Experiment set1IT036 for Sinorhizobium meliloti 1021

D-Tagatose carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + D-(-)-tagatose (20 mM), pH=7
Culturing: Smeli_ML6, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
Growth: about 4.6 generations
By: Mark on 6/2/2015
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)
Growth plate: Smeli_carbon_plate2 C5

Specific Phenotypes

For 4 genes in this experiment

For carbon source D-(-)-tagatose in Sinorhizobium meliloti 1021

For carbon source D-(-)-tagatose across organisms

SEED Subsystems

Subsystem	#Specific
Bacterial Chemotaxis	1
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Galactose metabolism
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
D-galactosamine and N-acetyl-D-galactosamine degradation	4	3	2
galactitol degradation	5	4	2
N-acetyl-D-galactosamine degradation	5	3	2
lactose degradation I	5	2	2
D-tagatose degradation	3	1	1
D-altritol and galactitol degradation	4	3	1
superpathway of hexitol degradation (bacteria)	18	13	3
formaldehyde assimilation II (assimilatory RuMP Cycle)	9	7	1
1,3-propanediol biosynthesis (engineered)	9	5	1
glycolysis IV	10	8	1
glycolysis III (from glucose)	11	10	1
glycolysis II (from fructose 6-phosphate)	11	9	1
homolactic fermentation	12	10	1
glycolysis I (from glucose 6-phosphate)	13	10	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	14	1
superpathway of anaerobic sucrose degradation	19	14	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	12	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	19	1
superpathway of N-acetylneuraminate degradation	22	16	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	22	1