Experiment set1IT081 for Bacteroides thetaiotaomicron VPI-5482

L-Rhamnose monohydrate carbon source

Group: carbon source
Media: Varel_Bryant_medium + L-Rhamnose monohydrate (20 mM)
Culturing: Btheta_ML6, 24-well transparent microplate, Anaerobic, at 37 (C), shaken=0 rpm
By: Hualan on 8-May-17
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 7 genes in this experiment

For carbon source L-Rhamnose monohydrate in Bacteroides thetaiotaomicron VPI-5482

For carbon source L-Rhamnose monohydrate across organisms

SEED Subsystems

Subsystem	#Specific
L-rhamnose utilization	5
Deoxyribose and Deoxynucleoside Catabolism	1
Glycolysis and Gluconeogenesis	1
L-fucose utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fructose and mannose metabolism
• Pentose phosphate pathway
• Glycolysis / Gluconeogenesis
• Pentose and glucuronate interconversions
• Pyruvate metabolism
• Glyoxylate and dicarboxylate metabolism
• Carbon fixation in photosynthetic organisms
• Biosynthesis of phenylpropanoids

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-lactaldehyde degradation (anaerobic)	1	1	1
ethylene glycol degradation	2	1	1
L-rhamnose degradation I	5	5	2
2-deoxy-D-ribose degradation I	3	2	1
2-deoxy-α-D-ribose 1-phosphate degradation	3	1	1
superpathway of fucose and rhamnose degradation	12	10	3
L-lyxose degradation	4	2	1
methylglyoxal degradation VI	4	1	1
nucleoside and nucleotide degradation (halobacteria)	6	3	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	3	1
superpathway of purine deoxyribonucleosides degradation	7	4	1
superpathway of glycol metabolism and degradation	7	2	1
sucrose biosynthesis I (from photosynthesis)	9	6	1
glycolysis II (from fructose 6-phosphate)	11	10	1
gluconeogenesis III	12	10	1
formaldehyde assimilation III (dihydroxyacetone cycle)	12	10	1
glycolysis I (from glucose 6-phosphate)	13	11	1
gluconeogenesis I	13	11	1
Calvin-Benson-Bassham cycle	13	9	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	14	1
oxygenic photosynthesis	17	9	1
superpathway of hexitol degradation (bacteria)	18	12	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	14	1
superpathway of anaerobic sucrose degradation	19	14	1
superpathway of N-acetylneuraminate degradation	22	16	1
ethene biosynthesis V (engineered)	25	15	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	18	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	12	1
1-butanol autotrophic biosynthesis (engineered)	27	12	1
superpathway of pentose and pentitol degradation	42	12	1