Experiment set1S462 for Bacteroides stercoris CC31F

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Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml carbon source

Group: carbon source
Media: Varel_Bryant_medium + Rhamnogalacturonan from soy bean pectic fibre (2.5 mg/mL)
Culturing: Bstercoris_CC31F_ML5, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya on 10/31/24
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 13 genes in this experiment

For carbon source Rhamnogalacturonan from soy bean pectic fibre in Bacteroides stercoris CC31F

For carbon source Rhamnogalacturonan from soy bean pectic fibre across organisms

SEED Subsystems

Subsystem #Specific
Xylose utilization 2
DNA repair, UvrABC system 1
Glycerol and Glycerol-3-phosphate Uptake and Utilization 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
L-rhamnose utilization 1
Lipid A-Ara4N pathway ( Polymyxin resistance ) 1
Nitrosative stress 1
Phosphate metabolism 1
Respiratory dehydrogenases 1 1
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization 1
ZZ gjo need homes 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
D-xylose degradation I 2 2 1
glycerophosphodiester degradation 2 2 1
glycerol-3-phosphate shuttle 2 2 1
glycerol-3-phosphate to fumarate electron transfer 2 1 1
glycerol-3-phosphate to cytochrome bo oxidase electron transfer 2 1 1
xylitol degradation I 2 1 1
diethylphosphate degradation 2 1 1
glycerol-3-phosphate to hydrogen peroxide electron transport 2 1 1
glycerol 3-phosphate to cytochrome aa3 oxidase electron transfer 2 1 1
nitrate reduction IX (dissimilatory) 2 1 1
(1,4)-β-D-xylan degradation 2 1 1
D-arabinitol degradation I 2 1 1
sn-glycerol 3-phosphate anaerobic respiration 3 1 1
glycerol degradation I 3 1 1
glycerol and glycerophosphodiester degradation 4 2 1
superpathway of glucose and xylose degradation 17 16 1
superpathway of pentose and pentitol degradation 42 5 1