Table 3 Genes repressed in the "Energy metabolism" category in anaerobic cultures of EtrA7-1 grown on lactate and nitrate relative to the wild type (reference strain).
From: Fnr (EtrA) acts as a fine-tuning regulator of anaerobic metabolism in Shewanella oneidensisMR-1
Gene ID | Gene name | Relative expressiona | Predicted EtrA binding sitesc | COG Annotation |
|---|---|---|---|---|
SO0274 | ppc | 0.48 (± 0.19) | phosphoenolpyruvate carboxylase | |
SO0398 | frdA | 0.30 (±0.16)b | fumarate reductase flavoprotein subunit | |
SO0399 | frdB | 0.39 (± 0.06) | fumarate reductase iron-sulfur protein | |
SO0845 | napB | 0.15 (± 0.04) | cytochrome c-type protein NapB | |
SO0846 | napH | 0.18 (± 0.11) | iron-sulfur cluster-binding protein napH | |
SO0847 | napG | 0.14 (± 0.07) | iron-sulfur cluster-binding protein NapG | |
SO0848 | napA | 0.18 (± 0.13) | ↑ | periplasmic nitrate reductase |
SO0849 | napD | 0.30 (± 0.04) | GTCGATCGGGATCAAA CGTGATCTAACTCTCA | napD protein |
SO0903 | nqrB-1 | 0.34 (± 0.15) | TTTGCTGTAAAGCAAA TGTGCATGGAATCGCC | NADH:ubiquinone oxidoreductase, Na translocating, hydrophobic membrane protein NqrB |
SO0904 | nqrC-1 | 0.28 (± 0.09) | ↓ | NADH:ubiquinone oxidoreductase, Na translocating, gamma subunit |
SO0905 | nqrD-1 | 0.27 (± 0.14) | ↓ | NADH:ubiquinone oxidoreductase, Na translocating, hydrophobic membrane protein NqrD |
SO0906 | nqrE-1 | 0.23 (± 0.07) | ↓ | NADH:ubiquinone oxidoreductase, Na translocating, hydrophobic membrane protein NqrE |
SO0907 | nqrF-1 | 0.23 (± 0.08) | NADH:ubiquinone oxidoreductase, Na translocating, beta subunit | |
SO0970 | fccA | 0.31 (±0.17) | Periplasmic fumarate reductase, FccA | |
SO1018 | nuoE | 0.44 (± 0.17) | NADH dehydrogenase I, E subunit | |
SO1019 | nuoCD | 0.35 (± 0.13) | NADH dehydrogenase I, C/D subunits | |
SO1020 | nuoB | 0.40 (± 0.10) | NADH dehydrogenase I, B subunit | |
SO1363 | hcp | 0.13 (± 0.08) | prismane protein | |
SO1364 | hcr | 0.12 (± 0.07) | iron-sulfur cluster-binding protein | |
SO1429 | dmsA-1 | 0.43 (± 0.09) | TGTGATACAATTCAAA | anaerobic dimethyl sulfoxide reductase, A subunit |
SO1430 | dmsB-1 | 0.29 (± 0.04) | ↓ | anaerobic dimethyl sulfoxide reductase, B subunit |
SO1490 | adhB | 0.28 (± 0.12) | TGTGATCTAGATCGGT TTGGAACTAGATAACT | alcohol dehydrogenase II |
SO1776 | mtrB | 0.22 (± 0.04) | outer membrane protein precursor MtrB | |
SO1777 | mtrA | 0.25 (± 0.06) | decaheme cytochrome c MtrA | |
SO1778 | mtrC | 0.30 (± 0.09) | decaheme cytochrome c MtrC | |
SO1779 | omcA | 0.30 (± 0.05) | GTGGAATTAGATCCCA TGTGATTGAGATCTGA TTTGAGGTAGATAACA | decaheme cytochrome c |
SO2097 | hyaC | 0.07 (± 0.04) | quinone-reactive Ni/Fe hydrogenase, cytochrome b subunit | |
SO2098 | hyaB | 0.11 (± 0.10) | quinone-reactive Ni/Fe hydrogenase, large subunit | |
SO2099 | hyaA | 0.07 (± 0.11) | quinone-reactive Ni/Fe hydrogenase, small subunit precursor | |
SO2136 | adhE | 0.40 (± 0.10) | aldehyde-alcohol dehydrogenase | |
SO2912 | pflB | 0.18 (± 0.11) | TTTGAGCTGAAACAAA | formate acetyltransferase |
SO2913 | pflA | 0.20 (± 0.13) | pyruvate formate-lyase 1 activating enzyme | |
SO2915 | ackA | 0.23 (±0.16) | acetate kinase | |
SO2916 | pta | 0.23 (± 0.14) | phosphate acetyltransferase | |
SO3144 | etfA | 0.36 (± 0.13) | electron transfer flavoprotein, alpha subunit | |
SO3285 | cydB | 0.21 (± 0.06) | ↑ | cytochrome d ubiquinol oxidase, subunit II |
SO3286 | cydA | 0.22 (± 0.10) | TTTGATTCAAATCAAT | cytochrome d ubiquinol oxidase, subunit I |
SO3980 | nrfA | 0.18 (± 0.06) | TTTGCGCTAGATCAAA | cytochrome c552 nitrite reductase |
SO4513 | fdhA-2 | 0.06 (± 0.02) | ACTGTTCTAGATCAAA | formate dehydrogenase, alpha subunit |
SO4515 | fdhC-2 | 0.07 (± 0.01) | formate dehydrogenase, C subunit, putative | |
SO4591 | cymA | 0.39 (± 0.27) | tetraheme cytochrome c |