Experiment set1S321 for Rhodopseudomonas palustris CGA009

Compare to:

Citraconic acid carbon source; anaerobic

Group: carbon source
Media: PM + Citraconic acid (10 mM) + Sodium bicarbonate (10 mM) + Light intensity (30 µmol photons/m2/s from a 60-W incandescent light bulb)
Culturing: RPal_CGA009_ML8, tube, Anaerobic, at 30 (C)
By: Rpal_Yasu on 9/1/24
Media components: 12.5 mM Disodium phosphate, 12.5 mM Potassium phosphate monobasic, 1 g/L Ammonium Sulfate, 0.1 mM Sodium thiosulfate pentahydrate, 0.002 g/L 4-Aminobenzoic acid, UW concentrated base (0.02 g/L Nitrilotriacetic acid, 0.0289 g/L Magnesium sulfate, 0.00667 g/L Calcium chloride dihydrate, 1.85e-05 g/L ammonium molybdate tetrahydrate, 0.000698 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L EDTA, 0.001095 g/L Zinc sulfate heptahydrate, 0.000154 g/L Manganese (II) sulfate monohydrate, 3.92e-05 g/L Copper (II) sulfate pentahydrate, 2.5e-05 g/L Cobalt(II) nitrate hexahydrate, 1.77e-05 g/L sodium tetraborate decahydrate)

Specific Phenotypes

For 11 genes in this experiment

For carbon source Citraconic acid in Rhodopseudomonas palustris CGA009

For carbon source Citraconic acid across organisms

SEED Subsystems

Subsystem #Specific
Homogentisate pathway of aromatic compound degradation 3
Aromatic amino acid interconversions with aryl acids 1
Benzoate transport and degradation cluster 1
Glutaredoxins 1
Glutathione: Redox cycle 1

Metabolic Maps

Color code by fitness: see overview map or list of maps.

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
benzoate degradation II (aerobic and anaerobic) 1 1 1
propanoyl CoA degradation I 3 3 1
2-oxobutanoate degradation I 4 3 1
pyruvate fermentation to propanoate I 7 4 1
benzoate biosynthesis I (CoA-dependent, β-oxidative) 9 4 1
anaerobic energy metabolism (invertebrates, mitochondrial) 10 8 1
L-glutamate degradation VIII (to propanoate) 11 4 1
ethylmalonyl-CoA pathway 11 3 1
3-hydroxypropanoate cycle 13 9 1
(S)-lactate fermentation to propanoate, acetate and hydrogen 13 6 1
crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered) 14 3 1
superpathway of L-methionine salvage and degradation 16 10 1
superpathway of anaerobic energy metabolism (invertebrates) 17 13 1
benzoate fermentation (to acetate and cyclohexane carboxylate) 17 7 1
3-hydroxypropanoate/4-hydroxybutanate cycle 18 12 1
superpathway of the 3-hydroxypropanoate cycle 18 9 1
methylaspartate cycle 19 11 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 8 1