Experiment set2IT068 for Cupriavidus basilensis FW507-4G11

Sodium propionate carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Sodium propionate (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 5 genes in this experiment

For carbon source Sodium propionate in Cupriavidus basilensis FW507-4G11

For carbon source Sodium propionate across organisms

SEED Subsystems

Subsystem	#Specific
Biotin biosynthesis	1
Nitric oxide synthase	1
Oxidative stress	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Citrate cycle (TCA cycle)
• Ascorbate and aldarate metabolism
• Biosynthesis of steroids
• Ubiquinone and menaquinone biosynthesis
• Alanine and aspartate metabolism
• gamma-Hexachlorocyclohexane degradation
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Sphingolipid metabolism
• Pyruvate metabolism
• Naphthalene and anthracene degradation
• 1,4-Dichlorobenzene degradation
• Biotin metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Brassinosteroid biosynthesis
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
8-amino-7-oxononanoate biosynthesis III	2	2	1
8-amino-7-oxononanoate biosynthesis II	2	1	1
8-amino-7-oxononanoate biosynthesis IV	5	4	1
biotin biosynthesis II	6	5	1
incomplete reductive TCA cycle	7	4	1
8-amino-7-oxononanoate biosynthesis I	11	9	1
reductive TCA cycle I	11	7	1
gluconeogenesis III	12	11	1
(S)-lactate fermentation to propanoate, acetate and hydrogen	13	7	1
biotin biosynthesis I	15	13	1
gluconeogenesis II (Methanobacterium thermoautotrophicum)	18	9	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	21	1