Experiment set2IT017 for Paraburkholderia graminis OAS925

Beta-Lactose carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Beta-Lactose (20 mM)
Culturing: Burkholderia_OAS925_ML2, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 30 (C), shaken=700 rpm
By: Marta on 10-Apr-21
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 11 genes in this experiment

For carbon source Beta-Lactose in Paraburkholderia graminis OAS925

For carbon source Beta-Lactose across organisms

SEED Subsystems

Subsystem	#Specific
Galactosylceramide and Sulfatide metabolism	2
L-Arabinose utilization	2
Lactose and Galactose Uptake and Utilization	2
Lactose utilization	2
D-galactonate catabolism	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Maltose and Maltodextrin Utilization	1
Protein degradation	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
• Cyanoamino acid metabolism
• Starch and sucrose metabolism
• Other glycan degradation
• Glycosaminoglycan degradation
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• Phenylpropanoid biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
N-end rule pathway I (prokaryotic)	2	2	2
lactose degradation III	1	1	1
neolinustatin bioactivation	3	2	2
linustatin bioactivation	4	2	2
linamarin degradation	2	1	1
lotaustralin degradation	2	1	1
xyloglucan degradation II (exoglucanase)	8	3	3
cellulose degradation II (fungi)	3	2	1
coumarin biosynthesis (via 2-coumarate)	5	2	1
L-arabinose degradation III	6	5	1
L-arabinose degradation V	6	5	1
α-tomatine degradation	6	1	1
L-arabinose degradation IV	8	6	1
firefly bioluminescence	14	3	1
superpathway of pentose and pentitol degradation	42	21	1