Experiment set1S433 for Phocaeicola dorei CL03T12C01

Compare to:

Xylan from Beechwood carbon source

Group: carbon source
Media: Varel_Bryant_medium + Xylan from Beechwood (5 mg/mL)
Culturing: Bdorei_CL03T12C01_ML9, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 34 (C), shaken=0 rpm
By: Surya on 10/1/23
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 8 genes in this experiment

For carbon source Xylan from Beechwood in Phocaeicola dorei CL03T12C01

For carbon source Xylan from Beechwood across organisms

SEED Subsystems

Subsystem #Specific
D-Galacturonate and D-Glucuronate Utilization 3
Xylose utilization 2
Iron acquisition in Vibrio 1
Ton and Tol transport systems 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-fructuronate degradation 4 4 2
(1,4)-β-D-xylan degradation 2 2 1
cellulose and hemicellulose degradation (cellulolosome) 3 1 1
superpathway of β-D-glucuronosides degradation 7 6 2
superpathway of hexuronide and hexuronate degradation 10 9 2
superpathway of microbial D-galacturonate and D-glucuronate degradation 31 13 2