Table 3.
All up-regulated proteins in the CA-SA ST398 group
| Uniprot acc no. | Prot_description | FC* (398/239) | P value |
|---|---|---|---|
| Known virulence-related factors | |||
| D2N8W5 | AgrC** | 23.91 | 0.01 |
| D2N8W6 | AgrA | 7.20 | 0.02 |
| D2N7I3 | SrrB | 2.02 | 0.02 |
| D2N8Z3 | SigB | 1.98 | 0.03 |
| D2N718 | Conserved virulence factor B (SAPIG1392) | 1.98 | 0.02 |
| D2N5H5 | ClpP | 1.77 | 0.02 |
| Transcriptional regulator | |||
| D2N576 | SarX | 9.91 | 0.01 |
| D2N9W6 | AraC family regulatory protein | 4.48 | 0.01 |
| D2N9P8 | Phosphosugar-binding transcriptional regulator, RpiR family | 3.99 | 0.02 |
| D2N3I9 | Transcriptional regulator, GntR family | 3.32 | 0.02 |
| D2N9Q7 | Phosphosugar-binding transcriptional regulator | 3.07 | 0.03 |
| D2N823 | PhoP | 2.36 | 0.02 |
| D2N6S6 | Glycerol uptake operon antiterminator regulatory protein | 2.41 | 0.03 |
| D2N8K6 | RecX | 2.08 | 0.04 |
| Arginine and proline metabolism | |||
| D2NAL7 | ArcA | 6.11 | 0.03 |
| D2NAL6 | ArcB | 4.18 | 0.02 |
| D2NAL4 | ArcC | 2.52 | 0.03 |
| Multidrug resistance | |||
| D2N9T7 | Multidrug resistance protein A | 4.72 | 0.02 |
| D2N552 | Multidrug resistance ABC transporter ATP-binding and permease protein | 3.84 | 0.02 |
| Two-component system | |||
| D2N9Y1 | NarH | 2.36 | 0.03 |
| D2N361 | YycG | 1.89 | 0.03 |
| Pyrimidine metabolism | |||
| D2NAJ6 | NrdD | 11.84 | 0.02 |
| D2N6H8 | PyrE | 2.36 | 0.02 |
| D2N6H3 | PyrB | 2.11 | 0.04 |
| D2N942 | Upp | 1.52 | 0.02 |
| Pyruvate metabolism | |||
| D2N3S5 | PflB | 2.37 | 0.04 |
| D2N9V0 | Mqo | 2.26 | 0.02 |
| D2N7L8 | AccC | 1.78 | 0.02 |
| Histidine metabolism | |||
| D2N9R5 | HutU | 17.44 | 0.01 |
| D2N9R4 | HutI | 3.59 | 0.02 |
| D2N9R7 | HutG | 1.82 | 0.04 |
| Glycolysis/gluconeogenesis | |||
| D2NAA0 | Fbp | 2.63 | 0.02 |
| D2N9Z9 | GpmA | 2.50 | 0.02 |
| D2N8B5 | PckA | 2.34 | 0.02 |
| Other known proteins | |||
| D2N3K5 | CapC | 21.85 | 0.01 |
| D2N3F9 | Antigen, 67 kDa | 11.84 | 0.05 |
| D2N5J2 | Probable membrane protein | 8.22 | 0.01 |
| D2NA54 | 3-oxoacyl-[acyl-carrier-protein] reductase (3-ketoacyl-acyl carrier protein reductase) | 7.79 | 0.01 |
| D2N5B9 | QueC | 6.59 | 0.01 |
| D2N3D6 | Amidohydrolase 2 | 6.51 | 0.02 |
| D2N543 | Iron dependent repressor | 6.42 | 0.02 |
| D2N8W0 | Nitroreductase family protein | 6.12 | 0.02 |
| D2N628 | Acetyl transferase | 5.96 | 0.02 |
| D2NA36 | Para-nitrobenzyl esterase | 5.36 | 0.02 |
| D2N4R9 | FolP | 4.83 | 0.02 |
| D2N3T8 | ABC transporter, substrate-binding protein | 4.82 | 0.02 |
| D2N549 | Teichoic acid biosynthesis protein X | 4.81 | 0.01 |
| D2N944 | UPF0340 protein | 4.72 | 0.02 |
| D2N4D0 | Stage 0 sporulation protein J | 4.54 | 0.01 |
| D2N5Q4 | Cytosol aminopeptidase family protein | 4.53 | 0.04 |
| D2N4P0 | Stage 0 sporulation protein YaaT | 3.98 | 0.02 |
| D2N526 | Hydrolase, alpha/beta hydrolase fold family | 3.92 | 0.02 |
| D2N723 | DapB | 3.80 | 0.02 |
| D2N3Q0 | Pts system eiibc component | 3.71 | 0.02 |
| D2N8G9 | ABC transporter EcsB | 3.67 | 0.01 |
| D2N3F6 | Aminoacylase | 3.58 | 0.02 |
| D2N585 | Lipoprotein, putative | 3.47 | 0.02 |
| D2N6B0 | SpoU rRNA Methylase family protein | 3.42 | 0.02 |
| D2N349 | NnrD | 3.39 | 0.02 |
| D2NAA6 | Glyoxalase family protein | 3.37 | 0.02 |
| D2N362 | YycH protein | 3.21 | 0.03 |
| D2N6F0 | UPF0747 protein | 3.18 | 0.02 |
| D2N3K2 | Aldehyde-alcohol dehydrogenase 2 | 3.12 | 0.02 |
| D2N9Q3 | Phosphoglycolate phosphatase | 3.04 | 0.02 |
| D2N411 | ABC transporter, permease protein | 3.01 | 0.02 |
| D2N7J1 | Asppase | 2.69 | 0.03 |
| D2N7R6 | NfeD | 2.63 | 0.01 |
| D2N4E3 | Phosphoglycerate mutase family protein | 2.59 | 0.02 |
| D2N7R2 | PhoH family protein | 2.55 | 0.02 |
| D2N5I8 | Rnr | 2.52 | 0.02 |
| D2N7Z5 | Tag | 2.48 | 0.02 |
| D2N9Z1 | Zinc-binding lipoprotein AdcA | 2.47 | 0.04 |
| D2N4S0 | FolB | 2.41 | 0.04 |
| D2N363 | YycI protein | 2.39 | 0.02 |
| D2NA39 | ABC transporter ATP-binding protein | 2.36 | 0.04 |
| D2N499 | NAD-dependent epimerase/dehydratase | 2.36 | 0.02 |
| D2N6R1 | PgsA | 2.34 | 0.02 |
| D2N5Y1 | NadK | 2.34 | 0.02 |
| D2N804 | EngB | 2.18 | 0.02 |
| D2N421 | NanE | 2.15 | 0.04 |
| D2N6C3 | MurI | 2.12 | 0.02 |
| D2N356 | DHH subfamily 1 protein | 2.11 | 0.02 |
| D2N8M1 | Map | 2.10 | 0.02 |
| D2N5H2 | UPF0042 nucleotide-binding protein | 2.10 | 0.03 |
| D2N7R9 | Ribosomal RNA small subunit methyltransferase E | 2.10 | 0.01 |
| D2N870 | Ftsk/spoiiie family protein | 2.09 | 0.02 |
| D2N9Y2 | Nitrate reductase, alpha subunit | 2.04 | 0.02 |
| D2N5V8 | FabH | 1.95 | 0.02 |
| D2NA13 | ABC transporter, ATP-binding/permease protein | 1.92 | 0.04 |
| D2N6V0 | Cardiolipin synthetase (Cardiolipin synthase) (CLsynthase) | 1.92 | 0.03 |
| D2N6W2 | Catalase | 1.90 | 0.02 |
| D2N8Q5 | Aldehyde dehydrogenase | 1.87 | 0.02 |
| D2N558 | DhaK | 1.86 | 0.04 |
| D2N9V4 | TpgX protein | 1.84 | 0.02 |
| D2N860 | Fhs | 1.82 | 0.02 |
| D2N8R8 | Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase | 1.80 | 0.04 |
| D2N5D0 | ABC transporter permease protein | 1.80 | 0.04 |
| D2N7M6 | GcvPB | 1.80 | 0.04 |
| D2N694 | Glycerophosphoryl diester phosphodiesterase | 1.79 | 0.02 |
| D2N634 | QoxB | 1.78 | 0.02 |
| D2N4Q0 | IspE | 1.78 | 0.02 |
| D2N727 | LysA | 1.77 | 0.02 |
| D2N6R4 | Rny | 1.74 | 0.02 |
| D2N9L2 | ModA | 1.71 | 0.03 |
| D2N5F5 | DegV family protein | 1.69 | 0.02 |
| D2N520 | Iron-binding protein | 1.66 | 0.04 |
| D2N9C8 | Alcohol dehydrogenase, zinc-binding domain protein | 1.64 | 0.02 |
| D2N359 | PurA | 1.64 | 0.04 |
| D2N6G7 | IleS | 1.62 | 0.02 |
| D2N9V2 | TagF domain protein | 1.61 | 0.02 |
| D2N6Y5 | Transcription antiterminator | 1.60 | 0.04 |
| D2N7P9 | ATP-dependent RNA helicase | 1.60 | 0.02 |
| D2N4Q1 | PurR | 1.58 | 0.02 |
| D2N5F8 | Ribosomal subunit interface protein | 1.57 | 0.02 |
| D2N662 | Potassium uptake protein TrkA | 1.57 | 0.02 |
| D2N9C5 | Conserved domain protein | 1.57 | 0.02 |
| D2N7J7 | Zwf | 1.56 | 0.03 |
| D2N3I0 | Acetoin(Diacetyl) reductase (Acetoin dehydrogenase) | 1.55 | 0.02 |
| D2N780 | AsnS | 1.53 | 0.02 |
| D2N8B2 | 2,5-diketo-D-gluconic acid reductase A | 1.52 | 0.02 |
| D2N5Q3 | YumB | 1.52 | 0.02 |
| D2N6S5 | MutL | 1.52 | 0.03 |
| D2N6M8 | TopA | 1.52 | 0.04 |
| D2N523 | Hydrolase, alpha/beta hydrolase fold family | 1.51 | 0.02 |
| D2N4S2 | LysS | 1.51 | 0.02 |
| Unknown proteins | |||
| D2N9S7 | Uncharacterized protein | 9.98 | 0.02 |
| D2N965 | Uncharacterized protein | 8.45 | 0.01 |
| D2N3Y5 | Uncharacterized protein | 5.51 | 0.02 |
| D2N899 | Uncharacterized protein | 4.17 | 0.02 |
| D2N9W5 | Uncharacterized protein | 3.98 | 0.01 |
| D2N4F3 | Uncharacterized protein | 3.92 | 0.03 |
| D2N692 | Uncharacterized protein | 3.24 | 0.05 |
| D2N5Y6 | Uncharacterized protein | 2.69 | 0.02 |
| D2N5H8 | Uncharacterized protein | 2.65 | 0.02 |
| D2N8E4 | Uncharacterized protein | 2.60 | 0.02 |
| D2N678 | Uncharacterized protein | 2.58 | 0.02 |
| D2N6V3 | Uncharacterized protein | 2.15 | 0.02 |
| D2N9T5 | Uncharacterized protein | 2.07 | 0.04 |
| D2N8T9 | Uncharacterized protein | 2.03 | 0.04 |
| D2N8R7 | Uncharacterized protein | 1.89 | 0.02 |
| D2N8B3 | Uncharacterized protein | 1.65 | 0.02 |
| D2N6R0 | Uncharacterized protein | 1.64 | 0.03 |
| D2N9C6 | Uncharacterized protein | 1.58 | 0.02 |
| D2N971 | Uncharacterized protein | 1.56 | 0.02 |
| D2N5K3 | Uncharacterized protein | 1.67 | 0.03 |
*The calculation of FC (398/239) in this table is dividing the average value of peptide mass of proteins in ST398 strains by that average value in ST239 strains
**Bold italics in this table is used to highlight the selected significantly differentially expressed genes for CA-SA ST398 up-regulated network construction