Experiment set8IT061 for Bacteroides thetaiotaomicron VPI-5482

BHIS with 5-Fluorouracil 0.1 mM

Group: stress
Media: BHIS + 5-fluorouracil (0.1 mM) + Dimethyl Sulfoxide (1 vol%)
Culturing: Btheta_ML6a, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Hans on 6/18/18
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

Specific Phenotypes

For 10 genes in this experiment

For stress 5-fluorouracil in Bacteroides thetaiotaomicron VPI-5482

For stress 5-fluorouracil across organisms

SEED Subsystems

Subsystem	#Specific
ATP-dependent RNA helicases, bacterial	1
Adenosyl nucleosidases	1
Deoxyribose and Deoxynucleoside Catabolism	1
Folate Biosynthesis	1
Potassium homeostasis	1
Purine conversions	1
Respiratory Complex I	1
Ribosome biogenesis bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pyrimidine metabolism
• Drug metabolism - other enzymes
• 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
• Oxidative phosphorylation
• Purine metabolism
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Pyruvate metabolism
• Naphthalene and anthracene degradation
• Nicotinate and nicotinamide metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• 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
purine deoxyribonucleosides degradation I	4	3	3
purine ribonucleosides degradation	6	4	4
purine deoxyribonucleosides degradation II	3	2	2
pyrimidine ribonucleosides degradation	2	2	1
xanthine and xanthosine salvage	2	2	1
guanine and guanosine salvage I	2	2	1
adenine and adenosine salvage I	2	2	1
adenine and adenosine salvage III	4	3	2
NADH to cytochrome bo oxidase electron transfer I	2	1	1
NADH to cytochrome bd oxidase electron transfer I	2	1	1
phenylmercury acetate degradation	2	1	1
superpathway of purine deoxyribonucleosides degradation	7	4	3
pyrimidine deoxyribonucleosides salvage	5	4	2
glycine biosynthesis II	3	3	1
glycine cleavage	3	3	1
pyrimidine deoxyribonucleosides degradation	3	2	1
aerobic respiration III (alternative oxidase pathway)	3	2	1
2-oxoisovalerate decarboxylation to isobutanoyl-CoA	3	2	1
2-oxoglutarate decarboxylation to succinyl-CoA	3	2	1
superpathway of guanine and guanosine salvage	3	2	1
pyruvate decarboxylation to acetyl CoA I	3	2	1
adenine and adenosine salvage V	3	1	1
nucleoside and nucleotide degradation (archaea)	10	4	3
purine nucleotides degradation II (aerobic)	11	7	3
inosine 5'-phosphate degradation	4	3	1
guanosine nucleotides degradation III	4	2	1
aerobic respiration I (cytochrome c)	4	2	1
superpathway of pyrimidine deoxyribonucleoside salvage	9	7	2
adenosine nucleotides degradation II	5	2	1
superpathway of pyrimidine ribonucleosides degradation	5	2	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	3	1
nucleoside and nucleotide degradation (halobacteria)	6	3	1
NAD(P)/NADPH interconversion	6	2	1
Fe(II) oxidation	6	1	1
fluoroacetate and fluorothreonine biosynthesis	6	1	1
superpathway of purine nucleotide salvage	14	13	2
ureide biosynthesis	7	3	1
salinosporamide A biosynthesis	15	4	1
arsenic detoxification (mammals)	17	7	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	17	1