Experiment set7IT004 for Agrobacterium fabrum C58

Beta-Lactose carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Beta-Lactose (10 mM)
Culturing: Agro_ML11, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 10-Jan-22
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 14 genes in this experiment

For carbon source Beta-Lactose in Agrobacterium fabrum C58

For carbon source Beta-Lactose across organisms

SEED Subsystems

Subsystem	#Specific
Galactosylceramide and Sulfatide metabolism	2
Lactose and Galactose Uptake and Utilization	2
Melibiose Utilization	2
Chitin and N-acetylglucosamine utilization	1
Fructooligosaccharides(FOS) and Raffinose Utilization	1
Inositol catabolism	1
Lactose utilization	1
Maltose and Maltodextrin Utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Galactose metabolism
• Sphingolipid metabolism
• Cyanoamino acid metabolism
• Starch and sucrose metabolism
• Other glycan degradation
• Glycosaminoglycan degradation
• Glycerolipid metabolism
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Phenylpropanoid biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
lactose degradation III	1	1	1
melibiose degradation	1	1	1
neolinustatin bioactivation	3	2	2
D-galactose degradation II	2	2	1
linustatin bioactivation	4	2	2
lotaustralin degradation	2	1	1
linamarin degradation	2	1	1
xyloglucan degradation II (exoglucanase)	8	3	3
cellulose degradation II (fungi)	3	2	1
stachyose degradation	7	4	2
coumarin biosynthesis (via 2-coumarate)	5	2	1
α-tomatine degradation	6	1	1
firefly bioluminescence	14	2	1