Table 1.
Summary of antimicrobial resistance genes, plasmid replicons, and virulence genes detected in the draft genome sequence of Salmonella Enteritidis strain SE_TAU19 using ABRicate.
| Category | Gene(s) | Function | Accession number a |
|---|---|---|---|
| Antimicrobial resistance genes | aac(6')-ly | Chromosomal aminoglycoside resistance | AF144880:3542-3980 |
| golS | Gold-induced MdsABC efflux pump regulator | NC_003197:400860-401325 | |
| mdsA-C | Mds multidrug and metal efflux pump | NC_003197.2:397058-398285 | |
| mdtK | Multidrug and toxic compound extrusions transporter | CP014358.1:2161326-2162751 | |
| gyrA | Fluroquinolone resistance (point mutationb) | None | |
| Plasmid replicons | IncFII(S)_1 | Virulence plasmid replicons | CP000858 |
| IncFIB(S)_1 | FN432031 | ||
| Virulence genes | avrA; invA-C,E-J; orgA-C; pipB,B2; prgH-K; sifA-B; sipA-D; sopA-E; spaO-S; spiC; sptP; ssaC-D,G-V; sscA-B; sseA-K; sspH2; steA-C | Type III secretion system | NP_461786; NP_461817; NP_461791; NP_460061; NP_461795; NP_460194; NP_461803; NP_461011; NP_461812; NP_460358; NP_461799; NP_460359; NP_460364; NP_460362; NP_461184; NP_460542 |
| csgA-G | Curli production, assembly, and transport | NP_460115 | |
| fimC,D,F,H,I | Type I fimbriae | NP_459540 | |
| lpfA-E | Long polar fimbriae | NP_462541 | |
| mgtB-C | Mg transport protein | NP_462662 | |
| mig-14 | Antimicrobial peptide resistance | NP_461708 | |
| misL | Putative autotransporter | NP_462656 | |
| pefB,D | Plasmid-encoded fimbriae | NP_490511 | |
| ratB | Outer membrane protein | NP_461449 | |
| rck | Complement resistance | NP_490501 | |
| sic | Virulence chaperone protein | NP_461807 | |
| sodCl | Superoxide dismutase precursor | NP_460019 |
A threshold of 100% gene coverage and ≥98% identity was utilized for detected genes.
a
In cases of multiple genes within the same operon, only the accession number of the first gene listed is shown.
b
Point mutations were detected with the ResFinder version 4.1 online database (https://cge.cbs.dtu.dk/services/ResFinder/).