TABLE 4.
2020–2021 sequencing workload: organisms sequenced per projecta
| Organism/project | Number of genomes sequenced |
|---|---|
| Acinetobacter baumannii | 300 |
| AR Lab Network | 238 |
| PPP | 62 |
| Acinetobacter species | 1 |
| AR Lab Network | 1 |
| Aeromonas hydrophila | 2 |
| AR Lab Network | 2 |
| Bacillus cereus | 1 |
| GT | 1 |
| Burkholderia cepacia complex | 13 |
| HAI | 13 |
| Campylobacter coli | 16 |
| EIP | 14 |
| PN | 1 |
| RFS | 1 |
| Campylobacter jejuni | 130 |
| EIP | 95 |
| PN | 18 |
| RFS | 17 |
| Campylobacter upsaliensis | 2 |
| EIP | 2 |
| Citrobacter farmeri | 12 |
| AR Lab Network | 12 |
| Citrobacter freundii | 23 |
| AR Lab Network | 23 |
| Citrobacter koseri | 1 |
| AR Lab Network | 1 |
| Clostridium botulinum | 1 |
| PN | 1 |
| Clostridium perfringens | 26 |
| GT | 26 |
| Corynebacterium diphtheriae | 2 |
| HAI | 1 |
| RES | 1 |
| Corynebacterium ulcerans | 6 |
| RES | 6 |
| Enterobacter bugandensis | 2 |
| AR Lab Network | 2 |
| Enterobacter cloacae | 2 |
| AR Lab Network | 2 |
| Enterobacter cloacae complex | 70 |
| AR Lab Network | 66 |
| PPP | 4 |
| Enterococcus faecalis | 5 |
| GT | 5 |
| Enterococcus faecium | 1 |
| AR Lab Network | 1 |
| Escherichia coli | 630 |
| AR Lab Network | 96 |
| GT | 53 |
| PN | 456 |
| PPP | 25 |
| Haemophilus influenzae | 7 |
| RES | 7 |
| Klebsiella aerogenes | 3 |
| AR Lab Network | 3 |
| Klebsiella oxytoca | 11 |
| AR Lab Network | 11 |
| Klebsiella pneumoniae | 494 |
| AR Lab Network | 406 |
| PPP | 88 |
| Klebsiella variicola | 2 |
| PPP | 2 |
| Lactobacillus pentosus | 1 |
| PPP | 1 |
| Lactobacillus plantarum | 1 |
| PPP | 1 |
| Legionella pneumophila | 152 |
| LEG | 151 |
| PPP | 1 |
| Legionella species | 4 |
| LEG | 4 |
| Listeria monocytogenes | 926 |
| GT | 857 |
| PN | 69 |
| Neisseria gonorrhoeae | 2 |
| RES | 2 |
| Neisseria meningitidis | 2 |
| RES | 2 |
| Neisseria sicca | 3 |
| PPP | 3 |
| Proteus mirabilis | 5 |
| AR Lab Network | 5 |
| Providencia rettgeri | 6 |
| AR Lab Network | 5 |
| PPP | 1 |
| Pseudomonas aeruginosa | 115 |
| AR Lab Network | 81 |
| PPP | 34 |
| Pseudomonas oleovorans group | 7 |
| AR Lab Network | 7 |
| Pseudomonas putida group | 2 |
| AR Lab Network | 2 |
| Raoultella ornithinolytica | 2 |
| AR Lab Network | 2 |
| Raoultella species | 3 |
| AR Lab Network | 3 |
| Salmonella enterica | 2,336 |
| GT | 95 |
| PN | 2,180 |
| PPP | 2 |
| RFS | 59 |
| Serratia marcescens | 15 |
| AR Lab Network | 15 |
| Shigella species | 4 |
| PN | 4 |
| Staphylococcus argenteus | 3 |
| RES | 3 |
| Staphylococcus aureus | 52 |
| AR Lab Network | 4 |
| GT | 19 |
| HAI | 29 |
| Staphylococcus schweitzeri | 2 |
| RES | 2 |
| Stenotrophomonas maltophilia | 2 |
| AR Lab Network | 2 |
| Streptococcus pneumoniae | 246 |
| AR Lab Network | 45 |
| EIP | 197 |
| HAI | 2 |
| RES | 2 |
| Streptococcus pyogenes | 64 |
| HAI | 64 |
| Streptococcus species | 25 |
| HAI | 25 |
| Grand total | 5,743 |
a
AR Lab Network, Antimicrobial Resistance Laboratory Network; PPP, private and public partnerships; GT, GenomeTrakr; PN, PulseNet; EIP, Emerging Infections Program (EIP); RFS, Retail Food Study; HAI, hospital-associated Infections; LEG, Legionella investigations; RES, research.