Experiment set2S416 for Phocaeicola vulgatus CL09T03C04

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D-Glucose carbon source

Group: carbon source
Media: Varel_Bryant_medium + D-Glucose (20 mM)
Culturing: Bvulgatus_CL09T03C04_ML5, 24-well microplate; 1.2 mL volume, Anaerobic, at 34 (C), shaken=0 rpm
By: Surya Tripathi on 3-Jul-23
Media components: 15 uM Hemin, 134 uM L-Methionine, 15 uM Iron (II) sulfate heptahydrate, 8.25 mM L-Cysteine, 23.8 mM Sodium bicarbonate, Mineral 3B solution (6.6 mM Potassium phosphate monobasic, 15.4 mM Sodium Chloride, 98 uM Magnesium chloride hexahydrate, 176.5 uM Calcium chloride dihydrate, 4.2 uM Cobalt chloride hexahydrate, 50.5 uM Manganese (II) chloride tetrahydrate, 9.3 mM Ammonium chloride, 1.75 mM Sodium sulfate)

Specific Phenotypes

For 9 genes in this experiment

For carbon source D-Glucose in Phocaeicola vulgatus CL09T03C04

For carbon source D-Glucose across organisms

SEED Subsystems

Subsystem #Specific
Campylobacter Iron Metabolism 1
Carboxysome 1
Entner-Doudoroff Pathway 1
Pentose phosphate pathway 1
Potassium homeostasis 1
Respiratory dehydrogenases 1 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
NADH to cytochrome bo oxidase electron transfer I 2 1 1
NADH to cytochrome bd oxidase electron transfer I 2 1 1
pentose phosphate pathway (oxidative branch) I 3 3 1
aerobic respiration III (alternative oxidase pathway) 3 2 1
aerobic respiration I (cytochrome c) 4 2 1
cytosolic NADPH production (yeast) 5 3 1
formaldehyde oxidation I 6 3 1
NAD(P)/NADPH interconversion 6 2 1
Fe(II) oxidation 6 1 1
L-lysine biosynthesis VI 7 7 1
pentose phosphate pathway 8 8 1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) 8 3 1
Entner-Doudoroff pathway I 9 8 1
L-lysine biosynthesis II 9 6 1
L-lysine biosynthesis I 9 6 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 12 1
superpathway of glucose and xylose degradation 17 16 1
superpathway of glycolysis and the Entner-Doudoroff pathway 17 14 1
heterolactic fermentation 18 14 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 12 1
aspartate superpathway 25 19 1