Experiment set9S298 for Enterobacter sp. TBS_079

D-Raffinose pentahydrate carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + D-Raffinose pentahydrate (10 mM)
Culturing: Enterobacter_TBS_079_ML3, microplate, Aerobic, at 30 (C)
By: Robin on 6/19/24
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 3 genes in this experiment

For carbon source D-Raffinose pentahydrate in Enterobacter sp. TBS_079

For carbon source D-Raffinose pentahydrate across organisms

SEED Subsystems

Subsystem	#Specific
Butanol Biosynthesis	1
Fermentations: Mixed acid	1
Type 4 secretion and conjugative transfer	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Galactose metabolism
• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Starch and sucrose metabolism
• Nucleotide sugars metabolism
• Glycosaminoglycan degradation
• Pyruvate metabolism
• Propanoate metabolism
• Butanoate metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
reductive monocarboxylic acid cycle	2	2	1
sucrose degradation I (sucrose phosphotransferase)	3	3	1
pyruvate fermentation to ethanol I	3	3	1
pyruvate fermentation to acetate IV	3	3	1
inulin degradation	3	1	1
sucrose degradation III (sucrose invertase)	4	4	1
sucrose degradation V (sucrose α-glucosidase)	5	3	1
L-threonine degradation I	6	6	1
superpathway of fermentation (Chlamydomonas reinhardtii)	9	9	1
(S)-lactate fermentation to propanoate, acetate and hydrogen	13	7	1
mixed acid fermentation	16	16	1
superpathway of L-threonine metabolism	18	16	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	18	1
superpathway of N-acetylneuraminate degradation	22	19	1