Experiment set16IT039 for Bacteroides thetaiotaomicron VPI-5482

Lactulose 20mM carbon source

Group: carbon source
Media: Varel_Bryant_medium + Lactulose (20 mM)
Culturing: Btheta_ML6a, 24-well transparent microplate, Anaerobic, at 37 (C), shaken=0 rpm
By: Valentine on 6/30/20
Media components: 15 uM Hemin, 134 uM L-Methionine, 15 uM Iron (II) sulfate heptahydrate, 8.25 mM L-Cysteine, 23.8 mM Sodium bicarbonate, Mineral 3B solution (6.6 mM Potassium phosphate monobasic, 15.4 mM Sodium Chloride, 98 uM Magnesium chloride hexahydrate, 176.5 uM Calcium chloride dihydrate, 4.2 uM Cobalt chloride hexahydrate, 50.5 uM Manganese (II) chloride tetrahydrate, 9.3 mM Ammonium chloride, 1.75 mM Sodium sulfate)

Specific Phenotypes

For 5 genes in this experiment

For carbon source Lactulose in Bacteroides thetaiotaomicron VPI-5482

For carbon source Lactulose across organisms

SEED Subsystems

Subsystem	#Specific
DNA structural proteins, bacterial	1
Galactosylceramide and Sulfatide metabolism	1
Lactose and Galactose Uptake and Utilization	1
Lactose utilization	1
Propionate-CoA to Succinate Module	1
Serine-glyoxylate cycle	1
TCA Cycle	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Citrate cycle (TCA cycle)
• Galactose metabolism
• Other glycan degradation
• Glycosaminoglycan degradation
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• Glyoxylate and dicarboxylate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• 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
lactose degradation III	1	1	1
xyloglucan degradation II (exoglucanase)	8	5	3
glyoxylate cycle	6	4	2
nitrogen remobilization from senescing leaves	8	5	2
partial TCA cycle (obligate autotrophs)	8	5	2
TCA cycle V (2-oxoglutarate synthase)	9	8	2
TCA cycle IV (2-oxoglutarate decarboxylase)	9	6	2
TCA cycle VI (Helicobacter)	9	6	2
TCA cycle II (plants and fungi)	9	6	2
TCA cycle VII (acetate-producers)	9	6	2
TCA cycle I (prokaryotic)	10	7	2
TCA cycle III (animals)	10	7	2
reductive TCA cycle I	11	9	2
reductive TCA cycle II	12	8	2
superpathway of glyoxylate bypass and TCA	12	7	2
superpathway of glyoxylate cycle and fatty acid degradation	14	6	2
mixed acid fermentation	16	12	2
methylaspartate cycle	19	11	2
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	17	2
ethene biosynthesis V (engineered)	25	15	2
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	18	2