Experiment set5S599 for Mycobacterium tuberculosis H37Rv

cholesterol 100uM carbon source

Group: carbon source
Media: Sautons minimal media with no carbon + cholesterol (100 uM)
Culturing: MycoTube_ML10, tube, Aerobic, at 37 (C)
By: Kayla Dinshaw on 3/1/25
Media components: 0.8 g/L Sodium Chloride, 2.5 g/L Disodium phosphate, 1 g/L Potassium phosphate monobasic, 0.2 g/L L-Asparagine, 0.05 g/L Ferric ammonium citrate, 0.02 g/L Magnesium sulfate, 0.0005 g/L Calcium chloride, 1e-05 g/L Zinc sulfate heptahydrate, 0.2 vol% Ethanol, 0.05 vol% Tyloxapol

Specific Phenotypes

For 9 genes in this experiment

For carbon source cholesterol in Mycobacterium tuberculosis H37Rv

For carbon source cholesterol across organisms

SEED Subsystems

Subsystem	#Specific
Fermentations: Mixed acid	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Tyrosine metabolism
• 1- and 2-Methylnaphthalene degradation
• Carotenoid biosynthesis - General
• Alkaloid biosynthesis I
• Glycolysis / Gluconeogenesis
• Fatty acid biosynthesis
• Fatty acid metabolism
• Puromycin biosynthesis
• Glycine, serine and threonine metabolism
• Lysine degradation
• Histidine metabolism
• Phenylalanine metabolism
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• Glycerophospholipid metabolism
• Ether lipid metabolism
• alpha-Linolenic acid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• Pyruvate metabolism
• Benzoate degradation via CoA ligation
• Trinitrotoluene degradation
• 3-Chloroacrylic acid degradation
• Ethylbenzene degradation
• Butanoate metabolism
• Methane metabolism
• Retinol metabolism
• Porphyrin and chlorophyll metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis II
• Metabolism of xenobiotics by cytochrome P450
• Insect hormone biosynthesis
• Drug metabolism - cytochrome P450
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone
• Biosynthesis of terpenoids and steroids

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetaldehyde biosynthesis I	1	1	1
ethanol degradation I	2	2	1
pyruvate fermentation to ethanol II	2	2	1
ethanol degradation II	3	3	1
pyruvate fermentation to ethanol III	3	2	1
formaldehyde oxidation II (glutathione-dependent)	3	2	1
pyruvate fermentation to ethanol I	3	2	1
L-valine degradation II	3	2	1
L-leucine degradation III	3	2	1
methylglyoxal degradation V	3	2	1
L-methionine degradation III	3	2	1
L-isoleucine degradation II	3	2	1
L-phenylalanine degradation III	4	3	1
phytol degradation	4	3	1
salidroside biosynthesis	4	2	1
L-tyrosine degradation III	4	2	1
cytidine-5'-diphosphate-glycerol biosynthesis	4	1	1
(S)-propane-1,2-diol degradation	5	4	1
acetylene degradation (anaerobic)	5	4	1
ethanolamine utilization	5	4	1
pyruvate fermentation to isobutanol (engineered)	5	4	1
protein S-nitrosylation and denitrosylation	5	3	1
phenylethanol biosynthesis	5	2	1
testosterone degradation (anaerobic)	6	1	1
noradrenaline and adrenaline degradation	13	12	2
3-methylbutanol biosynthesis (engineered)	7	6	1
serotonin degradation	7	4	1
lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales)	8	4	1
butanol and isobutanol biosynthesis (engineered)	8	4	1
superpathway of fermentation (Chlamydomonas reinhardtii)	9	5	1
superpathway of C1 compounds oxidation to CO2	12	3	1
androstenedione degradation I (aerobic)	25	22	2
superpathway of Clostridium acetobutylicum solventogenic fermentation	13	6	1
L-tryptophan degradation V (side chain pathway)	13	1	1
superpathway of testosterone and androsterone degradation	28	22	2
mixed acid fermentation	16	13	1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	8	1
mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	18	18	1
heterolactic fermentation	18	13	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	16	1
superpathway of anaerobic sucrose degradation	19	16	1
mycolate biosynthesis	205	165	10
superpathway of cholesterol degradation I (cholesterol oxidase)	42	34	2
superpathway of N-acetylneuraminate degradation	22	16	1
superpathway of cholesterol degradation II (cholesterol dehydrogenase)	47	36	2
superpathway of mycolate biosynthesis	239	166	10
androstenedione degradation II (anaerobic)	27	13	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	33	1
superpathway of cholesterol degradation III (oxidase)	49	23	1