Experiment set2IT020 for Bacteroides thetaiotaomicron VPI-5482

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D-Ribose carbon source

Group: carbon source
Media: Varel_Bryant_medium + D-Ribose (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 D-Ribose in Bacteroides thetaiotaomicron VPI-5482

For carbon source D-Ribose across organisms

SEED Subsystems

Subsystem #Specific
D-ribose utilization 2
Deoxyribose and Deoxynucleoside Catabolism 2
Fatty Acid Biosynthesis FASII 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
pyrimidine ribonucleosides salvage I 3 3 2
ribose phosphorylation 2 1 1
2-deoxy-D-ribose degradation I 3 2 1
gondoate biosynthesis (anaerobic) 4 4 1
palmitate biosynthesis II (type II fatty acid synthase) 31 29 7
palmitoleate biosynthesis I (from (5Z)-dodec-5-enoate) 9 8 2
oleate biosynthesis IV (anaerobic) 14 13 3
superpathway of fatty acids biosynthesis (E. coli) 53 47 11
fatty acid elongation -- saturated 5 5 1
superpathway of pyrimidine ribonucleosides salvage 10 9 2
superpathway of unsaturated fatty acids biosynthesis (E. coli) 20 17 4
cis-vaccenate biosynthesis 5 4 1
8-amino-7-oxononanoate biosynthesis IV 5 4 1
superpathway of fatty acid biosynthesis II (plant) 43 37 8
8-amino-7-oxononanoate biosynthesis I 11 9 2
even iso-branched-chain fatty acid biosynthesis 34 24 6
anteiso-branched-chain fatty acid biosynthesis 34 24 6
odd iso-branched-chain fatty acid biosynthesis 34 24 6
stearate biosynthesis II (bacteria and plants) 6 5 1
(5Z)-dodecenoate biosynthesis I 6 5 1
(5Z)-dodecenoate biosynthesis II 6 4 1
streptorubin B biosynthesis 34 20 5
biotin biosynthesis I 15 13 2
superpathway of fatty acid biosynthesis I (E. coli) 16 14 2
nucleoside and nucleotide degradation (archaea) 10 4 1
mycolate biosynthesis 205 18 4
superpathway of mycolate biosynthesis 239 19 4