Experiment set1IT045 for Phocaeicola vulgatus CL09T03C04

Rhamnogalacturonan from soy bean pectic fibre 5 mg/ml carbon source

Group: carbon source
Media: Varel_Bryant_medium + Rhamnogalacturonan from soy bean pectic fibre (5 mg/ml)
Culturing: Bvulgatus_CL09T03C04_ML5, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 34 (C), shaken=0 rpm
By: Surya Tripathi on 12/22/21
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 Rhamnogalacturonan from soy bean pectic fibre in Phocaeicola vulgatus CL09T03C04

For carbon source Rhamnogalacturonan from soy bean pectic fibre across organisms

SEED Subsystems

Subsystem	#Specific
Cobalt-zinc-cadmium resistance	1
Galactosylceramide and Sulfatide metabolism	1
Lactose and Galactose Uptake and Utilization	1
Lactose utilization	1
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol 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
• Galactose metabolism
• Other glycan degradation
• Glycosaminoglycan degradation
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - ganglio series

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
lactose degradation III	1	1	1
L-galactonate degradation	1	1	1
xyloglucan degradation II (exoglucanase)	8	5	3
D-sorbitol degradation I	3	3	1