Experiment set2S525 for Bacteroides stercoris CC31F

Chondroitin sulfate A sodium salt from bovine trachea 2.5 mg/mL carbon source

Group: carbon source
Media: Varel_Bryant_medium + Chondroitin sulfate A sodium salt from bovine trachea (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 Chondroitin sulfate A sodium salt from bovine trachea in Bacteroides stercoris CC31F

For carbon source Chondroitin sulfate A sodium salt from bovine trachea across organisms

SEED Subsystems

Subsystem	#Specific
Alkanesulfonate assimilation	1
Chitin and N-acetylglucosamine utilization	1
Choline Transport	1
Choline and Betaine Uptake and Betaine Biosynthesis	1
D-Galacturonate and D-Glucuronate Utilization	1
D-Tagatose and Galactitol Utilization	1
Deoxyribose and Deoxynucleoside Catabolism	1
Iron acquisition in Vibrio	1
Sialic Acid Metabolism	1
Ton and Tol transport systems	1
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Aminosugars metabolism
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Pentose and glucuronate interconversions
• Fructose and mannose metabolism
• Galactose metabolism
• Ascorbate and aldarate metabolism
• Benzoate degradation via hydroxylation
• Aminophosphonate metabolism
• Starch and sucrose metabolism
• Limonene and pinene degradation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
N-acetylglucosamine degradation I	2	2	1
D-arabinitol degradation II	2	1	1
xylitol degradation II	2	1	1
N-acetylglucosamine degradation II	3	3	1
2-deoxy-D-ribose degradation I	3	2	1
2-deoxy-α-D-ribose 1-phosphate degradation	3	1	1
choline-O-sulfate degradation	3	1	1
4-deoxy-L-threo-hex-4-enopyranuronate degradation	5	5	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	3	1
superpathway of N-acetylglucosamine, N-acetylmannosamine and N-acetylneuraminate degradation	6	2	1
UDP-N-acetyl-D-galactosamine biosynthesis II	7	4	1
superpathway of purine deoxyribonucleosides degradation	7	4	1
chitin degradation I (archaea)	7	2	1
chitin derivatives degradation	8	3	1
superpathway of N-acetylneuraminate degradation	22	15	1
superpathway of microbial D-galacturonate and D-glucuronate degradation	31	15	1