Table 3. . Gene expression profile of the two selected isolates represented in fold change.
| Genes | Product | Fold change | |
|---|---|---|---|
| Sd_FC3355 | Sd_BA42767 | ||
| SDY_0834/ipaH_1 | Invasion plasmid antigen/internalin, putative | 6 | 61 |
| SDY_1062/ipaH_3 | Invasion plasmid antigen/internalin, putative | 2 | 17 |
| SDY_2001/ipaH_4 | Invasion plasmid antigen/internalin, putative | 3 | 0 |
| SDY_2003/ipaH_5 | Invasion plasmid antigen/internalin, putative | 11 | 0 |
| SDY_2753/ipaH_6 | Invasion plasmid antigen/internalin, putative | 26 | 0 |
| SDY_P003/ospB | Hypothetical protein | 5 | 0 |
| SDY_P004/phoN2/apy | Hypothetical protein | 18 | 0 |
| SDY_P010/ospD2 | Enterotoxin | 40 | 45 |
| SDY_P023/ospD1 | OspD1 | 361 | 0 |
| SDY_P025/ipgB2 | Putative chaperone (IpgB2) | 1672 | 0 |
| SDY_P037/ipaH4.5 | Invasion plasmid antigen/internalin, putative | 20 | 0 |
| SDY_P038/ipaH7.8 | Invasion plasmid antigen/internalin, putative | 23 | 0 |
| SDY_P045/ipaH1.4 | Invasion plasmid antigen/internalin, putative | 21 | 0 |
| SDY_P055/ospC1 | Hypothetical protein | 15 | 0 |
| SDY_P056/ospD3 | Enterotoxin | 16 | 10 |
| SDY_P070/ospC2 | Hypothetical protein | 1111 | 0 |
| SDY_P099/ipaH9.8 | Invasion plasmid antigen/internalin, putative | 17 | 0 |
| SDY_P109/virK | Virulence factor VirK | 365 | 236 |
| SDY_P140/ipaH | Invasion plasmid antigen/internalin, putative | 98 | 0 |
| SDY_P151/ospC3 | Hypothetical protein | 224 | 0 |
| SDY_P160/ipaJ | UDP-sugar hydrolase (EC 3.6.1.45); 5′-nucleotidase (EC 3.1.3.5) | 1170 | 0 |
| SDY_P161/virB | Chromosome (plasmid) partitioning protein ParB | 76 | 0 |
| SDY_P163/ipaA | Hypothetical protein | 54 | 0 |
| SDY_P164/ipaD | Type III secretion host injection protein (YopB) | 179 | 0 |
| SDY_P165/ipaC | Hypothetical protein | 1244 | 0 |
| SDY_P166/ipaB | Cell invasion protein SipB | 1582 | 0 |
| SDY_P167/ipgC | Type III secretion chaperone protein for YopD (SycD) | 937 | 0 |
| SDY_P169/ipgA | Chaperone ipgA | 613 | 0 |
| SDY_P170/icsB | Hypothetical protein | 495 | 0 |
| SDY_P171/ipgD | Inositol phosphate phosphatase ipgD (EC 3.1.3) | 3399 | 0 |
| SDY_P173/ipgF | Invasion protein IagB precursor | 3235 | 0 |
| SDY_P174/mxiG | Hypothetical protein | 1611 | 0 |
| SDY_P175/mxiH | MxiH protein | 1450 | 0 |
| SDY_P177/mxiJ | Type III secretion bridge between inner and outermembrane lipoprotein (YscJ, HrcJ, EscJ, PscJ) | 1457 | 0 |
| SDY_P179/mxiN | MxiN | 1476 | 0 |
| SDY_P183/mxiD | Type III secretion outermembrane pore-forming protein (YscC, MxiD, HrcC, InvG) | 334 | 0 |
| SDY_P184/mxiC | Type III secretion outermembrane contact-sensing protein (yopN, Yop4b, LcrE) | 355 | 0 |
| SDY_P185/mxiA | Type III secretion inner membrane channel protein (LcrD, HrcV, EscV, SsaV) | 160 | 0 |
| SDY_P186/spa15 | Spa15 | 185 | 0 |
| SDY_P187/spa47 | Type III secretion cytoplasmic ATP synthase (EC 3.6.3.14, YscN, SpaL, MxiB, HrcN, EscN) | 483 | 0 |
| SDY_P189/spa32 | Hypothetical protein | 308 | 0 |
| SDY_P190/spa33 | Type III secretion innermembrane protein (YscQ, homologous to flagellar export components) | 233 | 0 |
| SDY_P191/spaP | Type III secretion innermembrane protein (YscR, SpaR, HrcR, EscR, homologous to flagellar export components); surface presentation of antigens protein SpaP | 116 | 0 |
| SDY_P191a/spa9 | Surface presentation of antigens protein SpaQ | 71 | 0 |
| SDY_P192/spa29 | Type III secretion innermembrane protein (YscT, HrcT, SpaR, EscT, EpaR1, homologous to flagellar export components) | 28 | 0 |
| SDY_P193/spa40 | Type III secretion innermembrane protein (YscU, SpaS, EscU, HrcU, SsaU, homologous to flagellar export components) | 33 | 0 |
| SDY_P211/virA | Hypothetical protein | 43 | 0 |
| SDY_P214/icsA | Hypothetical protein | 469 | 0 |
| SDY_P224/icsP | Protease VII (Omptin) precursor (EC 3.4.23.49) | 461 | 0 |
| SD1617_4624/ | Virulence factor MviM | 0 | 95 |
| SD1617_3340/ | Enterotoxin | 0 | 3 |
| / | Enterotoxin | 0 | 2 |
| SD1617_0737/ilvB | Acetolactate synthase large subunit (EC 2.2.1.6) | 81 | 476 |
| SD1617_0939/ilvD | Dihydroxy-acid dehydratase (EC 4.2.1.9) | 91 | 405 |
| SD1617_0940/ilvA | Threonine dehydratase biosynthetic (EC 4.3.1.19) | 59 | 380 |
| SD1617_0942/ilvC | Ketol-acid reductoisomerase (EC 1.1.1.86) | 133 | 268 |
| SD1617_0938/ilvE | Branched-chain amino acid aminotransferase (EC 2.6.1.42) | 58 | 225 |
| SD1617_3738/ilvN | Acetolactate synthase small subunit (EC 2.2.1.6) | 41 | 7 |
| / | IlvBN operon leader peptide | 0 | 687 |
| SDY_2022/phoP | Transcriptional regulatory protein PhoP | 222 | 472 |
| SDY_2023/phoQ | Sensor histidine kinase PhoQ (EC 2.7.13.3) | 136 | 117 |
| SDY_3003/barA | Signal transduction histidine-protein kinase BarA (EC 2.7.13.3) | 24 | 13 |
| SDY_1104/uvrY | BarA-associated response regulator UvrY (= GacA = SirA) | 261 | 314 |
| SDY_2892/csrA | Carbon storage regulator | 1021 | 662 |
| SD1617_4387/hisF | Imidazole glycerol phosphate synthase cyclase subunit (EC 4.1.3) | 31 | 189 |
| SD1617_4390/hisB | Histidinol-phosphatase (EC 3.1.3.15)/imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) | 28 | 186 |
| SD1617_4391/hisC | Histidinol-phosphate aminotransferase (EC 2.6.1.9) | 13 | 161 |
| SD1617_4388/hisA | Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (EC 5.3.1.16) | 28 | 132 |
| SD1617_4392/hisD | Histidinol dehydrogenase (EC 1.1.1.23) | 3 | 132 |
| SD1617_4386/hisE | Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19)/phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) | 0 | 96 |
| SD1617_4393/hisG | ATP phosphoribosyltransferase (EC 2.4.2.17) - HisGl | 5 | 399 |
| SDY_2218/hisH | Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2) | 22 | 254 |
| SD1617_4262/ | Cold shock protein of CSP family - CspA (naming convention as in E. coli) | 3991 | 2120 |
| SDY_2381/cspD | Cold shock protein CspD | 229 | 145 |
| SDY_0546/cspE | Cold shock protein CspE | 1714 | 222 |
| SD1617_4774/ | Cold shock protein of CSP family - CspC (naming convention as in E. coli) | 0 | 2569 |
| SDY_4448/groES | Heat shock protein 60 family co-chaperone GroES | 3531 | 2405 |
| SDY_4449/groEL | Heat shock protein 60 family chaperone GroEL | 3994 | 3209 |
| SDY_4172/ibpB | 16 kDa heat shock protein B | 146 | 91 |
| SDY_4173/ibpA | 16 kDa heat shock protein A | 190 | 170 |
| SDY_2787/grpE | Heat shock protein GrpE | 491 | 409 |
| Heat shock protein C | 6 | 15 | |
| SDY_3677/hslO | 33 kDa chaperonin (Heat shock protein 33) (HSP33) | 274 | 133 |
| SD1617_5932/dcm | DNA-cytosine methyltransferase (EC 2.1.1.37) | 0 | 117 |
| SDY_4150/uhpA | Transcriptional regulatory protein UhpA | 17 | 55 |
| SDY_4659/creB | Response regulator CreB of two-component signal transduction system CreBC | 42 | 25 |
| SDY_4658/creA | Conserved uncharacterized protein CreA | 120 | 122 |
| SDY_4477/evgA | Positive transcription regulator EvgA | 176 | 41 |
| SDY_4478/evgS | Hybrid sensory histidine kinase in two-component regulatory system with EvgA | 12 | 12 |
| SDY_3723/hydH | Sensor protein of zinc sigma-54-dependent two-component system | 68 | 54 |
| SDY_3722/hydG | Response regulator of zinc sigma-54-dependent two-component system | 76 | 40 |
| SDY_1275/narL | Nitrate/nitrite response regulator protein NarL | 66 | 19 |
| SDY_1276/narX | Nitrate/nitrite sensor protein NarX | 31 | 34 |
| SDY_3874/glnL | Nitrogen regulation protein NtrB (EC 2.7.13.3) | 69 | 67 |
| SDY_3875/glnG | Nitrogen regulation protein NtrC | 82 | 106 |
| SDY_3214/ygiX | Two-component system response regulator QseB | 25 | 33 |
| SDY_3213/qseC | Sensory histidine kinase QseC | 21 | 24 |
| SDY_0856/rcsC | Sensor histidine kinase RcsC (EC 2.7.13.3) | 32 | 32 |
| SDY_0857/rcsB | DNA-binding capsular synthesis response regulator RcsB | 870 | 899 |
| SDY_1824/rstA | Transcriptional regulatory protein RstA | 86 | 54 |
| SDY_1825/rstB | Sensory histidine kinase in two-component regulatory system with RstA | 60 | 56 |
| SDY_2744/yfhA | Transcriptional response regulatory protein GlrR | 44 | 41 |
| SDY_2746/yfhK | Sensor histidine kinase GlrK | 64 | 48 |
| SDY_4443/dcuA | C4-dicarboxylate transporter DcuA | 225 | 250 |
| SDY_2186/baeR | Response regulator BaeR | 53 | 34 |
| SDY_2187/baeS | Sensory histidine kinase BaeS | 6 | 1 |
| SDY_1046/vsr | Very-short-patch mismatch repair endonuclease (Guanine–Thymine [G–T] specific) | 0 | 28 |
| SDY_1047/yedA | Uncharacterized innermembrane transporter YedA | 0 | 0 |
| SDY_1048/yedI | Innermembrane protein YedI | 0 | 0 |
| SDY_1970/ | Uncharacterized protein YobF | 30 | 2205 |
0: Not expressed.