TABLE 2.
List of selected DEGs significantly upregulated at 1% NaCl
| Locus_tag | Product/function | FC | Log2FC | P-value | Location a |
|---|---|---|---|---|---|
| Virulence and antimicrobial resistance | |||||
| A0J47_RS13280 | PirA-like | 348.13 | 8.44 | 0 | ChrI |
| A0J47_RS13275 | PirB-like | 83.44 | 6.38 | 0 | ChrI |
| A0J47_RS20355 | Pore-forming toxin PhlyP | 11.13 | 3.48 | 0 | pPHDD1 |
| A0J47_RS10995 | Pore-forming toxin PhlyC | 2.32 | 1.22 | 1.29E-59 | ChrI |
| A0J47_RS20350 | Damselysin | 11.01 | 3.46 | 0 | pPHDD1 |
| A0J47_RS20585 | Outer membrane protein OmpU | 3.70 | 1.89 | 9.76E-100 | pPHDD1 |
| A0J47_RS20130 | RNAase toxin Ntox44 | 4.77 | 2.25 | 1.14E-89 | pPHDD1 |
| A0J47_RS20325 | AcrB/MacB-like ABC transporter ATP-binding protein | 3.64 | 1.86 | 1.78E-153 | pPHDD1 |
| A0J47_RS20340 | TolC family protein | 3.60 | 1.85 | 6.53E-189 | pPHDD1 |
| A0J47_RS20345 | AcrA/MacA-like membrane fusion protein | 3.72 | 1.90 | 9.20E-173 | pPHDD1 |
| A0J47_RS20135 | PAAR domain-containing protein | 3.55 | 1.83 | 7.77E-79 | pPHDD1 |
| A0J47_RS11245 | Putative lipoprotein | 9.43 | 3.24 | 0 | ChrI |
| A0J47_RS20555 | TonB-dependent transferrin receptor Vep20-like | 9.50 | 3.25 | 1.08E-220 | pPHDD1 |
| A0J47_RS20550 | Serum resistance protein Vep07-like | 4.69 | 2.23 | 2.21E-150 | pPHDD1 |
| A0J47_RS03660 | Fe3+ ABC transporter substrate-binding protein FbpA | 18.74 | 4.23 | 0 | ChrI |
| A0J47_RS11430 | Fe2+ transporter permease subunit FeoB | 7.40 | 2.89 | 4.37E-197 | ChrII |
| A0J47_RS11435 | Fe2+ transport protein FeoA | 5.98 | 2.58 | 6.13E-73 | ChrII |
| A0J47_RS14665 | TonB-dependent siderophore receptor FhuE | 7.05 | 2.82 | 0 | ChrII |
| Protein export and secretion | |||||
| A0J47_RS19585 | Preprotein translocase subunit SecD | 8.10 | 3.02 | 0 | ChrII |
| A0J47_RS00865 | Type II secretion system protein EpsJ | 2.88 | 1.52 | 2.55E-50 | ChrI |
| A0J47_RS00870 | Type II secretion system protein EpsI | 3.21 | 1.68 | 1.14E-34 | ChrI |
| A0J47_RS00875 | Type II secretion system protein EpsH | 4.66 | 2.22 | 1.06E-91 | ChrI |
| A0J47_RS00880 | Type II secretion system protein EpsG | 4.54 | 2.18 | 2.82E-198 | ChrI |
| A0J47_RS00885 | Type II secretion system protein EpsF | 3.55 | 1.83 | 2.28E-88 | ChrI |
| Flagellar motility and chemotaxis | |||||
| A0J47_RS12245 | Chemotaxis protein CheV | 1.69 | 0.75 | 3.38E-53 | ChrII |
| A0J47_RS12040 | Chemotaxis response regulator CheY | 2.69 | 1.43 | 3.47E-80 | ChrI |
| A0J47_RS05380 | Methyl-accepting chemotaxis protein | 2.58 | 1.37 | 8.54E-152 | ChrI |
| A0J47_RS12030 | Chemotaxis protein histidine kinase CheA | 2.42 | 1.28 | 4.93E-56 | ChrI |
| A0J47_RS12035 | Chemotaxis regulator CheZ | 2.42 | 1.28 | 2.59E-51 | ChrI |
| A0J47_RS12075 | Flagellar biosynthetic protein FliQ | 2.31 | 1.21 | 3.72E-07 | ChrI |
| A0J47_RS12200 | Flagellar P-ring protein precursor FlgI | 1.98 | 0.98 | 4.34E-26 | ChrI |
| A0J47_RS12210 | Flagellar basal-body rod protein FlgG | 1.84 | 0.88 | 2.08E-20 | ChrI |
| Translation, ribosomal structure, and biogenesis | |||||
| A0J47_RS00405 | 30S ribosomal protein S6-L-glutamate ligase RimK | 52.24 | 5.71 | 0 | ChrI |
| A0J47_RS16560 | 2OG-Fe(II) oxygenase | 11.78 | 3.56 | 3.93E-161 | ChrII |
| A0J47_RS00505 | tRNA-dihydrouridine synthase B DusB | 6.43 | 2.69 | 1.13E-196 | |
| A0J47_RS06710 | 50S ribosomal protein L32 RpmF | 4.73 | 2.24 | 1.70E-29 | ChrI |
| A0J47_RS07485 | Small subunit ribosomal protein S1 RpsA | 4.29 | 2.10 | 3.66E-195 | ChrI |
| A0J47_RS02550 | 50s ribosomal protein L31 RpmE | 3.85 | 1.94 | 2.64E-102 | ChrI |
| A0J47_RS09500 | 50S ribosomal protein L25 RplY | 4.71 | 2.24 | 0 | ChrI |
| Metabolism and transport | |||||
| A0J47_RS17020 | Glutathione synthase GshB | 38.42 | 5.26 | 0 | ChrII |
| A0J47_RS15265 | Class I SAM-dependent methyltransferase | 29.87 | 4.90 | 1.43E-302 | ChrII |
| A0J47_RS12810 | Myo-inositol-1(or 4)-monophosphatase ShuB | 26.88 | 4.75 | 0 | ChrI |
| A0J47_RS08575 | Agmatinase SpeB | 11.13 | 3.48 | 0 | ChrI |
| A0J47_RS17735 | Gamma-glutamylputrescine oxidase | 9.63 | 3.27 | 1.30E-244 | ChrII |
| A0J47_RS01525 | Glutamine-fructose-6-phosphate transaminase GlmS | 7.50 | 2.91 | 9.23E-41 | ChrI |
| A0J47_RS17685 | Cysteine desulfurase | 7.34 | 2.87 | 3.41E-147 | ChrII |
| A0J47_RS17170 | Carboxynorspermidine decarboxylase | 4.47 | 2.16 | 1.99E-118 | ChrII |
| A0J47_RS17175 | Carboxynorspermidine synthase | 5.42 | 2.44 | 0 | ChrII |
| Transporters | |||||
| A0J47_RS09135 | Spermidine/putrescine binding protein PotD2 | 9.02 | 3.17 | 2.40E-96 | ChrI |
| A0J47_RS10120 | Energy-coupling factor ATP-binding protein EcfA | 8.28 | 3.05 | 4.99E-268 | ChrI |
| A0J47_RS01035 | 7-cyano-7-deazaguanine/7-aminomethyl-7-deazaguanine transporter YhhQ | 22.65 | 4.50 | 0 | ChrI |
| A0J47_RS11695 | TolC family protein CusC | 9.73 | 3.28 | 8.73E-73 | ChrI |
| A0J47_RS07645 | GPR1/FUN34/yaaH putative acetate transporter | 23.91 | 4.58 | 0 | ChrI |
| A0J47_RS19570 | NupC/NupG family nucleoside CNT transporter | 9.46 | 3.24 | 7.88E-273 | ChrII |
| A0J47_RS13535 | Magnesium transporter MgtE | 5.35 | 2.42 | 3.37E-182 | ChrI |
| A0J47_RS06610 | Na+/H+-dicarboxylate symporter | 7.76 | 2.96 | 1.58E-55 | ChrI |
| A0J47_RS10440 | Na+-driven multidrug efflux pump (MATE) | 6.13 | 2.62 | 1.92E-152 | ChrI |
| A0J47_RS15280 | MFS transporter | 32.63 | 5.03 | 0 | ChrII |
| A0J47_RS08650 | MFS transporter | 17.63 | 4.14 | 0 | ChrI |
| A0J47_RS15440 | MFS transporter | 6.17 | 2.62 | 3.73E-150 | ChrII |
| Peptidases | |||||
| A0J47_RS12990 | Putative protease YegQ | 11.93 | 3.58 | 0 | ChrI |
| A0J47_RS08645 | Peptidoglycan DD-metalloendopeptidase | 9.97 | 3.32 | 0 | ChrI |
| A0J47_RS18555 | Trypsin-like serine protease | 5.67 | 2.50 | 5.84E-262 | ChrII |
| A0J47_RS03380 | Do family serine endopeptidase | 4.26 | 2.09 | 9.46E-17 | ChrI |
| Transcriptional regulators | |||||
| A0J47_RS00510 | DNA-binding transcriptional regulator Fis | 5.81 | 2.54 | 5.61E-172 | ChrI |
| A0J47_RS12800 | Fe-S cluster assembly transcriptional regulator IscR | 5.61 | 2.49 | 1.82E-256 | ChrI |
| A0J47_RS01530 | DeoR family transcriptional regulator | 5.51 | 2.46 | 1.99E-21 | ChrI |
| A0J47_RS08475 | LysR family transcriptional regulator | 2.78 | 1.47 | 2.60E-51 | ChrI |
| Histone acetylation and tRNA binding/modification | |||||
| A0J47_RS19900 | Histone acetyltransferase HPA2 | 17.18 | 4.10 | 1.21E-208 | ChrII |
| A0J47_RS09065 | tRNA 2-thiocytidine(32) synthetase TtcA | 6.59 | 2.72 | 0 | ChrI |
| A0J47_RS00505 | tRNA dihydrouridine synthase DusB | 6.43 | 2.69 | 1.13E-196 | ChrI |
| A0J47_RS11195 | tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34)synthase CmoB | 5.17 | 2.37 | 1.27E-218 | ChrI |
| Hypothetical and uncharacterized proteins | |||||
| A0J47_RS17025 | Flavohemoglobin expression-modulating QEGLA motif protein | 27.51 | 4.78 | 0 | ChrII |
| A0J47_RS17005 | Hypothetical protein | 18.64 | 4.22 | 0 | ChrII |
| A0J47_RS10190 | Hypothetical protein | 13.27 | 3.73 | 1.35E-08 | ChrI |
| A0J47_RS10185 | Hypothetical protein | 11.90 | 3.57 | 1.16E-55 | ChrI |
| A0J47_RS19195 | Uncharacterized membrane protein | 9.61 | 3.27 | 3.45E-68 | ChrII |
| A0J47_RS19225 | DUF3316 domain-containing protein | 9.59 | 3.26 | 5.71E-162 | ChrII |
| A0J47_RS20565 | Uncharacterized protein | 4.78 | 2.26 | 9.38E-172 | pPHDD1 |
a
ChrI, chromosome I; ChrII, chromosome II; pPHDD1, virulence plasmid.