): 1; 0 Staphylococcus aureus: 66; Staphylococcus epidermidis: 1; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000621 PC1 beta-lactamase (blaZ) blaZ beta-lactamase Strict PRM127 NS7 In-hospital 2159 "Staphylococcus epidermidis strain none genome assembly, plasmid: 3" Staphylococcus aureus; Stenotrophomonas maltophilia; Staphylococcus epidermidis; Streptococcus pneumoniae; Staphylococcus pseudintermedius; Enterococcus faecalis; Escherichia coli; Staphylococcus lugdunensis; Listeria monocytogenes Staphylococcus aureus (chromosome): 7; Staphylococcus epidermidis (chromosome): 2; Staphylococcus aureus (chromosome or plasmid): 482; Staphylococcus epidermidis (chromosome or plasmid): 11; Staphylococcus pseudintermedius (chromosome or plasmid): 6; Escherichia coli (chromosome or plasmid): 2; Staphylococcus aureus (plasmid): 1; Staphylococcus (chromosome): 9; Staphylococcus (chromosome or plasmid): 265; Staphylococcus aureus: 7; Staphylococcus epidermidis: 2; Staphylococcus aureus: 482; Staphylococcus epidermidis: 11; Staphylococcus pseudintermedius: 6; Escherichia coli: 2; Staphylococcus aureus: 1; 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000251 msrA ABC-F ATP-binding cassette ribosomal protection protein Strict GBS358 FT5 Visit 1 2355 "Staphylococcus epidermidis strain FDAARGOS_161 plasmid unnamed1, complete sequence" Staphylococcus epidermidis; Listeria monocytogenes; Staphylococcus aureus Staphylococcus aureus (chromosome or plasmid): 3; 0 Staphylococcus aureus: 3; 0 1 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000319 mphC macrolide phosphotransferase (MPH) Strict GBS358 FT5 Visit 1 2355 "Staphylococcus epidermidis strain FDAARGOS_161 plasmid unnamed1, complete sequence" Staphylococcus aureus; Listeria monocytogenes; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 149; Staphylococcus epidermidis (chromosome or plasmid): 6; 0 Staphylococcus aureus: 149; Staphylococcus epidermidis: 6; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM955 PS8 Visit 2 2375 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli; Mycobacteroides abscessus 0 0 0 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict GBS421 FT9 Visit 1 2394 "Staphylococcus epidermidis strain B1200343 plasmid p1B1200343, complete sequence" Staphylococcus aureus; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli 0 0 0 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM298 NS1 In-hospital 2410 Staphylococcus epidermidis strain FDAARGOS_1364 plasmid unnamed2 Streptococcus agalactiae; Streptococcus pneumoniae; Escherichia coli; Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus epidermidis (chromosome or plasmid): 1; 0 Staphylococcus epidermidis: 1; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM227 NS9 In-hospital 2451 Staphylococcus epidermidis strain HD33 chromosome Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli; Mycobacteroides abscessus Staphylococcus epidermidis (chromosome or plasmid): 157; Staphylococcus aureus (chromosome or plasmid): 5; 0 Staphylococcus epidermidis: 157; Staphylococcus aureus: 5; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict GBS378 FT6 Visit 1 2486 Staphylococcus epidermidis strain SESURV_p4_1553 plasmid unnamed2 Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli 0 0 0 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM127 NS7 In-hospital 2745 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli; Mycobacteroides abscessus Staphylococcus epidermidis (chromosome or plasmid): 35; Staphylococcus aureus (chromosome or plasmid): 12; Staphylococcus (chromosome or plasmid): 17; 0 Staphylococcus epidermidis: 35; Staphylococcus aureus: 12; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003047 qacB major facilitator superfamily (MFS) antibiotic efflux pump Strict GBS410 FT8 Visit 1 2918 Staphylococcus epidermidis strain SESURV_p4_1553 plasmid unnamed2 Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 1; 0 Staphylococcus aureus: 1; 0 2 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003046 qacA major facilitator superfamily (MFS) antibiotic efflux pump Strict GBS153 FT1 Visit 1 2927 "Staphylococcus hominis strain FDAARGOS_748 plasmid unnamed1, complete sequence" Staphylococcus aureus; Streptococcus agalactiae; Streptococcus pneumoniae; Listeria monocytogenes; Staphylococcus epidermidis; Serratia marcescens; Escherichia coli; Mycobacteroides abscessus Staphylococcus epidermidis (chromosome or plasmid): 5; Staphylococcus aureus (chromosome or plasmid): 1; Staphylococcus (no genomic information): 1; 0 Staphylococcus epidermidis: 5; Staphylococcus aureus: 1; 0 0 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3003047 qacB major facilitator superfamily (MFS) antibiotic efflux pump Strict GBS358 FT5 Visit 1 2981 "Staphylococcus hominis strain 19A plasmid unnamed1, complete sequence" Staphylococcus aureus; Staphylococcus epidermidis Staphylococcus aureus (chromosome or plasmid): 4; Staphylococcus epidermidis (chromosome or plasmid): 2; Staphylococcus (chromosome or plasmid): 3; Staphylococcus (plasmid): 2; 0 Staphylococcus aureus: 4; Staphylococcus epidermidis: 2; 0 38 NC_013382 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002868 dfrG trimethoprim resistant dihydrofolate reductase dfr Perfect PRM587 NS12 In-hospital 1516 Enterococcus faecium strain ME3 chromosome Staphylococcus aureus; Staphylococcus epidermidis; Enterococcus faecalis; Enterococcus faecium; Escherichia coli; Klebsiella aerogenes; Klebsiella pneumoniae; Staphylococcus pseudintermedius; Streptococcus pyogenes Staphylococcus aureus (chromosome or plasmid): 1; 0 Staphylococcus aureus: 1; 0 0 NC_016009 "Proteobacteria,Bacteroidetes,Firmicutes" Bacilli Bacillales Staphylococcaceae Staphylococcus 3004458 Enterococcus faecalis chloramphenicol acetyltransferase chloramphenicol acetyltransferase (CAT) Perfect PRM587 NS12 In-hospital 2235 Staphylococcus pseudintermedius strain VTH737 chromosome Enterococcus faecalis; Mycobacterium tuberculosis; Staphylococcus aureus; Enterococcus faecium; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Streptococcus agalactiae 0 0 0 0 227 NC_016009 "Proteobacteria,Bacteroidetes,Firmicutes" Bacilli Bacillales Staphylococcaceae Staphylococcus 3002865 dfrC trimethoprim resistant dihydrofolate reductase dfr Perfect GBS421 FT9 Visit 1 1511 "Staphylococcus epidermidis strain O47 chromosome, complete genome" Staphylococcus epidermidis; Staphylococcus aureus Staphylococcus epidermidis (chromosome): 4; Staphylococcus epidermidis (chromosome or plasmid): 89; Staphylococcus (chromosome): 1; Staphylococcus epidermidis: 4; Staphylococcus epidermidis: 89; 0 0 NC_018969 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000250 ErmC Erm 23S ribosomal RNA methyltransferase Strict GBS421 FT9 Visit 1 1825 "Staphylococcus aureus strain SR42 plasmid pSR42, complete sequence" Staphylococcus epidermidis; Burkholderia cepacia; Mycobacteroides abscessus; Neisseria meningitidis; Serratia marcescens; Shigella sonnei; Staphylococcus aureus; Staphylococcus lugdunensis; Staphylococcus pseudintermedius; Streptococcus pneumoniae; Streptococcus pyogenes; Escherichia coli; Enterococcus faecium; Klebsiella pneumoniae; Enterobacter kobei Staphylococcus aureus (chromosome or plasmid): 46; Staphylococcus epidermidis (chromosome or plasmid): 2; Staphylococcus pseudintermedius (chromosome or plasmid): 1; Staphylococcus aureus (plasmid): 5; 0 Staphylococcus aureus: 46; Staphylococcus epidermidis: 2; Staphylococcus pseudintermedius: 1; Staphylococcus aureus: 5; 0 NC_018969 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000124 mecI methicillin resistant PBP2 Perfect GBS421 FT9 Visit 1 4987 "Staphylococcus hominis strain C34847, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius Staphylococcus aureus (chromosome): 4; Staphylococcus (chromosome): 4; Staphylococcus aureus: 4; 0 0 0 NC_018969 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000215 mecR1 methicillin resistant PBP2 Perfect GBS421 FT9 Visit 1 4987 "Staphylococcus hominis strain C34847, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius Staphylococcus (chromosome): 60; 0 0 0 0 NC_018969 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000617 mecA methicillin resistant PBP2 Strict GBS421 FT9 Visit 1 4987 "Staphylococcus hominis strain C34847, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus lugdunensis; Staphylococcus pseudintermedius Staphylococcus aureus (chromosome): 11; Staphylococcus aureus: 11; 0 0 0 NC_018969 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002835 lnuA lincosamide nucleotidyltransferase (LNU) Strict PRM298 NS1 In-hospital 1367 Staphylococcus warneri strain Cap 100.1 plasmid unnamed3 Staphylococcus aureus; Staphylococcus epidermidis; Streptococcus pneumoniae; Listeria monocytogenes; Enterococcus faecium; Escherichia coli 0 0 0 0 80 NC_019146 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3000215 mecR1 methicillin resistant PBP2 Strict PRM484 NS4 Visit 2 3185 "Staphylococcus aureus strain 14507 chromosome, complete genome" Staphylococcus aureus; Staphylococcus epidermidis; Staphylococcus pseudintermedius Staphylococcus (chromosome): 19; 0 0 0 0 NC_022228 Staphylococcus Bacilli Bacillales Staphylococcaceae Staphylococcus 3002628 aad(6) ANT(6) Strict PRM599 NS8 Visit 2 1685 "Enterococcus faecium strain E1077 plasmid pE1077-217, complete sequence" Streptococcus oralis; Campylobacter coli; Campylobacter jejuni; Enterococcus faecalis; Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Clostridioides difficile; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Streptococcus pyogenes; Streptococcus pneumoniae; Escherichia coli; Klebsiella pneumoniae Streptococcus pyogenes (chromosome or plasmid): 12; Staphylococcus aureus (chromosome or plasmid): 1; Staphylococcus pseudintermedius (chromosome or plasmid): 1; 0 Streptococcus pyogenes: 12; Staphylococcus aureus: 1; Staphylococcus pseudintermedius: 1; 0 0 CP027488 Staphylococcus Bacilli Lactobacillales Streptococcaceae Streptococcus 3002628 aad(6) ANT(6) Strict PRM468 NS3 Visit 1 1687 "Staphylococcus aureus strain Guangzhou-SAU071 chromosome, complete genome" Streptococcus oralis; Enterobacter hormaechei; Campylobacter coli; Campylobacter jejuni; Enterococcus faecalis; Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Clostridioides difficile; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Streptococcus pyogenes; Escherichia coli; Klebsiella pneumoniae; Klebsiella aerogenes Streptococcus pyogenes (chromosome or plasmid): 6; Staphylococcus aureus (chromosome or plasmid): 2; Enterococcus faecium (chromosome or plasmid): 2; Enterococcus faecalis (chromosome or plasmid): 1; 0 Streptococcus pyogenes: 6; Staphylococcus aureus: 2; Enterococcus faecium: 2; Enterococcus faecalis: 1; 0 0 CP027488 Enterococcus Bacilli Lactobacillales Streptococcaceae Streptococcus 3000186 tetM tetracycline-resistant ribosomal protection protein Strict GBS358 FT5 Visit 1 2853 "Streptococcus pneumoniae strain 2245STDY5699394 genome assembly, chromosome: 1" Neisseria gonorrhoeae; Streptococcus agalactiae; Staphylococcus aureus; Streptococcus pyogenes; Streptococcus pneumoniae; Escherichia coli; Klebsiella pneumoniae; Clostridioides difficile; Enterococcus faecalis; Enterococcus faecium; Listeria monocytogenes; Staphylococcus pseudintermedius Streptococcus pyogenes (chromosome or plasmid): 21; Escherichia coli (chromosome or plasmid): 1; Streptococcus pneumoniae (chromosome or plasmid): 1; 0 Streptococcus pyogenes: 21; Escherichia coli: 1; Streptococcus pneumoniae: 1; 0 0 CP035352 Staphylococcaceae Bacilli Lactobacillales Streptococcaceae Streptococcus 3000190 tetO tetracycline-resistant ribosomal protection protein Strict GBS394 FT7 Visit 1 2662 "Clostridiales genomosp. BVAB1 isolate UAB071 chromosome, complete genome" Streptococcus agalactiae; Streptococcus anginosus; Streptococcus constellatus; Streptococcus pyogenes; Escherichia coli; Enterococcus faecalis; Campylobacter coli; Campylobacter jejuni; Clostridioides difficile Streptococcus anginosus (chromosome or plasmid): 27; Enterococcus faecalis (chromosome or plasmid): 1; Campylobacter jejuni (chromosome or plasmid): 1; Streptococcus (chromosome or plasmid): 18; 0 Streptococcus anginosus: 27; Enterococcus faecalis: 1; Campylobacter jejuni: 1; 0 0 CP036332 Gammaproteobacteria Bacilli Lactobacillales Streptococcaceae Streptococcus 3000190 tetO tetracycline-resistant ribosomal protection protein Strict GBS162 FT3 Visit 1 1988 "Streptococcus canis strain HL_77_1 chromosome, complete genome" Enterococcus faecalis; Enterococcus faecium; Streptococcus agalactiae; Streptococcus pneumoniae; Streptococcus pyogenes; Staphylococcus aureus; Campylobacter jejuni; Campylobacter coli 0 0 0 0 0 NC_010500 Gammaproteobacteria Bacilli Lactobacillales Streptococcaceae Streptococcus 3002837 lnuC lincosamide nucleotidyltransferase (LNU) Strict PRM915 PS4 Visit 2 1389 "Uncultured prokaryote from Rat gut metagenome metamobilome, plasmid pRGRH0135" Streptococcus agalactiae; Campylobacter coli; Campylobacter jejuni; Enterococcus faecalis; Escherichia coli; Clostridioides difficile Streptococcus agalactiae (chromosome or plasmid): 70; 0 Streptococcus agalactiae: 70; 0 0 NC_012661 Glaesserella Bacilli Lactobacillales Streptococcaceae Streptococcus 3001094 SHV-36 SHV beta-lactamases Perfect PRM760 NS11 Visit 1 1268 "Klebsiella pneumoniae strain INF235-sc-2280127 chromosome, complete genome" Klebsiella pneumoniae 0 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001845 ACT-25 ACT beta-lactamase Strict PRM483 NS5 Visit 1 1305 "Enterobacter hormaechei strain E70 chromosome, complete genome" Enterobacter cloacae; Enterobacter hormaechei Enterobacter (chromosome): 7; 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3004720 Tet(X4) Tetracycline inactivation enzymes Strict PRM484 NS4 Visit 2 1348 Uncultured bacterium clone TE_08X_000_Contig_8 genomic sequence Escherichia coli; Klebsiella pneumoniae; Shigella flexneri 0 0 0 0 7 None NA None None None None 3003655 ACT-38 ACT beta-lactamase Strict PRM760 NS11 Visit 1 1389 "Leclercia sp. 4-9-1-25 chromosome, complete genome" Enterobacter hormaechei Enterobacter (chromosome): 7; 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3003723 vanI Vancomycin resistance genes Strict PRM832 NS10 Visit 2 1390 "Streptomyces rimosus strain ATCC 10970 chromosome, complete genome" No data 0 0 0 0 0 None NA None None None None 3002999 CblA-1 CblA beta-lactamase Strict PRM867 NS13 Visit 3 1426 "Top hits were uncultured bacteria with this in the top 10: Bacteroides uniformis CL03T12C37 chromosome, complete genome" mixed culture 0 0 0 0 0 None NA None None None None 3003172 ACT-37 ACT beta-lactamase Strict PRM426 NS2 Visit 1 1446 "Enterobacter hormaechei subsp. hormaechei strain 34983, complete genome" Enterobacter cloacae; Enterobacter hormaechei Enterobacter hormaechei (chromosome): 128; Enterobacter hormaechei: 128; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3003154 SHV-187 SHV beta-lactamases Perfect PRM832 NS10 Visit 2 1446 "Klebsiella pneumoniae strain A16KP0119 chromosome, complete genome" No data 0 0 0 0 0 None NA None None None None 3002148 DHA-17 DHA beta-lactamse Perfect PRM935 NS12 Visit 4 1454 "Morganella morganii strain MMAS2018 chromosome, complete genome" Morganella morganii Morganella morganii (chromosome): 3; Morganella morganii (chromosome or plasmid): 6; Morganella morganii: 3; Morganella morganii: 6; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Morganella 3004623 AAC(3)-IId AAC(3) Perfect PRM795 NS12 Visit 3 1481 "Escherichia coli strain SCU-147 plasmid pSCU-147-1, complete sequence" Acinetobacter baumannii; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Escherichia coli; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio cholerae; Proteus vulgaris 0 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3001059 SHV-1 SHV beta-lactamases Strict PRM677 NS11 In-Hospital 1495 "Klebsiella pneumoniae strain FDAARGOS_566 chromosome 1, complete sequence" Escherichia coli; Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 1; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002999 CblA-1 CblA beta-lactamase Strict PRM484 NS4 Visit 2 1501 Uncultured bacterium clone PE_03D_000_Contig_4 genomic sequence mixed culture 0 0 0 0 0 None NA None None None None 3003154 SHV-187 SHV beta-lactamases Perfect PRM907 NS11 Visit 3 1513 "Klebsiella pneumoniae strain A16KP0119 chromosome, complete genome" Klebsiella pneumoniae 0 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3002999 CblA-1 CblA beta-lactamase Perfect GBS378 FT6 Visit 1 1528 "Top hits were uncultured bacteria with this in the top 10: Bacteroides uniformis ORF2, partial cds and beta-lactamase (cblA) gene, complete cds" mixed culture 0 0 0 0 0 None NA None None None None 3000230 ANT(2'')-Ia ANT(2'') Strict PRM785 PS4 In-hospital 1562 "Corynebacterium asperum class 1 integron containing transposon intI1 gene, aadB gene, ORFX, oxa2 gene and aadA1 gene" Acinetobacter baumannii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella pneumoniae; Pseudomonas aeruginosa; Escherichia coli; Stenotrophomonas maltophilia; Serratia marcescens; Salmonella enterica Enterobacter hormaechei (chromosome or plasmid): 2; Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Enterobacter hormaechei: 2; Klebsiella pneumoniae: 1; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3002148 DHA-17 DHA beta-lactamse Perfect PRM934 NS11 Visit 4 1595 "Morganella morganii strain MMAS2018 chromosome, complete genome" Morganella morganii; Klebsiella pneumoniae Morganella morganii (chromosome): 4; Morganella morganii (chromosome or plasmid): 21; Morganella morganii: 4; Morganella morganii: 21; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Morganella 3003171 ACT-36 ACT beta-lactamase Strict PRM870 NS9 Visit 4 1598 "Enterobacter hormaechei strain SCEH020042 chromosome, complete genome" Escherichia coli; Enterobacter cloacae Enterobacter (chromosome): 5; 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3004623 AAC(3)-IId AAC(3) Perfect PRM839 NS5 Visit 4 1618 "Escherichia coli strain SCU-147 plasmid pSCU-147-1, complete sequence" Escherichia coli; Acinetobacter baumannii; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio cholerae; Proteus vulgaris Klebsiella pneumoniae (chromosome or plasmid): 4; Escherichia coli (chromosome or plasmid): 3; 0 Klebsiella pneumoniae: 4; Escherichia coli: 3; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3001608 OXA-417 OXA beta-lactamase Perfect PRM832 NS10 Visit 2 1631 "Acinetobacter pittii DNA, complete genome, strain: WP2-W18-ESBL-11" Acinetobacter calcoaceticus 0 0 0 0 0 None NA Gammaproteobacteria Pseudomonadales Moraxellaceae Acinetobacter 3002999 CblA-1 CblA beta-lactamase Strict PRM473 NS6 Visit 1 1643 Uncultured bacterium clone AX_08G_000_Contig_10 genomic sequence mixed culture 0 0 0 0 0 None NA None None None None 3001117 SHV-62 SHV beta-lactamases Perfect PRM795 NS12 Visit 3 1655 "Klebsiella pneumoniae isolate INF323-sc-2280125 genome assembly, chromosome: 1" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 32; 0 Klebsiella pneumoniae: 32; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001877 CTX-M-14 CTX-M beta-lactamase Perfect PRM839 NS5 Visit 4 1673 "Escherichia coli strain DH5alpha plasmid pESBL76, complete sequence" Escherichia coli; Citrobacter freundii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio parahaemolyticus; Klebsiella aerogenes 0 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002999 CblA-1 CblA beta-lactamase Strict PRM866 NS13 Visit 2 1677 "Top hits were uncultured bacteria with this in the top 10: Bacteroides uniformis strain CL06T03C05 chromosome, complete genome" mixed culture 0 0 0 0 0 None NA None None None None 3002999 CblA-1 CblA beta-lactamase Strict GBS153 FT1 Visit 1 1691 "Top hits were uncultured bacteria with this in the top 10: Bacteroides uniformis ORF2, partial cds and beta-lactamase (cblA) gene, complete cds" mixed culture 0 0 0 0 0 None NA None None None None 3001059 SHV-1 SHV beta-lactamases Perfect PRM298 NS1 In-Hospital 1705 "Klebsiella pneumoniae strain E16KP0288 chromosome, complete genome" Escherichia coli; Klebsiella oxytoca; Klebsiella pneumoniae 0 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001090 SHV-32 SHV beta-lactamases Perfect PRM473 NS6 Visit 1 1856 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 77; 0 Klebsiella pneumoniae: 77; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001838 ACT-17 ACT beta-lactamase Perfect PRM901 PS5 Visit 1 1881 "Enterobacter hormaechei strain Y233 chromosome, complete genome" Enterobacter cloacae; Enterobacter hormaechei; Klebsiella pneumoniae Enterobacter hormaechei (chromosome): 14; Enterobacter (chromosome): 14; Enterobacter hormaechei: 14; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3003171 ACT-36 ACT beta-lactamase Strict PRM473 NS6 Visit 1 1905 "Enterobacter hormaechei strain E5 chromosome, complete genome" Enterobacter hormaechei; Escherichia coli 0 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3001780 OXA-85 OXA beta-lactamase Perfect PRM640 NS13 Visit 1 1913 "Fusobacterium pseudoperiodonticum strain KCOM 1277 chromosome, complete genome" Fusobacterium nucleatum 0 0 0 0 0 None NA Fusobacteriia Fusobacteriales Fusobacteriaceae Fusobacterium 3001099 SHV-41 SHV beta-lactamases Perfect PRM457 NS9 Visit 1 1936 "Klebsiella pneumoniae strain RHB30-C05 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 259; Acinetobacter baumannii (chromosome or plasmid): 1; Escherichia coli (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 259; Acinetobacter baumannii: 1; Escherichia coli: 1; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3001841 ACT-20 ACT beta-lactamase Strict PRM640 NS13 Visit 1 1944 "Enterobacter hormaechei subsp. xiangfangensis strain Ec61 chromosome, complete genome" Enterobacter hormaechei; Enterobacter cloacae Enterobacter (chromosome): 56; Enterobacter (no genomic information): 5; 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3001845 ACT-25 ACT beta-lactamase Perfect PRM907 NS11 Visit 3 1944 "Enterobacter cloacae strain 174 chromosome, complete genome" No data 0 0 0 0 0 None NA None None None 3003171 ACT-36 ACT beta-lactamase Strict PRM760 NS11 Visit 1 1959 "Enterobacter hormaechei strain E5 chromosome, complete genome" Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli Enterobacter (chromosome): 1; 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3002148 DHA-17 DHA beta-lactamse Perfect PRM907 NS11 Visit 3 1982 "Morganella morganii strain MMAS2018 chromosome, complete genome" Morganella morganii; Klebsiella pneumoniae Morganella morganii (chromosome): 1; Morganella morganii (chromosome or plasmid): 17; Morganella morganii: 1; Morganella morganii: 17; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Morganella 3002999 CblA-1 CblA beta-lactamase Strict PRM933 NS13 Visit 4 2004 "Top hits were uncultured bacteria with this in the top 10: Bacteroides uniformis CL03T12C37 chromosome, complete genome" mixed culture 0 0 0 0 0 None NA None None None None 3001084 SHV-26 SHV beta-lactamases Perfect PRM908 NS2 Visit 4 2006 "Klebsiella pneumoniae strain Bckp206 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome or plasmid): 91; 0 Klebsiella pneumoniae: 91; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3003171 ACT-36 ACT beta-lactamase Strict PRM484 NS4 Visit 2 2141 "Enterobacter hormaechei strain E5 chromosome, complete genome" Enterobacter cloacae; Escherichia coli Enterobacter cloacae (chromosome): 1; Enterobacter (chromosome): 1; Enterobacter cloacae: 1; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3000205 tetX Tetracycline inactivation enzymes Strict PRM473 NS6 Visit 1 2250 "Top hits were uncultured bacteria with this in the top 10: Bacteroides fragilis strain FDAARGOS_763 plasmid unnamed2, complete sequence" Bacteroides fragilis; Escherichia coli Acinetobacter (plasmid): 26; 0 0 0 61 None NA None None None None 3000205 tetX Tetracycline inactivation enzymes Strict PRM794 NS12 Visit 2 2250 "Top hits were uncultured bacteria with this in the top 10: Bacteroides fragilis strain FDAARGOS_763 plasmid unnamed2, complete sequence" Bacteroides fragilis; Escherichia coli Acinetobacter (plasmid): 35; 0 0 0 77 None NA None None None None 3001090 SHV-32 SHV beta-lactamases Perfect PRM426 NS2 Visit 1 2284 "Klebsiella pneumoniae strain FDAARGOS_1324 chromosome, complete genome" Klebsiella pneumoniae Klebsiella pneumoniae (chromosome): 3; Klebsiella pneumoniae (chromosome or plasmid): 261; Klebsiella pneumoniae: 3; Klebsiella pneumoniae: 261; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3000205 tetX Tetracycline inactivation enzymes Strict PRM587 NS12 In-Hospital 2305 "Top hits were uncultured bacteria with this in the top 10: Bacteroides fragilis strain FDAARGOS_763 plasmid unnamed2, complete sequence" Bacteroides fragilis; Escherichia coli Acinetobacter (plasmid): 924; 0 0 0 2123 None NA None None None None 3001877 CTX-M-14 CTX-M beta-lactamase Perfect PRM534 NS5 In-Hospital 2331 "Escherichia coli strain DH5alpha plasmid pESBL76, complete sequence" Escherichia coli; Citrobacter freundii; Enterobacter asburiae; Enterobacter cloacae; Enterobacter hormaechei; Klebsiella oxytoca; Klebsiella pneumoniae; Proteus mirabilis; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Vibrio parahaemolyticus; Klebsiella aerogenes Klebsiella pneumoniae (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 1; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3001838 ACT-17 ACT beta-lactamase Perfect PRM902 PS6 Visit 1 2344 "Enterobacter hormaechei strain NCTC 9394 genome assembly, ENC001" Enterobacter cloacae; Enterobacter hormaechei; Klebsiella pneumoniae Enterobacter hormaechei (chromosome): 43; Enterobacter (chromosome): 43; Enterobacter hormaechei: 43; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3004720 Tet(X4) Tetracycline inactivation enzymes Strict PRM474 NS13 In-Hospital 2348 "Top hits were uncultured bacteria with this in the top 10: Bacteroides fragilis strain FDAARGOS_763 plasmid unnamed2, complete sequence" Escherichia coli; Klebsiella pneumoniae; Shigella flexneri 0 0 0 0 15 None NA None None None None 3001844 ACT-24 ACT beta-lactamase Strict PRM457 NS9 Visit 1 2489 "Enterobacter hormaechei strain SCEH020042 chromosome, complete genome" Enterobacter cloacae; Enterobacter hormaechei Enterobacter hormaechei (chromosome): 3; Enterobacter (chromosome): 123; Enterobacter (no genomic information): 1; Enterobacter hormaechei: 3; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3002169 MIR-3 MIR beta-lactamase Strict PRM457 NS9 Visit 1 2489 "Enterobacter hormaechei strain SCEH020042 chromosome, complete genome" Enterobacter cloacae Enterobacter cloacae (chromosome): 15; Enterobacter cloacae: 15; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3002895 SAT-2 or SAT-1? streptothricin acetyltransferase (SAT) Perfect PRM901 PS5 Visit 1 2871 "Escherichia coli strain AH01 chromosome, complete genome" Escherichia coli; Acinetobacter baumannii; Acinetobacter lwoffii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio vulnificus; Yersinia enterocolitica 0 0 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3001838 ACT-17 ACT beta-lactamase Strict PRM388 NS6 In-hospital 3098 "Enterobacter hormaechei strain 49589CZ chromosome, complete genome" "Enterobacter cloacae; Enterobacter hormaechei; Klebsiella aerogenes; Klebsiella pneumoniae " Enterobacter hormaechei (chromosome): 30; Enterobacter cloacae (chromosome): 7; Klebsiella pneumoniae (chromosome): 1; Enterobacter (chromosome): 187; Enterobacter (no genomic information): 1; Enterobacter hormaechei: 30; Enterobacter cloacae: 7; Klebsiella pneumoniae: 1; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3002923 vanRD Vancomycin resistance genes Strict PRM947 PS2 Visit 4 3271 "Escherichia coli strain NT1N31 chromosome, complete genome" Enterococcus faecalis; Enterococcus faecium 0 0 0 0 0 None NA None None None None 3000205 tetX Tetracycline inactivation enzymes Strict PRM897 NS7 Visit 4 3840 "Top hits were uncultured bacteria with this in the top 10: Bacteroides fragilis strain FDAARGOS_763 plasmid unnamed2, complete sequence" Bacteroides fragilis; Escherichia coli Acinetobacter (plasmid): 1291; 0 0 0 4953 None NA None None None None 3001059 SHV-1 SHV beta-lactamases Perfect PRM364 NS4 In-Hospital 4182 "Enterococcus faecalis strain TH4125 chromosome, complete genome" Klebsiella pneumoniae; Escherichia coli; Salmonella enterica Klebsiella pneumoniae (chromosome or plasmid): 3; Acinetobacter baumannii (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 3; Acinetobacter baumannii: 1; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Klebsiella 3003171 ACT-36 ACT beta-lactamase Strict PRM427 NS10 In-hospital 4625 "Enterobacter hormaechei strain RHBSTW-00016 chromosome, complete genome" Enterobacter cloacae; Enterobacter hormaechei; Escherichia coli Enterobacter hormaechei (chromosome): 10; Enterobacter cloacae (chromosome): 1; Enterobacter (chromosome): 227; Enterobacter hormaechei: 10; Enterobacter cloacae: 1; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3002175 MIR-10 MIR beta-lactamase Strict PRM833 NS10 Visit 3 4914 Escherichia coli strain 144 chromosome Enterobacter asburiae Enterobacter cloacae (chromosome): 37; Enterobacter (chromosome): 1; Enterobacter cloacae: 37; 0 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Enterobacter 3000368 vanC Vancomycin resistance genes Strict PRM934 NS11 Visit 4 6165 "Enterococcus gallinarum strain FDAARGOS_728 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002922 vanRC Vancomycin resistance genes Strict PRM934 NS11 Visit 4 6165 "Enterococcus gallinarum strain FDAARGOS_728 chromosome, complete genome" Enterococcus gallinarum; Enterococcus faecium 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002933 vanSC Vancomycin resistance genes Strict PRM934 NS11 Visit 4 6165 "Enterococcus gallinarum strain FDAARGOS_728 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002966 vanXYC Vancomycin resistance genes Perfect PRM934 NS11 Visit 4 6165 "Enterococcus gallinarum strain FDAARGOS_728 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002970 vanTC Vancomycin resistance genes Strict PRM934 NS11 Visit 4 6165 "Enterococcus gallinarum strain FDAARGOS_728 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3000368 vanC Vancomycin resistance genes Strict PRM839 NS5 Visit 4 6373 "Enterococcus gallinarum strain EGM181 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002922 vanRC Vancomycin resistance genes Strict PRM839 NS5 Visit 4 6373 "Enterococcus gallinarum strain EGM181 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002966 vanXYC Vancomycin resistance genes Perfect PRM839 NS5 Visit 4 6373 "Enterococcus gallinarum strain EGM181 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002970 vanTC Vancomycin resistance genes Strict PRM839 NS5 Visit 4 6373 "Enterococcus gallinarum strain EGM181 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3000368 vanC Vancomycin resistance genes Strict PRM907 NS11 Visit 3 6688 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002922 vanRC Vancomycin resistance genes Strict PRM907 NS11 Visit 3 6688 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum; Enterococcus faecium 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002933 vanSC Vancomycin resistance genes Strict PRM907 NS11 Visit 3 6688 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002966 vanXYC Vancomycin resistance genes Perfect PRM907 NS11 Visit 3 6688 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002970 vanTC Vancomycin resistance genes Strict PRM907 NS11 Visit 3 6688 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3004623 AAC(3)-IId AAC(3) Perfect PRM534 NS5 In-Hospital 7381 "Escherichia coli strain U15A plasmid pU15A_A, complete sequence" Escherichia coli; Acinetobacter baumannii; Acinetobacter junii; Acinetobacter lwoffii; Acinetobacter nosocomialis; Citrobacter amalonaticus; Citrobacter freundii; Citrobacter koseri; Citrobacter youngae; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella aerogenes; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Providencia rettgeri; Pseudomonas aeruginosa; Salmonella enterica; Serratia marcescens; Shigella flexneri; Shigella sonnei; Stenotrophomonas maltophilia; Vibrio cholerae; Proteus vulgaris Klebsiella pneumoniae (chromosome or plasmid): 12; Escherichia coli (chromosome or plasmid): 2; Pseudomonas aeruginosa (chromosome or plasmid): 2; Enterobacter hormaechei (chromosome or plasmid): 1; 0 Klebsiella pneumoniae: 12; Escherichia coli: 2; Pseudomonas aeruginosa: 2; Enterobacter hormaechei: 1; 0 0 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3000368 vanC Vancomycin resistance genes Strict PRM935 NS12 Visit 4 7918 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002922 vanRC Vancomycin resistance genes Strict PRM935 NS12 Visit 4 7918 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum; Enterococcus faecium 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002966 vanXYC Vancomycin resistance genes Perfect PRM935 NS12 Visit 4 7918 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum; Enterococcus faecium 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002970 vanTC Vancomycin resistance genes Strict PRM935 NS12 Visit 4 7918 "Enterococcus sp. FDAARGOS_553 chromosome, complete genome" Enterococcus gallinarum 0 0 0 0 0 None NA Bacilli Lactobacillales Enterococcaceae Enterococcus 3002895 SAT-2 or SAT-1? streptothricin acetyltransferase (SAT) Perfect GBS171 FT4 Visit 1 8221 "Escherichia coli strain SCU-306 chromosome, complete genome" "Escherichia coli; Acinetobacter baumannii; Acinetobacter lwoffii; Citrobacter freundii; Enterobacter cloacae; Enterobacter hormaechei; Enterobacter kobei; Klebsiella oxytoca; Klebsiella pneumoniae; Morganella morganii; Proteus mirabilis; Proteus vulgaris; Providencia rettgeri; Providencia stuartii; Pseudomonas aeruginosa; Raoultella planticola; Salmonella enterica; Serratia marcescens; Shigella dysenteriae; Shigella flexneri; Shigella sonnei; Vibrio cholerae; Vibrio vulnificus; Yersinia enterocolitica " Escherichia coli (chromosome or plasmid): 7; Providencia rettgeri (chromosome or plasmid): 1; Shigella flexneri (chromosome or plasmid): 1; 0 Escherichia coli: 7; Providencia rettgeri: 1; Shigella flexneri: 1; 0 5 None NA Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3002628 aad(6) ANT(6) Strict PRM879 PS2 Visit 2 1274 "Enterococcus faecium strain 16-164 plasmid p16-164_1, complete sequence" Streptococcus oralis; Enterococcus faecium; Staphylococcus aureus; Staphylococcus epidermidis; Streptococcus agalactiae; Enterococcus faecalis; Streptococcus pyogenes; Staphylococcus pseudintermedius; Campylobacter coli; Campylobacter jejuni; Clostridioides difficile Streptococcus pyogenes (chromosome or plasmid): 1; Staphylococcus aureus (chromosome or plasmid): 1; 0 Streptococcus pyogenes: 1; Staphylococcus aureus: 1; 0 0 U32369 Exiguobacterium Gammaproteobacteria Enterobacteriales Enterobacteriaceae Escherichia 3003196 tet(45) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM794 NS12 Visit 2 1371 Streptococcus gallolyticus strain FDAARGOS_666 chromosome Enterococcus faecalis; Enterococcus faecium; Streptococcus anginosus; Staphylococcus aureus; Streptococcus pyogenes 0 0 0 0 0 U32369 Enterococcus Bacilli Lactobacillales Enterococcaceae Enterococcus 3003196 tet(45) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM774 NS4 Visit 4 1721 "Lactococcus garvieae strain LG1267 plasmid pLG1267-optrA, complete sequence" Enterococcus faecalis; Enterococcus faecium; Klebsiella pneumoniae; Staphylococcus aureus; Streptococcus agalactiae; Streptococcus anginosus; Streptococcus pyogenes 0 0 0 0 0 U32369 Enterococcus Bacilli Lactobacillales None None 3003196 tet(45) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM845 PS2 Visit 1 1893 "Enterococcus faecalis strain E211 plasmid pE211-2, complete sequence" Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Enterococcus faecalis; Klebsiella pneumoniae; Streptococcus anginosus; Streptococcus pyogenes; Campylobacter coli Enterococcus faecalis (chromosome or plasmid): 1; 0 Enterococcus faecalis: 1; 0 0 U32369 Exiguobacterium Campylobacteria Campylobacterales Campylobacteraceae Campylobacter 3003196 tet(45) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM775 NS3 Visit 4 1956 Streptococcus gallolyticus strain FDAARGOS_666 chromosome Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Enterococcus faecalis; Klebsiella pneumoniae; Streptococcus anginosus; Streptococcus pyogenes; Campylobacter coli Enterococcus faecium (chromosome or plasmid): 16; Staphylococcus aureus (chromosome or plasmid): 1; 0 Enterococcus faecium: 16; Staphylococcus aureus: 1; 0 0 U32369 Exiguobacterium Bacilli Lactobacillales Enterococcaceae Enterococcus 3003196 tet(45) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM599 NS8 VIsit 2 2033 Streptococcus gallolyticus strain FDAARGOS_666 chromosome Enterococcus faecium; Staphylococcus aureus; Streptococcus agalactiae; Enterococcus faecalis; Klebsiella pneumoniae; Streptococcus anginosus; Streptococcus pyogenes; Campylobacter coli Enterococcus faecium (chromosome or plasmid): 3; 0 Enterococcus faecium: 3; 0 0 U32369 Enterococcus Bacilli Lactobacillales Enterococcaceae Enterococcus 3000179 tet(L) major facilitator superfamily (MFS) antibiotic efflux pump Strict PRM879 PS2 Visit 2 2082 "Enterococcus faecalis S7316 plasmid pS7316optrA DNA, complete sequence" Geobacillus stearothermophilus; Enterococcus faecium; Escherichia coli; Enterococcus faecalis; Staphylococcus aureus; Streptococcus pyogenes 0 0 0 0 0 U32369 Exiguobacterium Bacilli Lactobacillales Enterococcaceae Enterococcus 3004458 Enterococcus faecalis chloramphenicol acetyltransferase chloramphenicol acetyltransferase (CAT) Perfect PRM901 PS5 Visit 1 1576 "Enterococcus faecium isolate E8014 genome assembly, plasmid: 3" Enterococcus faecalis; Mycobacterium tuberculosis; Staphylococcus aureus; Enterococcus faecium; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Streptococcus agalactiae 0 0 0 0 133 U83488 Enterococcus Bacilli Lactobacillales Enterococcaceae Enterococcus 3004458 Enterococcus faecalis chloramphenicol acetyltransferase chloramphenicol acetyltransferase (CAT) Perfect PRM760 NS11 Visit 1 2034 "Enterococcus faecium isolate E8014 genome assembly, plasmid: 3" Enterococcus faecalis; Burkholderia cepacia; Mycobacterium tuberculosis; Staphylococcus aureus; Enterococcus faecium; Staphylococcus epidermidis; Staphylococcus pseudintermedius; Streptococcus agalactiae; Pseudomonas putida 0 0 0 0 584 U83488 "Bacteroidetes,Proteobacteria,Firmicutes" Bacilli Lactobacillales Enterococcaceae Enterococcus