Table 6.
Genome characteristics
| Strain/isolate | Source | Genome length (bp) | Contigs | N50 | GC content (%) | Protein genes (CDS) | tRNA genes | rRNA genes | Virulence factor genes | Antibiotic resistance genes | GenBank accession |
|---|---|---|---|---|---|---|---|---|---|---|---|
| S1 (pks+/cnf1+) | Research rhesus macaque rectal swab | 5,070,329 | 92 | 268,704 | 50.49 | 5022 | 78 | 10 | astA, celb, cnf1, gad, hlyCABD, iroN, iss, mchB, mchC, mchF, mcmA, pks, vat | – | NHZD00000000 |
| S2 (pks+/cnf1+) | Research rhesus macaque rectal swab | 5,070,134 | 98 | 268,677 | 50.49 | 5017 | 78 | 10 | astA, celb, cnf1, gad, hlyCABD, iroN, iss, mchB, mchC, mchF, mcmA, pks, vat | – | NHZC00000000 |
| S4 (pks+/cnf1−) | Research rhesus macaque rectal swab | 4,843,133 | 160 | 65,852 | 50.72 | 4721 | 83 | 10 | celb, gad, iroN, iss, mchB, mchC, mchF, mcmA, pic, pks, vat | – | NHZA00000000 |
| S5 (pks+/cnf1−) | Research rhesus macaque rectal swab | 4,899,189 | 116 | 127,782 | 50.54 | 4791 | 81 | 10 | celb, gad, iroN, iss, mchB, mchC, mchF, mcmA, pic, pks, vat | – | NHYZ00000000 |
| S3 (pks−/cnf1+) | Research rhesus macaque rectal swab | 5,239,168 | 227 | 105,395 | 50.66 | 5403 | 80 | 8 | cnf1, hlyCABD, gad, iha, iss, sat | aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A) | NHZB00000000 |
| S6 (pks−/cnf1+) | Research rhesus macaque rectal swab | 5,345,115 | 176 | 178,747 | 50.53 | 5502 | 79 | 9 | cnf1, hlyCABD, gad, iha, iss, sat | aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A) | NHYY00000000 |
| S9 (pks−/cnf1+) | Research rhesus macaque rectal swab | 5,536,267 | 173 | 170,757 | 50.32 | 5765 | 81 | 9 | cnf1, hlyCABD, gad, iha, iss, sat | aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A) | NHYV00000000 |
| S10 (pks−/cnf1+) | Research rhesus macaque rectal swab | 5,254,454 | 178 | 113,006 | 50.70 | 5393 | 80 | 9 | cnf1, hlyCABD, gad, iha, iss, sat | aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A) | NHYU00000000 |
| S7 (pks−/cnf1−) | Research rhesus macaque rectal swab | 4,840,594 | 136 | 147,699 | 50.76 | 4807 | 84 | 10 | gad, iss, lpfA | – | NHYX00000000 |
| S8 (pks−/cnf1−) | Research rhesus macaque rectal swab | 4,770,474 | 119 | 168,371 | 50.68 | 4730 | 81 | 11 | gad, iss, lpfA | – | NHYW00000000 |
| IHE3034 | Human neonatal meningitis | 5,108,383 | 1 (complete genome) | – | 50.70 | 5045 | 97 | 22 | gad, iroN, iss, pks, sfaS, vat | – | CP001969.1 |
| NC101 | Research mouse intestinal commensal, pro-carcinogenic | 5,021,144 | 27 | 511,891 | 50.57 | 4917 | 72 | 4 | gad, iroN, iss, pks, sfaS, vat | – | AEFA00000000.1 |
| UTI89 | Human uropathogenic strain | 5,179,971 | 1 (complete genome) | – | 50.60 | 5040 | 89 | 14 | cnf1, gad, gad, iroN, iss, senB, sfaS, vat | – | CP000243.1 |
| K-12 substr. DH10B | Human non-pathogenic intestinal commensal | 4,686,137 | 1 (complete genome) | – | 50.80 | 4606 | 87 | 14 | gad, iss | – | AP012306.1 |