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Subsystems statistically more likely to be present in either the Red or Black samples. These subsystems are more frequently found among sequences from either the Red or Black samples with a sample size of 5,000 proteins, 20,000 repeated samples, and P < 0.05. |
|
| Red Sample (Oxidized, pH4.37, Eh-8) |
Black Sample (Reduced, pH 6.70, Eh-142) |
|
|
|
| Amino Acids and Derivatives |
|
| Arginine biosynthesis |
Urea decomposition |
| Tryptophan synthesis |
Chorismate synthesis |
| Asp-Glu-tRNA(Asn-Gln) transamidation |
Branched-chain amino acid biosynthesis |
| Histidine biosynthesis |
Isoleucine degradation |
| Leucine biosynthesis |
|
| Leucine degradation and HMG-CoA metabolism |
|
| Valine degradation |
|
| Methionine salvage |
|
|
|
|
| Carbohydrates |
|
| Glyoxylate synthesis |
|
|
|
|
| Cell Division and Cell Cycle |
|
| Cytoskeleton |
|
|
|
|
| Cell Wall and Capsule |
|
| N-linked glycosylation in Bacteria |
|
| Teichoic acid biosynthesis |
|
|
|
|
| Cofactors, Vitamins, Prosthetic Groups, Pigments |
|
| Folate biosynthesis |
Coenzyme A biosynthesis in pathogens |
| Methylglyoxal metabolism |
Molybdopterin biosynthesis |
| Pyruvate metabolism I: anaplerotic rx, PEP |
Carotenoids |
| Ubiquinone biosynthesis |
Polyisoprenoid biosynthesis |
| Ubiquinone menaquinone-cytochrome c reductase |
NAD and NADP cofactor biosynthesis global |
| Riboflavin metabolism |
Coenzyme PQQ synthesis |
| Pyrroloquinoline quinone biosynthesis |
|
| Siderophore enterobactin biosynthesis |
|
| Siderophore enterobactin biosynthesis and ferric enterobactin transport |
|
| Thiamin biosynthesis |
|
|
|
|
| DNA metabolism |
|
| DNA repair, bacterial |
|
|
|
|
| Fatty Acids and Lipids |
|
| Fatty acid metabolism |
Glycerolipid and glycerphospholipid metabolism |
| Fatty acid oxidation pathway |
|
|
|
|
| Membrane Transport |
|
| ABC transporter maltose |
ABC transporter ferrichrome |
| ABC transporter heme |
|
| CbiQO-type ABC transporter systems |
|
| Sodium hydrogen antiporter |
|
|
|
|
| Metabolism of aromatic compounds |
|
| Phenylacetate pathway of aromatic compound degradation |
Homogentisate pathway of aromatic compound degradation |
|
|
|
| Motility and Chemotaxis |
|
| Bacterial chemotaxis |
|
| Flagellum |
|
|
|
|
| Nitrogen Metabolism |
|
| Denitrification |
|
|
|
|
| Nucleosides and Nucleotides |
|
| De novo purine biosynthesis |
|
| Ribonucleotide reduction |
|
|
|
|
| Protein Metabolism |
|
| Ribosome LSU bacterial |
Phenylpropionate degradation |
| Ribosome SSU bacterial |
|
| Translation factors bacterial |
|
| Universal GTPases |
|
| Protein degradation |
|
|
|
|
| Respiration |
|
| F0F1-type ATP synthase |
NiFe hydrogenase maturation |
| Terminal cytochrome C oxidases |
|
| Hydrogenases |
|
| Membrane-bound Ni, Fe-hydrogenase |
|
| Na(+)-translocating NADH-quinone oxidoreductase and rnf-like group of electron transport complexes |
|
| Respiratory complex I |
|
| Respiratory dehydrogenases 1 |
|
|
|
|
| RNA metabolism |
|
| Polyadenylation bacterial |
|
| RNA polymerase bacterial |
|
| tRNA aminoacylation |
|
|
|
|
| Stress response |
|
| Glutathione redox metabolism |
|
| ppGpp biosynthesis |
|
|
|
|
| Sulfur Metabolism |
|
| Sulfate assimilation |
|
|
|
|
| Virulence |
|
| Resistance to fluoroquinolones |
|
Edwards et al. BMC Genomics 2006 7:57 doi:10.1186/1471-2164-7-57 |
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