Experiment set2IT060 for Cupriavidus basilensis FW507-4G11

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D-Gluconic Acid sodium salt carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + D-Gluconic Acid sodium salt (20 mM), pH=7
Culturing: cupriavidus_4G11_ML11, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Jayashree on 3/3/2015
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)

Specific Phenotypes

For 7 genes in this experiment

For carbon source D-Gluconic Acid sodium salt in Cupriavidus basilensis FW507-4G11

For carbon source D-Gluconic Acid sodium salt across organisms

SEED Subsystems

Subsystem #Specific
D-gluconate and ketogluconates metabolism 3
Entner-Doudoroff Pathway 2
Chorismate Synthesis 1
Common Pathway For Synthesis of Aromatic Compounds (DAHP synthase to chorismate) 1
D-Galacturonate and D-Glucuronate Utilization 1
Lipid A-Ara4N pathway ( Polymyxin resistance ) 1
Quinate degradation 1
Teichuronic acid biosynthesis 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
D-gluconate degradation 1 1 1
UDP-α-D-glucuronate biosynthesis (from UDP-glucose) 1 1 1
UDP-α-D-xylose biosynthesis 2 2 1
L-idonate degradation 3 3 1
sorbitol biosynthesis II 3 2 1
gallate biosynthesis 3 2 1
quinate degradation I 3 1 1
quinate degradation II 3 1 1
D-fructuronate degradation 4 3 1
chorismate biosynthesis from 3-dehydroquinate 5 5 1
D-galacturonate degradation I 5 3 1
4-deoxy-L-threo-hex-4-enopyranuronate degradation 5 2 1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis 6 4 1
chorismate biosynthesis I 7 7 1
superpathway of β-D-glucuronosides degradation 7 4 1
3,6-anhydro-α-L-galactopyranose degradation 7 3 1
alginate degradation 7 1 1
ketogluconate metabolism 8 6 1
Entner-Doudoroff pathway III (semi-phosphorylative) 9 6 1
UDP-sugars interconversion 9 3 1
teichuronic acid biosynthesis (B. subtilis 168) 9 2 1
superpathway of L-phenylalanine biosynthesis 10 10 1
superpathway of L-tyrosine biosynthesis 10 10 1
superpathway of hexuronide and hexuronate degradation 10 5 1
colanic acid building blocks biosynthesis 11 11 1
chorismate biosynthesis II (archaea) 12 8 1
superpathway of L-tryptophan biosynthesis 13 13 1
superpathway of aromatic amino acid biosynthesis 18 18 1
superpathway of microbial D-galacturonate and D-glucuronate degradation 31 15 1
superpathway of aromatic compound degradation via 3-oxoadipate 35 25 1
superpathway of aromatic compound degradation via 2-hydroxypentadienoate 42 21 1
superpathway of chorismate metabolism 59 45 1