Experiment set3S935 for Rhodanobacter sp. FW510-T8

NLDM_defined_nocarbon with D-Glucose and L-Methionine 1 mM

Group: nutrient
Media: NLDM_defined_nocarbon + D-Glucose (20 mM) + L-Methionine (1 mM), pH=7
Culturing: rhodanobacter_T8_ML1, 96 well deep well block, Aerobic, at 23 (C), shaken=700 rpm
By: Hira Lesea on 09/01/2025
Media components: 1 mM Ammonium chloride, 3.3 mM Potassium Chloride, 0.812 mM Magnesium Sulfate Heptahydrate, 0.68 mM Calcium chloride dihydrate, 4.05 mM Disodium phosphate, 0.95 mM Sodium phosphate monobasic, ATCC Wolfe's mineral mix (5 mg/L EDTA, 3 mg/L Magnesium Sulfate Heptahydrate, 5 mg/L Manganese (II) sulfate monohydrate, 10 mg/L Sodium Chloride, 1 mg/L Iron (II) sulfate heptahydrate, 1 mg/L Cobalt(II) nitrate hexahydrate, 1 mg/L Calcium chloride dihydrate, 1 mg/L Zinc sulfate heptahydrate, 0.1 mg/L Copper (II) sulfate pentahydrate, 0.1 mg/L Aluminum potassium sulfate dodecahydrate, 0.1 mg/L Boric Acid, 0.1 mg/L Sodium Molybdate Dihydrate, 0.01 mg/L Sodium selenite pentahydrate, 0.1 mg/L Sodium tungstate dihydrate, 0.2 mg/L Nickel (II) chloride hexahydrate), ATCC Wolfe's vitamin mix (20 ug/L Folic Acid, 100 ug/L Pyridoxine HCl, 50 ug/L Riboflavin, 20 ug/L biotin, 50 ug/L Thiamine HCl, 50 ug/L Nicotinic Acid, 50 ug/L calcium pantothenate, 1 ug/L Cyanocobalamin, 50 ug/L 4-Aminobenzoic acid, 50 ug/L Lipoic acid)

Specific Phenotypes

For 7 genes in this experiment

For nutrient D-Glucose in Rhodanobacter sp. FW510-T8

For nutrient D-Glucose across organisms

SEED Subsystems

Subsystem	#Specific
Glycine Biosynthesis	2
Glycine and Serine Utilization	1
Threonine degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glycine, serine and threonine metabolism
• Purine metabolism
• gamma-Hexachlorocyclohexane degradation
• Lipopolysaccharide biosynthesis
• Toluene and xylene degradation
• Naphthalene and anthracene degradation
• Folate biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
chlorinated phenols degradation	4	4	4
L-threonine degradation II	2	2	2
phenol degradation I (aerobic)	1	1	1
L-threonine degradation III (to methylglyoxal)	3	2	2
aminopropanol phosphate biosynthesis II	4	2	2
superpathway of L-threonine metabolism	18	14	3