Experiment set1S222 for Mycobacterium tuberculosis H37Rv

Sodium propionate carbon source

Group: carbon source
Media: Sautons minimal media with no carbon + Sodium propionate (10 mM)
Culturing: MycoTube_ML10, tube, Aerobic, at 37 (C)
Growth: about 4.1 generations
By: Kayla Dinshaw on 6/30/23
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 19 genes in this experiment

For carbon source Sodium propionate in Mycobacterium tuberculosis H37Rv

For carbon source Sodium propionate across organisms

SEED Subsystems

Subsystem	#Specific
Respiratory Complex I	12
Ethanolamine utilization	2
Fermentations: Lactate	2
Fermentations: Mixed acid	2
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	2
Threonine anaerobic catabolism gene cluster	2
MLST	1
Methylcitrate cycle	1
Propanediol utilization	1
Propionate-CoA to Succinate Module	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Propanoate metabolism
• Oxidative phosphorylation
• Taurine and hypotaurine metabolism
• Pyruvate metabolism
• Fatty acid metabolism
• Geraniol degradation
• Tyrosine metabolism
• alpha-Linolenic acid metabolism
• Benzoate degradation via CoA ligation
• Ethylbenzene degradation
• Limonene and pinene degradation
• Caprolactam degradation
• Alkaloid biosynthesis II
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetate and ATP formation from acetyl-CoA I	2	2	2
long-chain fatty acid activation	1	1	1
superpathway of acetate utilization and formation	3	3	2
pyruvate fermentation to acetate II	3	2	2
pyruvate fermentation to acetate IV	3	2	2
pyruvate fermentation to acetate VII	3	2	2
pyruvate fermentation to acetate I	3	2	2
γ-linolenate biosynthesis II (animals)	2	2	1
pyruvate fermentation to acetate and lactate II	4	2	2
pyruvate fermentation to acetate and (S)-lactate I	4	2	2
linoleate biosynthesis II (animals)	2	1	1
sulfoacetaldehyde degradation I	2	1	1
glycine degradation (reductive Stickland reaction)	2	1	1
NADH to cytochrome bd oxidase electron transfer I	2	1	1
NADH to cytochrome bo oxidase electron transfer I	2	1	1
(S)-propane-1,2-diol degradation	5	4	2
ethanolamine utilization	5	4	2
acetylene degradation (anaerobic)	5	4	2
L-threonine degradation I	6	5	2
oleate biosynthesis I (plants)	3	2	1
aerobic respiration III (alternative oxidase pathway)	3	2	1
3-methyl-branched fatty acid α-oxidation	6	3	2
methanogenesis from acetate	6	2	2
alkane biosynthesis II	3	1	1
acetyl-CoA fermentation to butanoate	7	4	2
aerobic respiration I (cytochrome c)	4	3	1
phytol degradation	4	3	1
lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales)	8	4	2
long chain fatty acid ester synthesis (engineered)	4	2	1
sulfolactate degradation II	4	1	1
phosphatidylcholine acyl editing	4	1	1
coenzyme B/coenzyme M regeneration I (methanophenazine-dependent)	4	1	1
wax esters biosynthesis II	4	1	1
superpathway of Clostridium acetobutylicum acidogenic fermentation	9	6	2
superpathway of fermentation (Chlamydomonas reinhardtii)	9	5	2
superpathway of L-alanine fermentation (Stickland reaction)	9	3	2
sporopollenin precursors biosynthesis	18	4	4
2-methylcitrate cycle I	5	4	1
octane oxidation	5	4	1
sphingosine and sphingosine-1-phosphate metabolism	10	4	2
L-lysine fermentation to acetate and butanoate	10	4	2
gallate degradation III (anaerobic)	11	4	2
stearate biosynthesis II (bacteria and plants)	6	5	1
fatty acid salvage	6	5	1
stearate biosynthesis IV	6	4	1
superpathway of taurine degradation	6	3	1
NAD(P)/NADPH interconversion	6	3	1
Fe(II) oxidation	6	2	1
superpathway of sulfolactate degradation	6	2	1
6-gingerol analog biosynthesis (engineered)	6	2	1
stearate biosynthesis I (animals)	6	1	1
(S)-lactate fermentation to propanoate, acetate and hydrogen	13	8	2
arachidonate biosynthesis III (6-desaturase, mammals)	7	2	1
icosapentaenoate biosynthesis II (6-desaturase, mammals)	7	2	1
ceramide degradation by α-oxidation	7	2	1
icosapentaenoate biosynthesis III (8-desaturase, mammals)	7	1	1
capsaicin biosynthesis	7	1	1
mixed acid fermentation	16	13	2
ceramide and sphingolipid recycling and degradation (yeast)	16	4	2
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	8	2
superpathway of L-threonine metabolism	18	12	2
reductive glycine pathway of autotrophic CO2 fixation	9	4	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	16	2
suberin monomers biosynthesis	20	2	2
superpathway of methanogenesis	21	2	2
superpathway of fatty acid biosynthesis II (plant)	43	34	4
superpathway of N-acetylneuraminate degradation	22	16	2
purine nucleobases degradation II (anaerobic)	24	12	2
Bifidobacterium shunt	15	12	1
purine nucleobases degradation I (anaerobic)	15	6	1
palmitate biosynthesis II (type II fatty acid synthase)	31	24	2
cutin biosynthesis	16	1	1
heterolactic fermentation	18	13	1
superpathway of L-lysine degradation	43	10	2
superpathway of fatty acids biosynthesis (E. coli)	53	39	2
palmitate biosynthesis III	29	16	1
oleate β-oxidation	35	27	1