TABLE 5.
Putative virulence factors and unique biomarker genes for distinguishing Cronobacter, Salmonella, and E. coli from other food-borne pathogens based on literature-based data mining combined with comparative genome analysis
| GI no. | GenBank accession no. | Locus tag | Gene/gene function | Present in pathogen: |
||
|---|---|---|---|---|---|---|
| Salmonella | E. coli | Other major pathogensa | ||||
| 156530628 | ABU75454.1 | ESA_00150 | Putative anaerobic decarboxylate transporter | + | + | ± |
| 156530827 | ABU75653.1 | ESA_00355 | rpoS/sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase | + | + | ± |
| 156530851 | ABU75677.1 | ESA_00379 | katB/catalase-peroxidase KatB | + | + | ± |
| 156530862 | ABU75688.1 | ESA_00390 | pilT/twitching motility protein PilT | − | − | − |
| 156531119 | ABU75945.1 | ESA_00662 | clpE/ATP-dependent protease | + | + | ± |
| 156531139 | ABU75965.1 | ESA_00686 | algU/alginate biosynthesis protein | + | + | ± |
| 156531159 | ABU75985.1 | ESA_00708 | pilR/two-component response regulator | + | + | ± |
| 156531248 | ABU76074.1 | ESA_00797 | Enterobactin synthetase component E | − | − | − |
| 156531242 | ABU76068.1 | ESA_00791 | Putative iron-siderophore transport system, ATP-binding component | + | + | ± |
| 156531430 | ABU76256.1 | ESA_00987 | Putative eae/intimin | − | − | − |
| 156531432 | ABU76258.1 | ESA_00989 | Similar to plasmid virulence: regulation of spv operon, lysR family | − | − | − |
| 156531610 | ABU76436.1 | ESA_01169 | Mannose-1-phosphate guanylyltransferase 1 | + | + | ± |
| 156531686 | ABU76512.1 | ESA_01250 | bscR/putative type III secretion protein | + | + | ± |
| 156531689 | ABU76515.1 | ESA_01253 | fliM/flagellar motor switch protein | + | + | ± |
| 156531693 | ABU76519.1 | ESA_01257 | bscN/putative ATP synthase in type III secretion system | + | + | ± |
| 156531695 | ABU76521.1 | ESA_01259 | fliG/flagellar motor switch protein | + | + | ± |
| 156531696 | ABU76522.1 | ESA_01260 | fliF/flagellar M-ring protein | − | − | − |
| 156531723 | ABU76549.1 | ESA_01287 | fliD/putative flagellar hook-associated protein | − | − | − |
| 156531724 | ABU76550.1 | ESA_01288 | flaA/flagellin | − | − | ± |
| 156531745 | ABU76571.1 | ESA_01309 | bvgA/virulence factors transcription regulator | + | + | ± |
| 156531788 | ABU76614.1 | ESA_01354 | flhB/flagellar biosynthetic protein | − | − | − |
| 156531789 | ABU76615.1 | ESA_01355 | pcrD/type III secretory apparatus protein | + | + | ± |
| 156531820 | ABU76646.1 | ESA_01386 | Lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase | − | − | − |
| 156531952 | ABU76778.1 | ESA_01520 | Nitrate reductase 1, alpha subunit | + | + | ± |
| 156531953 | ABU76779.1 | ESA_01521 | Nitrate reductase 1, beta subunit | + | + | ± |
| 156531980 | ABU76806.1 | ESA_01552 | Outer membrane receptor FepA | − | − | − |
| 156532312 | ABU77138.1 | ESA_01884 | Putative receptor | − | − | − |
| 156532401 | ABU77227.1 | ESA_01974 | lpfC/long polar fimbrial outer membrane usher protein | − | − | − |
| 156532403 | ABU77229.1 | ESA_01976 | sfaD/SfaD protein | − | − | − |
| 156532510 | ABU77336.1 | ESA_02086 | pykF/pyruvate kinase I | + | + | ± |
| 156532639 | ABU77465.1 | ESA_02216 | phoP/response regulator in two-component regulatory system with PhoQ, transcribes genes expressed under low Mg+ concn (OmpR family) | + | + | ± |
| 156532640 | ABU77466.1 | ESA_02217 | phoQ/sensory kinase protein in two-component regulatory system with PhoP, ligand is Mg+ | − | − | − |
| 156532687 | ABU77513.1 | ESA_02264 | Flagellar hook-associated protein type 3 | − | − | − |
| 156532688 | ABU77514.1 | ESA_02265 | flgK/flagellar hook-filament junction protein | − | − | − |
| 156532690 | ABU77516.1 | ESA_02267 | flgI/flagellar P-ring protein | + | + | ± |
| 156532691 | ABU77517.1 | ESA_02268 | flgH/flagellar L-ring protein | + | + | ± |
| 156532692 | ABU77518.1 | ESA_02269 | flgG/flagellar basal body rod protein | + | + | ± |
| 156532693 | ABU77519.1 | ESA_02270 | flgF/flagellar basal body rod protein | − | − | − |
| 156532694 | ABU77520.1 | ESA_02271 | flgE/flagellar hook protein FlgE | − | − | − |
| 156532695 | ABU77521.1 | ESA_02272 | flgD/flagellar basal body rod modification protein FlgD | − | − | − |
| 156532696 | ABU77522.1 | ESA_02273 | flgC/flagellar basal-body rod protein | + | + | ± |
| 156532767 | ABU77593.1 | ESA_02344 | sfaE/SfaE protein | − | − | − |
| 156532769 | ABU77595.1 | ESA_02347 | Putative oxidoreductase | + | + | ± |
| 156532833 | ABU77659.1 | ESA_02413 | ompF/outer membrane protein F | − | − | − |
| 156532850 | ABU77676.1 | ESA_02430 | Lipid transporter ATP-binding/permease protein | + | + | ± |
| 156532935 | ABU77761.1 | ESA_02516 | fhaB/filamentous hemagglutinin/adhesin | − | − | − |
| 156532957 | ABU77783.1 | ESA_02538 | fimD/fimbrial adhesin | − | − | − |
| 156532958 | ABU77784.1 | ESA_02539 | lpfB/long polar fimbrial chaperone | − | − | − |
| 156532959 | ABU77785.1 | ESA_02540 | Outer membrane usher protein LpfC | − | − | − |
| 156533053 | ABU77879.1 | ESA_02639 | Putative inner membrane protein | − | − | − |
| 156533067 | ABU77893.1 | ESA_02653 | fur/transcriptional repressor of iron-responsive genes | + | + | ± |
| 156533133 | ABU77959.1 | ESA_02727 | Enterobactin synthase subunit F | − | − | ± |
| 156533264 | ABU78090.1 | ESA_02861 | clpP/ATP-dependent Clp protease proteolytic subunit | + | + | ± |
| 156533628 | ABU78454.1 | ESA_03232 | pilB/(type IV) pilus assembly protein | − | − | − |
| 156533629 | ABU78455.1 | ESA_03233 | pilC/(type IV) pilus assembly protein | − | − | − |
| 156533744 | ABU78570.1 | ESA_03349 | kpsE/putative capsule polysaccharide export system inner membrane protein | − | − | − |
| 156533745 | ABU78571.1 | ESA_03350 | kpsD/polysialic acid capsule transport protein | − | − | − |
| 156533747 | ABU78573.1 | ESA_03352 | kpsC/possible polysaccharide modification protein | − | − | − |
| 156533748 | ABU78574.1 | ESA_03353 | kpsS/possible polysaccharide modification protein | − | − | − |
| 156533753 | ABU78579.1 | ESA_03358 | kpsT/putative capsule polysaccharide export ATP-binding protein | − | − | − |
| 156533960 | ABU78786.1 | ESA_03575 | basS/sensory kinase in two-component regulatory system with BasR | − | − | − |
| 156534135 | ABU78961.1 | ESA_03769 | bplF/lipopolysaccharide biosynthesis protein | + | + | ± |
| 156534173 | ABU78999.1 | ESA_03813 | fimC/outer membrane usher protein precursor | − | − | − |
| 156534174 | ABU79000.1 | ESA_03814 | fimB/chaperone protein | − | − | − |
| 156534462 | ABU79288.1 | ESA_04107 | rfaC/lipopolysaccharide heptosyltransferase I | − | + | ± |
| 156534650 | ABU79476.1 | ESA_04296 | dep/capD gamma-glutamyltranspeptidase | + | + | ± |
| 156534760 | ABU79586.1 | ESA_04407 | pilD/type 4 (IV) prepilin-like protein | − | − | − |
a
Twelve other genomes used in this study.