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Table 2 Genes induced in the "Energy Metabolism" category in anaerobic cultures of EtrA7-1 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
SO0162 pckA 2.21 (± 0.48)b TGTGAGCTGGATCATT phosphoenolpyruvate carboxykinase (ATP)
SO0747 fpr 2.17 (± 1.01)   ferredoxin--NADP reductase
SO1103 nqrA-2 2.25 (± 0.54) TCTGCGCTAGCTCAAT CGTGATTGCGATCGCA NADH:ubiquinone oxidoreductase, Na translocating, alpha subunit
SO1104 nqrB-2 2.70 (± 1.01) NADH:ubiquinone oxidoreductase, Na translocating, hydrophobic membrane protein NqrB
SO1105 nqrC-2 3.15 (± .080) NADH:ubiquinone oxidoreductase, Na translocating, gamma subunit
SO1106 nqrD-2 4.65 (± 2.07) NADH:ubiquinone oxidoreductase, Na translocating, hydrophobic membrane protein NqrD
SO1107 nqrE-2 3.63 (± 1.61) NADH:ubiquinone oxidoreductase, Na translocating, hydrophobic membrane protein NqrE
SO1108 nqrF-2 4.21 (± 2.05) NADH:ubiquinone oxidoreductase, Na translocating, beta subunit
SO1891 scoB 3.77 (± 1.80)   Acetyl-CoA:acetoacetate CoA transferase, alpha subunit AtoA
SO1892 scoA 3.21 (± 2.14)   acetate CoA-transferase, beta subunit AtoD
SO1927 sdhC 2.47 (± 1.26)   succinate dehydrogenase, cytochrome b556 subunit
SO1930 sucA 3.02 (± 1.22)   2-oxoglutarate dehydrogenase, E1 component
SO1931 sucB 3.60 (± 1.58)   2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase
SO1932 sucC 3.29 (± 0.98)   succinyl-CoA synthase, beta subunit
SO1933 sucD 3.28 (± 1.24)   succinyl-CoA synthase, alpha subunit
SO2361 ccoP 2.30 (± 0.92) cytochrome c oxidase, cbb3-type, subunit III
SO2362 ccoQ 3.44 (± 1.16) cytochrome c oxidase, cbb3-type, CcoQ subunit
SO2364 ccoN 2.76 (± 1.07) CTTGAGCCATGTCAAA GTTGATCTAGATCAAT cytochrome c oxidase, cbb3-type, subunit I
SO4509 fdhA-1 2.33 (± 0.56)   formate dehydrogenase, alpha subunit
SO4510 fdhB-1 4.03 (± 1.57)   formate dehydrogenase, iron-sulfur subunit
SO4511 fdhC-1 2.53 (± 0.31)   formate dehydrogenase, C subunit, putative
  1. a The relative expression is presented as the ratio of the dye intensity of the anaerobic cultures with 2 mM KNO3 of EtrA7-1 to that of MR-1 (reference).
  2. b The standard deviation was calculated from six data points, which included three independent biological samples and two technical samples for each biological sample.
  3. c The arrows indicate that the gene is regulated by the binding site that follows. The direction of the arrow indicates the location of the gene. An arrow pointing down indicates the gene or operon is in the plus or sense strand and the arrow pointing up indicates the gene or operon is in the minus or anti-sense strand.