Experiment set2S428 for Bacteroides ovatus ATCC 8483

D-Galactose 10 mM carbon source

Group: carbon source
Media: Varel_Bryant_medium + D-Galactose (10 mM)
Culturing: Bovatus_ATCC8483_ML6, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya on 10/30/24
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 26 genes in this experiment

For carbon source D-Galactose in Bacteroides ovatus ATCC 8483

For carbon source D-Galactose across organisms

SEED Subsystems

Subsystem	#Specific
Maltose and Maltodextrin Utilization	2
Phosphate metabolism	2
2-phosphoglycolate salvage	1
Campylobacter Iron Metabolism	1
De Novo Pyrimidine Synthesis	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Glycine reductase, sarcosine reductase and betaine reductase	1
Glycogen metabolism	1
Glycolate, glyoxylate interconversions	1
LMPTP YwlE cluster	1
Photorespiration (oxidative C2 cycle)	1
Trehalose Biosynthesis	1
tRNA processing	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pyrimidine metabolism
• Starch and sucrose metabolism
• Glycolysis / Gluconeogenesis
• Fatty acid metabolism
• Glycerophospholipid metabolism
• Pyruvate metabolism
• Glyoxylate and dicarboxylate metabolism
• Propanoate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• Nicotinate and nicotinamide metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetate and ATP formation from acetyl-CoA III	1	1	1
pyrimidine nucleobases salvage I	1	1	1
acetate conversion to acetyl-CoA	1	1	1
long-chain fatty acid activation	1	1	1
linoleate biosynthesis II (animals)	2	1	1
pyrimidine nucleobases salvage II	2	1	1
glycerophosphodiester degradation	2	1	1
pseudouridine degradation	2	1	1
NAD salvage pathway IV (from nicotinamide riboside)	2	1	1
γ-linolenate biosynthesis II (animals)	2	1	1
phosphatidylcholine resynthesis via glycerophosphocholine	2	1	1
superpathway of acetate utilization and formation	3	3	1
L-isoleucine biosynthesis V	3	2	1
ethanol degradation IV	3	2	1
ethanol degradation II	3	2	1
3-methyl-branched fatty acid α-oxidation	6	2	2
ethanol degradation III	3	1	1
alkane biosynthesis II	3	1	1
oleate biosynthesis I (plants)	3	1	1
superpathway of pyrimidine nucleobases salvage	4	4	1
starch degradation V	4	3	1
phytol degradation	4	2	1
phosphatidylcholine acyl editing	4	1	1
wax esters biosynthesis II	4	1	1
long chain fatty acid ester synthesis (engineered)	4	1	1
glycerol and glycerophosphodiester degradation	4	1	1
phospholipid remodeling (phosphatidylethanolamine, yeast)	4	1	1
chitin deacetylation	4	1	1
sporopollenin precursors biosynthesis	18	4	4
sphingosine and sphingosine-1-phosphate metabolism	10	2	2
octane oxidation	5	1	1
stearate biosynthesis II (bacteria and plants)	6	5	1
stearate biosynthesis IV	6	4	1
fatty acid salvage	6	2	1
superpathway of bitter acids biosynthesis	18	3	3
lupulone and humulone biosynthesis	6	1	1
colupulone and cohumulone biosynthesis	6	1	1
6-gingerol analog biosynthesis (engineered)	6	1	1
adlupulone and adhumulone biosynthesis	6	1	1
stearate biosynthesis I (animals)	6	1	1
ceramide degradation by α-oxidation	7	1	1
icosapentaenoate biosynthesis III (8-desaturase, mammals)	7	1	1
arachidonate biosynthesis III (6-desaturase, mammals)	7	1	1
icosapentaenoate biosynthesis II (6-desaturase, mammals)	7	1	1
capsaicin biosynthesis	7	1	1
glycogen degradation I	8	7	1
sucrose biosynthesis II	8	5	1
ceramide and sphingolipid recycling and degradation (yeast)	16	2	2
reductive glycine pathway of autotrophic CO2 fixation	9	7	1
photorespiration I	9	5	1
photorespiration III	9	5	1
cis-geranyl-CoA degradation	9	1	1
starch degradation II	9	1	1
superpathway of pyrimidine ribonucleosides salvage	10	9	1
photorespiration II	10	6	1
suberin monomers biosynthesis	20	2	2
superpathway of fatty acid biosynthesis II (plant)	43	37	4
anandamide biosynthesis I	12	2	1
superpathway of NAD biosynthesis in eukaryotes	14	6	1
palmitate biosynthesis II (type II fatty acid synthase)	31	29	2
cutin biosynthesis	16	1	1
superpathway of fatty acids biosynthesis (E. coli)	53	47	2
palmitate biosynthesis III	29	21	1
oleate β-oxidation	35	4	1