Table 7.
Primers used in the study
| Primer Name | Gene/Function | Sequence 5’–3’ | Product size | Reference |
|---|---|---|---|---|
| chuA.1 | Phylogrouping | GACGAACCAACGGTCAGGAT | 279 | [17] |
| chuA.2 | TGCCGCCAGTACCAAAGACA | |||
| yjaA.1 | Phylogrouping | TGAAGTGTCAGGAGACGCTG | 211 | [17] |
| yjaA.2 | ATGGAGAATGCGTTCCTCAAC | |||
| TspE4C2.1 | Phylogrouping | GAGTAATGTCGGGGCATTCA | 152 | [17] |
| TspE4C2.2 | CGCGCCAACAAAGTATTACG | |||
| afaF | Afimbrial adhesin | CAT CAA GCT GTT TGT TCG TCC GCC G | 750 | [52] |
| afaR | GCT GGG CAG CAA ACT GAT AAC TCT C | |||
| aslAF | Arylsulfatase | GCG TGA TGT TCA TGT CAA CC | 463 | [44] |
| aslAR | ATC CGC CAG ATC TAC AAT GC | |||
| aufAF | Auf fimbriae | TGC ACA TCA GGA AAC CAG ATA C | 350 | This study |
| aufR | GGC TCA CTG ATA TGG ATG ACA A | |||
| cnfF | Cytotoxic necrotizing factor1 | CAT TCA GAG TCC TGC CCT CAT TAT T | 498 | [53] |
| cnfR | AAG ATG GAG TTT CCT ATG CAG GAG | |||
| fimHF | Type I fimbriae | GCA GTC ACC TGC CCT CCG GTA | 508 | [53] |
| fimHR | TGC AGA ACG GAT AAG CCG TGG | |||
| hlyAF | Alpha hemolysin | ACC ATA TAA GCG GTC ATT CCC GTC A | 1177 | [53] |
| hlyAR | AAC AAG GAT AAG CAC TGT TCT GGC T | |||
| hlyDF | Secretion protein for HlyA | CTC CGG TAC GTG AAA AGG AC | 904 | [54] |
| hlyDR | GCC CTG ATT ACT GAA GCC TG | |||
| ibeAF | Invasin of brain endothelium A | CAT TAG CTC TCG GTT CAC GCT | 171 | [55] |
| ibeAR | TTA CCG CCG TTG ATG TTA TCA | |||
| ibeBF | Invasin of brain endothelium B | GCA TATTCTGCTGGTTTCTAATGTC | 660 | This study |
| ibeBR | GTT CTG GAT TTT CTG TTC ATA ATT CA | |||
| issF | Increased serum survival | CAG CAA CCC GAA CCA CTT GAT G | 323 | [54] |
| issR | AGC ATT GCC AGA GCG GCA GAA | |||
| iutAF | Aerobactin synthesis | ATGAGCATATCTCCGGACG | 587 | [52] |
| iutAR | CAGGTCGAAGAACATCTGG | |||
| iucCF | Aerobactin synthesis | ACC CGT CTG CAA ATC ATG GAT | 269 | [55] |
| iucCR | AAA CCT GGC TTA CGC AAC TGT | |||
| sitAF | Periplasmic iron-binding protein | AGG GGG CAC AAC TGA TTC TCG | 608 | [56] |
| sitAR | TAC CGG GCC GTT TTC TGT GC | |||
| kpsMTII F | Capsular type II | GCG CAT TTG CTG ATA CTG TTG | 272 | [57] |
| kpsMT IIR | CAT CCA GAC GAT AAG CAT GAG CA | |||
| kpsMT K1 | K 1 capsule | TAG CAA ACG TTC TAT TGG TGC | 153 | [57] |
| kpsMT IIR | CAT CCA GAC GAT AAG CAT GAG CA | [57] | ||
| neuCF | Capsular N-acetylneuraminic acid synthesis | GGT GGT ACA TTC CGG GAT GTC | 676 | [52] |
| neuCR | AGG TGA AAA GCC TGG TAG TGT G | |||
| Nlp I F | New lipoprotein I (adhesin/invasin) | AGT AAT ACT TCC TGG CGT AAA AGT GA | 662 | This study |
| Nlp I R | AAA TAG AAG TTG GTT TCA CTG AGA TG | |||
| ompAF | Outer membrane protein A | CACTAAATCCAACGTTTATGGTAAAA | This study | |
| ompAR | GATACCTTTAACTTCGATCTCTACGC | |||
| papCF | Outer membrane usher protein of P pili | ATA TCC TTT CTG CAG GGA TGC AAT A | 205 | [57] |
| papCR | GAC GGC TGT ACT GCA GGG TGT GGC G | |||
| papG IF | Fimbrial adhesin PapG allele I | CTA CTA TAG TTC ATG CTC AGG TC | 474 | [54] |
| papG IR | CCT GCA TCC TCC ACC ATT ATC GA | |||
| papG IIF | Fimbrial adhesin PapG allele II | CCC AGC TTT GTT ATT TTC CTT G | 190 | [54] |
| papGIIR | TTC TTA CCA TGG CTG TAT GTC G | |||
| papGIIIF | Fimbrial adhesin PapG allele III | GGC CTG CAA TGG ATT TAC CTG G | 258 | [54] |
| papGIIIR | CCA CCA AAT GAC CAT GCC AGA C | |||
| satF | Secreted autotransporter toxin | GCAGCAAATATTGATATATCA | 630 | [58] |
| satR | GTTGTTGACCTCAGCAAGGAA | |||
| sfa/focF | S fimbrial adhesin | CGG AGG AGT AAT TAC AAA CCT GGC A | 410 | [57] |
| sfa/focR | CTC CGG AGA ACT GGG TGC ATC TTA C | |||
| trajF | Conjugal transfer | CAA TGG GGC TTT TAT TGA ACT C | 369 | This study |
| trajR | TGA CCA ACA CCC AGC ATA TAA A | |||
| vat1 | Vacuolating cytotoxin | TCC TGG GAC ATA ATG GTC AG | 900 | This study |
| vat2 | GTG TCA GAA CGG AAT TGT | |||
| adkF | MLST | ATTCTGCTTGGCGCTCCGGG | 583 | [49] |
| adkR | CCGTCAACTTTCGCGTATTT | |||
| fumCF | MLST | TCACAGGTCGCCAGCGCTTC | 806 | [49] |
| fumR | GTACGCAGCGAAAAAGATT | |||
| gyrBF | MLST | TCGGCGACACGGATGACGGC | 911 | [49] |
| gyrBR | GTCCATGTAGGCGTTCAGGG | |||
| icdF | MLST | ATGGAAAGTAAAGTAGTTGTTCCGGCACA | 878 | [49] |
| icdR | GGACGCAGCAGGATCTGTT | |||
| mdhF | MLST | ATGAAAGTCGCAGTCCTCGGCGCTGCTGGCGG | 932 | [49] |
| mdhR | TTAACGAACTCCTGCCCCAGAGCGATATCTTTCTT | |||
| purAF | MLST | TCGGTAACGGTGTTGTGCTG | 816 | [49] |
| purAR | CATACGGTAAGCCACGCAGA | |||
| recAF | MLST | CGCATTCGCTTTACCCTGACC | 780 | [49] |
| recAR | TCGTCGAAATCTACGGACCGGA |