Experiment set32S143 for Bacteroides thetaiotaomicron VPI-5482

L-Glutamine nitrogen source; Varel_Bryant_medium_Glucose_noMET_DTT_NaS_B12_noNitrogen

Group: nitrogen source
Media: Varel_Bryant_medium_Glucose_noMET_DTT_NaS_B12_noNitrogen + L-Glutamine (10 mM)
Culturing: Btheta_ML6a, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya Tripathi on 3/20/24
Media components: 15 uM Hemin, 15 uM Iron (II) sulfate heptahydrate, 3 mM Dithiothreitol, 23.8 mM Sodium bicarbonate, 20 mM D-Glucose, 3 mM Sodium sulfide nonahydrate, 0.1 ng/L Cyanocobalamin, Mineral 3B solution minus Nitrogen (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, 1.75 mM Sodium sulfate)

Specific Phenotypes

For 10 genes in this experiment

For nitrogen source L-Glutamine in Bacteroides thetaiotaomicron VPI-5482

For nitrogen source L-Glutamine across organisms

SEED Subsystems

Subsystem	#Specific
Choline Transport	1
Choline and Betaine Uptake and Betaine Biosynthesis	1
Cysteine Biosynthesis	1
Methionine Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid metabolism
• Ubiquinone and menaquinone biosynthesis
• Cysteine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Selenoamino acid metabolism
• Naphthalene and anthracene degradation
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Sulfur metabolism
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
long-chain fatty acid activation	1	1	1
L-cysteine biosynthesis I	2	2	1
linoleate biosynthesis II (animals)	2	1	1
γ-linolenate biosynthesis II (animals)	2	1	1
3-methyl-branched fatty acid α-oxidation	6	2	2
choline-O-sulfate degradation	3	1	1
oleate biosynthesis I (plants)	3	1	1
alkane biosynthesis II	3	1	1
phytol degradation	4	2	1
wax esters biosynthesis II	4	1	1
long chain fatty acid ester synthesis (engineered)	4	1	1
phosphatidylcholine acyl editing	4	1	1
sporopollenin precursors biosynthesis	18	4	4
seleno-amino acid biosynthesis (plants)	5	2	1
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
stearate biosynthesis I (animals)	6	1	1
6-gingerol analog biosynthesis (engineered)	6	1	1
icosapentaenoate biosynthesis III (8-desaturase, mammals)	7	1	1
ceramide degradation by α-oxidation	7	1	1
arachidonate biosynthesis III (6-desaturase, mammals)	7	1	1
capsaicin biosynthesis	7	1	1
icosapentaenoate biosynthesis II (6-desaturase, mammals)	7	1	1
ceramide and sphingolipid recycling and degradation (yeast)	16	2	2
superpathway of sulfate assimilation and cysteine biosynthesis	9	7	1
suberin monomers biosynthesis	20	2	2
superpathway of fatty acid biosynthesis II (plant)	43	37	4
palmitate biosynthesis II (type II fatty acid synthase)	31	29	2
cutin biosynthesis	16	1	1
superpathway of seleno-compound metabolism	19	5	1
superpathway of fatty acids biosynthesis (E. coli)	53	47	2
palmitate biosynthesis III	29	21	1
oleate β-oxidation	35	4	1