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Table 2 Genes differentially expressed by ArcA under aerobic conditions with or without H 2 O 2 that have predicted ArcA binding sites

From: Probing the ArcA regulon under aerobic/ROS conditions in Salmonella enterica serovar Typhimurium

Gene ID Gene ID Gene name Fold change H2O2/control Fold change control Strand PositionA Sequence p-valueB Function
LT2 14028s   14028s ΔarcA ΔarcA/14028s    5′ - 3′   
STM0958 STM14_1080.J trxB 4.93 1.9 1.35 - 94 GTTAACAATATGTGT 1.00E-05 thioredoxin reductase
+ 85 GTTAACAAAATCGTT 5.70E-05
STM1520 STM14_1838 marR 1.75 −1.38 −1.02 - 73 GTCAACTAAATGAAT 9.50E-05 DNA-binding transcriptional repressor MarR
STM1586 STM14_1918 - 5.55 2.75 1.06 + 171 GTTAAGAAAATGTGC 9.50E-05 putative periplasmic protein
STM3216 STM14_3893 tsr 1.17 −1.65 −1.31 - 198 GTTAACCATTTCTTA 8.10E-06 putative methyl-accepting chemotaxis protein
STM2445 STM14_3003 ucpA −5.34 −1.83 −1.86 + 44 GTTAATGGAGTGTAA 1.20E-05 short chain dehydrogenase
STM1795 STM14_2170 gluD −6.28 −1.34 −1.94 - 121 GTTAACTATCCGCTA 9.50E-05 putative glutamic dehyrogenase-like protein
STM4087 STM14_4913 glpF −1.63 −5.7 8.77 + 217 GTTAATGAAATGATT 1.00E-05 glycerol diffusion
STM1771 STM14_2141 chaA −1.77 −5.97 3.31 - 36 GTTAATATTTTGGAA 8.00E-05 calcium/sodium:proton antiporter
STM1125 STM14_1281 putP −8.81 −3.4 −3.46 + 234 GTTAACACTTTTAAA 9.50E-05 major sodium/proline symporter
STM1091 STM14_1237 sopB −2.17 −3.57 −5.89 + 52 GTTAACCCTGTTGAA 8.00E-05 secreted effector protein
STM2866 STM14_3463 sprB −6.06 −2.32 −3.51 + 281 GTTAATGAAAGGGAA 8.10E-06 transcriptional regulator
STM4405 STM14_5290 ytfJ −3.2 −1.45 −2.31 - 67 GTTAATCATATGTGC 3.30E-05 putative transcriptional regulator
STM4535 STM14_5449 - −2.7 −1.04 −2.76 - 98 GTTAACAGAGGGAAA 9.50E-05 putative PTS permease
STM4467 STM14_5361   −1.83 1.02 −2.07 - 271 GTTAATTATTTGTTT 6.50E-06 arginine deiminase
STM1130 STM14_1293 nanM −2.58 1.01 −2.92 + 115 GATAACTCCATGTAA 8.00E-05 putative inner membrane protein
STM4165 STM14_5006 rsd 2.75 1.69 2.74 - 67 GTTAACAACATGCCA 1.20E-05 anti-RNA polymerase sigma 70 factor
STM1728 STM14_2091 yciG 1.68 1.95 −2.11 - 261 GTTAATGCATTGTTT 1.50E-05 putative cytoplasmic protein
STM0292 STM14_0341 - 1.18 2.12 2.18 - 248 GTTCATCAAATGTAG 6.80E-05 putative RHS-like protein
STM2220 STM14_2744 yejG 5.84 2.41 2.94 + 64 GTCAATGATGTGTTA 6.80E-05 hypothetical protein
STM1770 STM14_2140 chaB 2.07 3.64 −2.12 + 245 GTTAATATTTTGGAA 8.00E-05 cation transport regulator
STM1211 STM14_1385.J ndh 7.09 3.58 2.24 - 44 GTTAATTAAAAGTTA 1.10E-06 respiratory NADH dehydrogenase 2
+ 65 GTTAATTAAAGGCTA 1.00E-05
- 33 ATTAACCAATTGTTA 9.50E-05
STM1746.S STM14_2110 oppA −7.87 −2.46 −3.08 + 318 GTTAACAAAATTGTA 1.00E-05 oligopeptide transport protein
- 327 GTTAACCAATTCTCT 6.80E-05
STM1818 STM14_2199 fadD −1.56 −1.85 2.56 + 75 GTTAATATAATGTTA 1.00E-05 long-chain-fatty-acid--CoA ligase
+ 64 GTTAACGACTTGTTT 1.00E-05
STM3692 STM14_4451 lldP −13.27 −2.11 −6.83 - 125 GTTAACCAGATGTTA 2.00E-06 L-lactate permease
+ 136 GTTAACTATTTGTTG 5.20E-06
- 173 GTTAATTTAATGAAA 1.90E-05
STM1303 STM14_1582 argD −2.63 −1.11 −2.95 - 40 GTTATTTATATGTTA 2.80E-05 bifunctional succinylornithine transaminase
+ 112 GTTTATGCAATGTTA 5.70E-05
  1. Alocation of the binding sequence is in bp upstream of the translation start site in the genome of S. Typhimurium 14028s [37].
  2. Bp-value estimates the significance of the weight associated to each site [38].