Table 3.
List of genes differentially expressed in USA500 and ΔctaB grown to 24 h.
| Gene | Gene symbol | log2 fold change | p-value | Description |
|---|---|---|---|---|
| USA300HOU_RS01190 | −3.37 | 3.36E-06 | Acetyl-CoA C-acetyltransferase | |
| USA300HOU_RS01195 | −3.30 | 7.44E-06 | 3-hydroxyacyl-CoA dehydrogenase | |
| USA300HOU_RS01200 | −3.19 | 9.02E-06 | Acyl-CoA dehydrogenase | |
| USA300HOU_RS01205 | −3.16 | 1.08E-05 | Long-chain-fatty-acid–CoA ligase | |
| USA300HOU_RS02265 | cobW1 | −2.78 | 6.77E-04 | Cobalamin (vitamin B12) biosynthesis protein |
| USA300HOU_RS01210 | −2.76 | 1.58E-04 | 3-oxoacid CoA-transferase | |
| USA300HOU_RS11065 | ilvB1 | −2.69 | 1.10E-03 | Acetolactate synthase large subunit |
| USA300HOU_RS02055 | xprT | −2.66 | 1.47E-03 | Xanthine phosphoribosyltransferase |
| USA300HOU_RS12265 | −2.57 | 2.28E-03 | Hypothetical protein | |
| USA300HOU_RS14500 | lip | −2.16 | 2.42E-03 | Triacylglycerol lipase |
| USA300HOU_RS02060 | pbuX | −2.16 | 3.25E-03 | NCS2 family nucleobase:cation symporter-2 |
| USA300HOU_RS05895 | −2.14 | 1.26E-02 | Antibacterial protein | |
| USA300HOU_RS04630 | dltC | −2.11 | 7.32E-03 | D-alanine–poly(phosphoribitol) ligase |
| USA300HOU_RS08560 | −2.07 | 1.27E-02 | Acetyl-CoA carboxylase biotin carboxyl carrier subunit | |
| USA300HOU_RS12135 | rpmC | −2.04 | 3.26E-03 | Ribosomal protein L29 |
| USA300HOU_RS11075 | ilvC | −2.03 | 1.12E-02 | Ketol-acid reductoisomerase |
| USA300HOU_RS00655 | −2.03 | 3.65E-02 | Hypothetical membrane protein | |
| USA300HOU_RS01875 | −2.01 | 4.74E-02 | Hypothetical protein | |
| USA300HOU_RS04875 | fabH1 | −1.95 | 4.11E-03 | 3-oxoacyl-[acyl-carrier-protein] synthase |
| USA300HOU_RS02840 | rplL1 | −1.94 | 5.40E-03 | Ribosomal protein L7/L12 |
| USA300HOU_RS12130 | rpsQ | −1.93 | 5.02E-03 | Ribosomal protein S17 |
| USA300HOU_RS04900 | oppD1 | −1.91 | 4.92E-03 | Oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein |
| USA300HOU_RS11060 | ilvD | −1.89 | 1.79E-02 | Dihydroxy-acid dehydratase |
| USA300HOU_RS07110 | dapB | −1.84 | 1.91E-02 | Dihydrodipicolinate reductase |
| USA300HOU_RS13735 | −1.82 | 1.46E-02 | Transcriptional regulator | |
| USA300HOU_RS08760 | rplU | −1.79 | 1.10E-02 | Ribosomal protein L21 |
| USA300HOU_RS07115 | dapD | −1.75 | 2.17E-02 | 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase |
| USA300HOU_RS07100 | asd | −1.74 | 2.52E-02 | Aspartate-semialdehyde dehydrogenase |
| USA300HOU_RS06985 | trpB | −1.72 | 4.42E-02 | Tryptophan synthase beta subunit |
| USA300HOU_RS06055 | pyrE | −1.71 | 2.74E-02 | Orotate phosphoribosyltransferase |
| USA300HOU_RS06045 | carB | −1.68 | 1.67E-02 | Carbamoyl-phosphate synthase (glutamine-hydrolyzing), large subunit |
| USA300HOU_RS01940 | ssb1 | −1.67 | 1.64E-02 | Single-stranded DNA-binding protein |
| USA300HOU_RS01120 | rplF | −1.66 | 1.69E-02 | Ribosomal protein L6 |
| USA300HOU_RS02835 | rplJ | −1.65 | 1.75E-02 | Ribosomal protein L10 |
| USA300HOU_RS02375 | gltB1 | −1.63 | 2.23E-02 | Glutamate synthase (NADPH), large subunit |
| USA300HOU_RS06050 | pyrF | −1.62 | 3.08E-02 | Orotidine-5'-phosphate decarboxylase |
| USA300HOU_RS04905 | oppF1 | −1.58 | 1.92E-02 | Oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein |
| USA300HOU_RS01935 | rpsF | −1.56 | 2.29E-02 | Ribosomal protein S6 |
| USA300HOU_RS04620 | dltA | −1.55 | 2.45E-02 | Long-chain-fatty-acid–CoA ligase |
| USA300HOU_RS07105 | dapA | −1.52 | 4.99E-02 | dihydrodipicolinate synthase |
| USA300HOU_RS04635 | dltD | −1.51 | 3.00E-02 | D-alanine transfer protein DltD |
| USA300HOU_RS07190 | −1.51 | 4.86E-02 | Nitric-oxide reductase | |
| USA300HOU_RS12610 | hutI | −1.50 | 2.99E-02 | Imidazolonepropionase |
| USA300HOU_RS02380 | gltD | −1.50 | 4.97E-02 | Glutamate synthase (NADPH) small subunit |
| USA300HOU_RS05945 | murD | −1.50 | 2.66E-02 | UDP-N-acetylmuramoylalanine–D-glutamate ligase |
| USA300HOU_RS08555 | −1.49 | 2.77E-02 | Biotin carboxylase | |
| USA300HOU_RS12615 | hutU | −1.49 | 3.30E-02 | Urocanate hydratase |
| USA300HOU_RS13410 | −1.47 | 3.09E-02 | Possible decarboxylase | |
| USA300HOU_RS12085 | rpmD | −1.46 | 2.95E-02 | Ribosomal protein L30 |
| USA300HOU_RS11770 | −1.46 | 3.46E-02 | Hypothetical membrane protein | |
| USA300HOU_RS06545 | glpK | −1.45 | 3.79E-02 | Glycerol kinase |
| USA300HOU_RS03955 | nrdF | −1.45 | 3.80E-02 | Ribonucleoside-diphosphate reductase subunit beta |
| USA300HOU_RS12120 | rplX | −1.41 | 4.01E-02 | Ribosomal protein L24 |
| USA300HOU_RS01785 | glpT | −1.41 | 3.96E-02 | MOP superfamily multidrug/oligosaccharidyl-lipid/polysaccharide flippase transporter |
| USA300HOU_RS11480 | pyrG | −1.38 | 4.72E-02 | CTP synthase |
| USA300HOU_RS06895 | parC | −1.35 | 4.42E-02 | DNA topoisomerase (ATP-hydrolyzing) ParC |
| USA300HOU_RS01150 | pfl | 1.33 | 4.65E-02 | Formate C-acetyltransferase |
| USA300HOU_RS12815 | 1.37 | 4.46E-02 | Hypothetical lipoprotein | |
| USA300HOU_RS09730 | 1.39 | 4.50E-02 | hypothetical bacteriophage protein | |
| USA300HOU_RS14200 | nrdD | 1.42 | 3.47E-02 | Anaerobic ribonucleotide reductase large subunit |
| USA300HOU_RS03820 | 1.46 | 3.56E-02 | Hypothetical membrane protein | |
| USA300HOU_RS05800 | 1.47 | 4.78E-02 | Fibrinogen-binding protein | |
| USA300HOU_RS03270 | 1.49 | 3.19E-02 | Hydrolase | |
| USA300HOU_RS12795 | 1.51 | 2.88E-02 | Hypothetical membrane protein | |
| USA300HOU_RS03030 | 1.51 | 2.58E-02 | Hypothetical protein | |
| USA300HOU_RS01345 | scdA | 1.52 | 2.94E-02 | Cell division and morphogenesis protein ScdA |
| USA300HOU_RS11555 | 1.54 | 3.52E-02 | Hypothetical protein | |
| USA300HOU_RS12775 | htrA | 1.55 | 4.66E-02 | Hemin ABC superfamily ATP binding cassette transporter, membrane protein |
| USA300HOU_RS12700 | 1.56 | 3.28E-02 | Hypothetical protein | |
| USA300HOU_RS03830 | 1.61 | 4.27E-02 | Hypothetical membrane protein | |
| USA300HOU_RS13375 | 1.62 | 2.50E-02 | Oligopeptide ABC superfamily ATP binding cassette transporter, binding protein | |
| USA300HOU_RS13655 | 1.62 | 3.16E-02 | Possible hydrolase | |
| USA300HOU_RS07060 | pstA | 1.63 | 3.71E-02 | Phosphate ABC superfamily ATP binding cassette transporter, membrane protein |
| USA300HOU_RS08965 | 1.66 | 1.63E-02 | Sensor histidine kinase | |
| USA300HOU_RS05785 | 1.69 | 4.13E-02 | Hypothetical protein | |
| USA300HOU_RS13875 | 1.71 | 1.13E-02 | Hypothetical protein | |
| USA300HOU_RS11550 | dps | 1.71 | 1.41E-02 | Dps family stress protein |
| USA300HOU_RS14195 | nrdG | 1.72 | 1.43E-02 | Anaerobic ribonucleotide reductase small subunit |
| USA300HOU_RS01630 | 1.72 | 3.52E-02 | Acid phosphatase | |
| USA300HOU_RS13840 | 1.77 | 2.44E-02 | FeoB family ferrous iron (Fe2+) uptake protein | |
| USA300HOU_RS13100 | hlgC | 1.80 | 1.30E-02 | Gamma hemolysin component C |
| USA300HOU_RS06060 | 1.83 | 4.16E-02 | Hypothetical protein | |
| USA300HOU_RS01155 | pflA | 1.85 | 6.42E-03 | [Formate-C-acetyltransferase]-activating enzyme |
| USA300HOU_RS12770 | htrB | 1.86 | 2.23E-02 | Hemin ABC superfamily ATP binding cassette transporter, ABC protein |
| USA300HOU_RS14125 | fdaB | 1.87 | 6.17E-03 | Fructose-bisphosphate aldolase |
| USA300HOU_RS13320 | 1.89 | 2.63E-02 | Hypothetical protein | |
| USA300HOU_RS01220 | 1.89 | 1.78E-02 | ABC superfamily ATP binding cassette transporter, binding protein | |
| USA300HOU_RS02105 | set3 | 1.91 | 1.38E-02 | Staphylococcal exotoxin |
| USA300HOU_RS01390 | 1.93 | 2.02E-02 | Hypothetical protein | |
| USA300HOU_RS13085 | 1.96 | 4.09E-03 | Immunoglobulin G-binding protein SBI | |
| USA300HOU_RS00580 | spa | 1.99 | 3.51E-03 | Immunoglobulin G binding protein A |
| USA300HOU_RS00555 | 2.09 | 3.39E-03 | Myosin-cross-reactive antigen | |
| USA300HOU_RS14135 | 2.14 | 3.07E-02 | Hypothetical protein | |
| USA300HOU_RS10525 | mapW2 | 2.14 | 4.61E-03 | Cell surface protein MapW2 |
| USA300HOU_RS12790 | 2.18 | 5.84E-03 | Hypothetical protein | |
| USA300HOU_RS07065 | pstC | 2.23 | 4.71E-03 | Phosphate ABC superfamily ATP binding cassette transporter, membrane protein |
| USA300HOU_RS01225 | 2.26 | 9.38E-03 | Hypothetical protein | |
| USA300HOU_RS01665 | 2.29 | 2.74E-03 | Possible CNT family concentrative nucleoside transporter | |
| USA300HOU_RS13665 | 2.29 | 3.12E-03 | MarR family transcriptional regulator | |
| USA300HOU_RS13095 | hlgA | 2.30 | 8.97E-04 | Gamma-hemolysin component A |
| USA300HOU_RS01655 | 2.35 | 2.51E-03 | PfkB family carbohydrate kinase | |
| USA300HOU_RS03725 | 2.41 | 1.29E-02 | Hypothetical membrane protein | |
| USA300HOU_RS04290 | nuc | 2.48 | 3.60E-03 | Micrococcal nuclease |
| USA300HOU_RS13635 | 2.50 | 2.35E-03 | ABC superfamily ATP binding cassette transporter, membrane protein | |
| USA300HOU_RS13830 | clp | 2.51 | 2.93E-04 | S14 family endopeptidase Clp |
| USA300HOU_RS13660 | 2.53 | 1.74E-03 | Possible lactoylglutatione lyase | |
| USA300HOU_RS01660 | 2.62 | 9.10E-04 | Hypothetical protein | |
| USA300HOU_RS05775 | 2.62 | 2.08E-04 | Hypothetical protein | |
| USA300HOU_RS05855 | 2.80 | 1.39E-02 | Exotoxin | |
| USA300HOU_RS10450 | 2.80 | 8.14E-04 | Hypothetical protein | |
| USA300HOU_RS07070 | pstS | 2.85 | 5.80E-05 | Phosphate ABC superfamily ATP binding cassette transporter, binding protein |
| USA300HOU_RS05795 | 2.90 | 8.96E-05 | Fibrinogen-binding protein | |
| USA300HOU_RS01235 | hmp | 2.96 | 5.40E-05 | Possible nitric oxide dioxygenase |
| USA300HOU_RS10965 | agrD | 3.45 | 6.02E-04 | Accessory gene regulator protein D |
| USA300HOU_RS04615 | 4.03 | 5.89E-03 | Hypothetical protein | |
| USA300HOU_RS13630 | 4.07 | 6.62E-06 | ABC superfamily ATP binding cassette transporter, ABC protein | |
| USA300HOU_RS01365 | lrgB | 4.08 | 9.13E-08 | Murein hydrolase regulator LrgB |
| USA300HOU_RS01360 | lrgA | 4.36 | 1.25E-08 | Murein hydrolase regulator LrgA |
| USA300HOU_RS01230 | 6.07 | 1.16E-06 | Hypothetical protein |