Table 2.
Selected genes that were differentially expressed in endocardial vegetations
| Gene | Nondiabetic versus logarithmic phase | Vegetation versus stationary phase | Diabetic versus logarimthic phase | Vegetation versus stationary | Gene product | |
|---|---|---|---|---|---|---|
| Virulence-associated genes | ||||||
| hla | SACOL1173 | 22.9 | ns | 17.5 | ns | alpha-hemolysin precursor |
| hld | SACOL2022 | 38.5 | ns | 37.8 | ns | delta-hemolysin |
| hlgA | SACOL2419 | 18.5 | 5.4 | 6.3 | 2.1 | gamma-hemolysin, component A |
| hlgB | SACOL2421 | 11.8 | 2.7 | ns | ns | gamma hemolysin, component B |
| hlgC | SACOL2422 | 16.5 | 2.4 | ns | ns | gamma hemolysin, component C |
| lukF | SACOL2004 | 11.1 | 18.7 | 4.9 | 8.1 | leukocidin F subunit |
| lukS | SACOL2006 | 11.9 | 14.7 | 6.4 | 8.0 | leukocidin S subunit |
| nuc | SACOL0860 | ns | ns | 2.9 | 7.8 | thermonuclease |
| seb | SACOL0907 | 8.0 | ns | 4.1 | ns | staphylococcal enterotoxin B |
| splB | SACOL1868 | 10.7 | 5.7 | ns. | ns | serine protease |
| splC | SACOL1867 | ns | ns | 3.4 | 2.5 | serine protease |
| splD | SACOL1866 | ns | ns | 3.8 | 2.9 | serine protease |
| splE | SACOL1865 | 28.4 | 11.6 | 16.9 | 7.5 | serine protease |
| aur | SACOL2659 | 3.3 | 2.4 | 2.2 | ns | zinc metalloproteinase aureolysin |
| clpB | SACOL0979 | ns | ns | 4.4 | 8.1 | ATP-dependent protease |
| ssaA | SACOL2581 | 5.7 | 13.1 | 2.6 | 5.1 | staphylococcal secretory antigen; staphyloxanthin biosynthesis protein |
| sodA | SACOL1610 | -5.7 | -4.5 | -5.7 | -4.5 | superoxide dismutase |
| Cell wall and capsule synthesis | ||||||
| cap5A | SACOL0136 | 8.5 | 2.8 | 8.8 | 3.0 | capsular polysaccharide biosynthesis protein |
| cap5B | SACOL0137 | 7.3 | 2.6 | 7.4 | 2.6 | capsular polysaccharide biosynthesis protein |
| cap5D | SACOL0139 | 6.3 | 2.2 | 7.4 | 3.8 | capsular polysaccharide biosynthesis protein |
| cap5E | SACOL0140 | 13.4 | 10.2 | 9.1 | 6.8 | capsular polysaccharide biosynthesis protein |
| cap5F | SACOL0141 | 5.3 | 3.6 | ns | ns | capsular polysaccharide biosynthesis protein |
| cap5G | SACOL0142 | 4.3 | 2.5 | 6.6 | 4.0 | capsular polysaccharide biosynthesis protein |
| cap5I | SACOL0144 | 3.3 | ns | 4.1 | 2.3 | capsular polysaccharide biosynthesis protein |
| cap5J | SACOL0145 | ns | ns | 2.2 | 2.4 | capsular polysaccharide biosynthesis protein |
| dltA | SACOL0935 | -8.5 | -2.9 | -6.2 | -2.1 | D-alanine-ligase subunit 1 |
| dltB | SACOL0936 | -10.8 | -3.4 | -9.5 | -2.8 | D-alanyl-lipoteichoic acid biosynthesis protein |
| dltC | SACOL0937 | -4.9 | ns | -4.9 | ns | D-alanine-ligase subunit 2 |
| dltD | SACOL0938 | -13.5 | -3.5 | -7.4 | -2.0 | D-alanine transfer protein |
| Surface proteins | ||||||
| clfA | SACOL0856 | 5.8 | ns | 5.6 | ns | clumping factor A |
| clfB | SACOL2652 | ns | ns | ns | 3.1 | clumping factor B |
| fnbA | SACOL2511 | 3.4 | 2.7 | ns | ns | fibronectin-binding protein A |
| sasF | SACOL2668 | 12.2 | 10.5 | 14.4 | 12.9 | LPXTG cell wall surface anchor family protein |
| sdrC | SACOL0519 | 12.3 | 8.7 | 8.6 | 6.5 | Ser-Asp repeat protein |
| pls | SACOL0050 | -2.3 | -3.3 | ns | -4.3 | surface protein |
| sasA | SACOL2676 | ns | -9.8 | 2.2 | -4.2 | LPXTG cell wall surface anchor family protein |
| spa | SACOL0095 | -6.3 | -4.9 | -5.7 | -4.5 | immunoglobulin G-binding protein A precursor |
| Iron uptake and iron-regulated genes | ||||||
| sbnA | SACOL0112 | ns | ns | 48.9 | 22.2 | siderophore biosynthesis protein |
| sbnB | SACOL0101 | ns | ns | 25.9 | 19.7 | siderophore biosynthesis protein |
| sbnD | SACOL0103 | ns | ns | 18.4 | 17.1 | siderophore biosynthesis protein |
| sbnE | SACOL0104 | ns | ns | 23.0 | 18.4 | siderophore biosynthesis protein |
| sbnG | SACOL0106 | ns | ns | 21.6 | 25.2 | siderophore biosynthesis protein |
| sbnH | SACOL0107 | ns | ns | 15.4 | 16.8 | siderophore biosynthesis protein |
| sbnI | SACOL0108 | ns | ns | 23.5 | 30.0 | siderophore biosynthesis protein |
| sirR | SACOL0691 | 2.3 | ns | ns | ns | iron-dependent repressor |
| sirB | SACOL0098 | 2.9 | ns | ns | ns | iron compound ABC transporter, permease |
| SACOL2167 | ns | ns | 2.9 | ns | iron complex transport substrate-binding protein | |
| SACOL2169 | 4.4 | ns | 4.2 | ns | aerobactin biosynthesis protein | |
| SACOL2170 | ns | ns | 2.6 | ns | major facilitator transporter | |
| Transport | ||||||
| isdD | SACOL1142 | 3.1 | ns | 2.3 | ns | Heme ABC transporter |
| dapF | SACOL2479 | 18.2 | 18.9 | 15.2 | 15.6 | diaminopimelate epimerase family protein |
| SACOL2478 | 9.2 | 9.4 | 7.8 | 8.3 | conserved hypothetical protein | |
| SACOL2477 | 17.6 | 12.8 | 20.9 | 15.1 | conserved hypothetical protein | |
| opp1A | SACOL2476 | 18.1 | 11.1 | 10.8 | 13.9 | peptide ABC transporter |
| opp1B | SACOL2475 | 4.3 | 3.4 | 11.2 | 9.0 | peptide ABC transporter, permease |
| opp1C | SACOL2474 | 15.9 | 12.9 | 30.4 | 24.0 | peptide ABC transporter, permease |
| opp1D | SACOL2473 | ns | ns | 8.0 | 7.3 | peptide ABC transporter ATP-binding protein |
| opp1F | SACOL2472 | ns | ns | 21.5 | 20.9 | peptide ABC transporter ATP-binding protein |
| norD | SACOL2471 | 17.8 | 12.3 | 27.0 | 18.5 | transporter, putative |
| epiG | SACOL1871 | 2.4 | ns | 2.6 | ns | lantibiotic ABC transporter protein |
| epiE | SACOL1872 | 4.2 | ns | 4.4 | ns | lantibiotic ABC transporter protein |
| epiF | SACOL1873 | 5.5 | ns | 5.7 | ns | lantibiotic ABC transporter protein |
| malE | SACOL0193 | ns | ns | 3.1 | 2.5 | maltose ABC transporter, maltose-binding |
| malF | SACOL0194 | 7.4 | 3.9 | 6.0 | 3.5 | maltose ABC transporter, permease protein |
| malK | SACOL0192 | 14.7 | 14.7 | 6.2 | 6.8 | maltose ABC transporter, ATP-binding protein |
| opuD | SACOL2176 | 2.0 | 2.4 | ns | ns | osmoprotectant transporter, BCCT family |
| tet38 | SACOL0122 | 21.2 | 12.2 | 13.1 | 8.9 | tetracycline-resistance protein, putative |
| ulaA | SACOL0400 | 12.9 | 5.6 | 7.3 | 3.2 | PTS system ascorbate-specific transporter |
| uhpT | SACOL0200 | 125 | 29 | 78.1 | 18.1 | sugar phosphate antiporter |
| kdpA | SACOL2068 | ns | ns | 8.5 | 15.0 | potassium-transporting ATPase, C subunit |
| kdpB | SACOL2067 | ns | ns | 9.0 | 13.3 | potassium-transporting P-type ATPase, B unit |
| norB | SACOL1475 | 25.1 | 27.5 | 16.1 | 17.3 | drug transporter, quinolone-resistance protein |
| SACOL1476 | 24.8 | 22.4 | 18.7 | 18.6 | transmembrane amino acid transporter | |
| ilvA | SACOL1477 | 34.0 | 25.0 | 28.7 | 22.7 | threonine dehydratase |
| ald | SACOL1478 | 42.3 | 24.0 | 31.2 | 17.6 | alanine dehydrogenase |
| mntH | SACOL1114 | -9.5 | -6.3 | -9.4 | -6.3 | Mn2+/Fe2+ transporter |
| SACOL1115 | -3.9 | -4.0 | -4.3 | -4.4 | hypothetical protein | |
| mntC | SACOL0688 | 3.7 | -5.8 | 3.5 | -6.3 | ABC transporter substrate-binding protein |
| mntB | SACOL0689 | 4.1 | -5.7 | 4.5 | -4.7 | ABC transporter permease |
| mntA | SACOL0690 | 8.5 | -2.7 | 5.6 | -4.4 | ABC transporter ATP-binding protein |
| SACOL0157 | -11.4 | -12.0 | -12.9 | -12.8 | conserved hypothetical protein | |
| SACOL0158 | -6.8 | -15.2 | -6.1 | -13.4 | ABC transporter, ATP-binding protein | |
| SACOL0159 | -6.9 | -8.2 | -5.0 | -6.1 | ABC transporter, permease protein | |
| SACOL0160 | -4.9 | -7.1 | -5.5 | -7.9 | conserved hypothetical protein | |
| Metabolism | ||||||
| adhE | SACOL0135 | 22.9 | 22.3 | 30.9 | 31.1 | alcohol dehydrogenase, iron-containing |
| ald | SACOL1478 | 42.3 | 24.0 | 31.2 | 17.6 | alanine dehydrogenase |
| arcB1 | SACOL1181 | ns | ns | 2.2 | 2.5 | ornithine carbamoyltransferase |
| arcC | SACOL1182 | 21.8 | 15.3 | 12.9 | 9.9 | carbamate kinase |
| arcD | SACOL1183 | 8.7 | 5.9 | 6.8 | 4.8 | arginine/ornithine antiporter |
| arcA | SACOL2657 | 12.4 | 12.2 | 8.4 | 8.5 | arginine deiminase |
| arcB2 | SACOL2656 | 6.4 | 7.6 | 4.6 | 5.3 | ornithine carbamoyltransferase |
| arcD | SACOL2655 | 30.1 | 43.5 | 27.6 | 43.1 | arginine/ornithine antiporter |
| argG | SACOL0963 | ns | ns | 3.4 | 6.4 | argininosuccinate synthase |
| argH | SACOL0964 | ns | ns | 5.4 | 13.3 | argininosuccinate lyase |
| deoB | SACOL0124 | 4.0 | 2.2 | 4.4 | 2.3 | phosphopentomutase |
| deoD | SACOL0121 | 7.1 | 7.8 | 8.9 | 10.0 | purine nucleoside phosphorylase |
| gltA | SACOL1742 | 6.9 | -6.7 | 4.8 | -9.4 | citrate synthase |
| gntK | SACOL2515 | 6.9 | 4.9 | ns | ns | gluconokinase |
| ilvA | SACOL1477 | 34.0 | 25.0 | 28.7 | 22.7 | threonine dehydratase |
| nirB | SACOL2398 | 21.8 | 19.6 | 12.8 | 11.9 | nitrite reductase [NAD(P)H], large subunit |
| nirD | SACOL2397 | 8.1 | 6.1 | 4.7 | 3.9 | nitrite reductase [NAD(P)H], small subunit |
| pflA | SACOL0205 | 94.7 | 125.7 | 116.5 | 157.6 | pyruvate formate-lyase-activating enzyme |
| pflB | SACOL0204 | 44.7 | 46.9 | 59.9 | 65.6 | formate acetyltransferase |
| rbsK | SACOL0253 | 6.9 | 2.5 | 4.9 | ns. | ribokinase |
| SACOL2396 | 19.0 | 14.3 | 7.4 | 6.1 | uroporphyrin-III C-methyl transferase | |
| SACOL1476 | 24.8 | 22.4 | 18.7 | 18.6 | amino acid permease | |
| Regulators | ||||||
| agrA | SACOL2026 | ns | ns | 4.8 | ns | accessory gene regulator protein A |
| agrC | SACOL2025 | -2.6 | -3.3 | 4.5 | -2.2 | accessory gene regulator protein C |
| agrD | SACOL2024 | 2.3 | -4.0 | 5.2 | ns | accessory gene regulator protein D |
| gntR | SACOL2516 | 5.0 | 4.1 | ns | ns | gluconate operon transcriptional repressor |
| purR | SACOL0539 | ns | 2.3 | ns | ns | pur operon repressor |
| rsbV | SACOL2056 | ns | 3.6 | ns | 3.7 | anti-anti-sigma factor RsbV |
| rsbW | SACOL2055 | ns | 2.7 | ns | 3.0 | anti-sigma B factor |
| sarA | SACOL0672 | ns | 2.5 | ns | 2.1 | transcriptional regulator |
| sarS | SACOL0096 | -14.7 | -7.2 | -8.7 | -4.2 | transcriptional regulator |
| sigB | SACOL2054 | ns | ns | ns | 2.1 | alternative sigma factor |
| fur | SACOL1541 | ns | ns | -2.1 | -3.1 | transcriptional regulator, Fur family |
| araC | SACOL2378 | -3.6 | -2.7 | ns | ns | transcriptional regulator, AraC family |
| tetR | SACOL2374 | ns | ns | -2.0 | -2.4 | transcriptional regulator, TetR family |
| vraR | SACOL1942 | -4.8 | -3.2 | -3.7 | -2.5 | DNA-binding response regulator |
| vraS | SACOL1943 | -4.3 | -2.8 | -3.3 | -2.2 | sensor histidine kinase |
ns, difference not significant.