Experiment set3IT064 for Bacteroides thetaiotaomicron VPI-5482

BHIS with Paraquat dichloride 0.1 mg/ml

Group: stress
Media: BHIS + Paraquat dichloride (0.1 mg/ml)
Culturing: Btheta_ML6, 24-well transparent microplate, Anaerobic, at 37 (C), shaken=0 rpm
By: Hualan on 11-Oct-17
Media components: 7.7 g/L Calf brains, 9.8 g/L Beef heart, 10 g/L Proteose Peptone, 5 g/L Sodium Chloride, 2.5 g/L Disodium phosphate, 1 g/L L-Cysteine, 2 g/L Sodium bicarbonate, 0.005 g/L Hemin
Growth plate: Btheta_sp2_copyA C2

Specific Phenotypes

For 11 genes in this experiment

For stress Paraquat dichloride in Bacteroides thetaiotaomicron VPI-5482

For stress Paraquat dichloride across organisms

SEED Subsystems

Subsystem	#Specific
Butanol Biosynthesis	1
Fermentations: Mixed acid	1
Glycine cleavage system	1
Leucine Degradation and HMG-CoA Metabolism	1
Photorespiration (oxidative C2 cycle)	1
Signal peptidase	1
TCA Cycle	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pyruvate metabolism
• Butanoate metabolism
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from histidine and purine
• Glycolysis / Gluconeogenesis
• Citrate cycle (TCA cycle)
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Glutamate metabolism
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Naphthalene and anthracene degradation
• Propanoate metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Drug metabolism - other enzymes
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamine degradation I	1	1	1
L-glutamate biosynthesis I	2	2	1
reductive monocarboxylic acid cycle	2	2	1
glycine biosynthesis II	3	3	1
ammonia assimilation cycle III	3	3	1
pyruvate fermentation to acetate IV	3	3	1
glycine cleavage	3	3	1
pyruvate decarboxylation to acetyl CoA I	3	2	1
2-oxoglutarate decarboxylation to succinyl-CoA	3	2	1
2-oxoisovalerate decarboxylation to isobutanoyl-CoA	3	2	1
pyruvate fermentation to ethanol I	3	2	1
guanosine ribonucleotides de novo biosynthesis	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	1	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	1	1
superpathway of guanosine nucleotides de novo biosynthesis I	6	6	1
L-threonine degradation I	6	5	1
L-glutamate and L-glutamine biosynthesis	7	5	1
pyruvate fermentation to butanoate	7	3	1
superpathway of guanosine nucleotides de novo biosynthesis II	8	7	1
L-citrulline biosynthesis	8	5	1
superpathway of fermentation (Chlamydomonas reinhardtii)	9	7	1
superpathway of Clostridium acetobutylicum acidogenic fermentation	9	5	1
superpathway of L-citrulline metabolism	12	8	1
L-glutamate degradation VII (to butanoate)	12	4	1
(S)-lactate fermentation to propanoate, acetate and hydrogen	13	10	1
superpathway of purine nucleotide salvage	14	13	1
mixed acid fermentation	16	12	1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	6	1
superpathway of L-threonine metabolism	18	13	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	14	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	17	1
superpathway of N-acetylneuraminate degradation	22	16	1
superpathway of purine nucleotides de novo biosynthesis II	26	23	1
superpathway of histidine, purine, and pyrimidine biosynthesis	46	42	1