Experiment set10IT031 for Bacteroides thetaiotaomicron VPI-5482

Varel_Bryant_medium_Glucose with Trimethoprim 0.0125 mM

Group: stress
Media: Varel_Bryant_medium_Glucose + Trimethoprim (0.0125 mM) + Dimethyl Sulfoxide (0.125 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: 15 uM Hemin, 134 uM L-Methionine, 15 uM Iron (II) sulfate heptahydrate, 8.25 mM L-Cysteine, 23.8 mM Sodium bicarbonate, 20 mM D-Glucose, Mineral 3B solution (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, 9.3 mM Ammonium chloride, 1.75 mM Sodium sulfate)

Specific Phenotypes

For 11 genes in this experiment

For stress Trimethoprim in Bacteroides thetaiotaomicron VPI-5482

For stress Trimethoprim across organisms

SEED Subsystems

Subsystem	#Specific
Carboxysome	1
Conjugative transposon, Bacteroidales	1
De Novo Purine Biosynthesis	1
Multidrug Resistance Efflux Pumps	1
Purine Utilization	1
Respiratory dehydrogenases 1	1
Transport of Zinc	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Oxidative phosphorylation
• Purine metabolism
• Glutamate metabolism
• Nucleotide sugars metabolism
• Glycosaminoglycan degradation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
NADH to cytochrome bd oxidase electron transfer I	2	1	1
NADH to cytochrome bo oxidase electron transfer I	2	1	1
aerobic respiration III (alternative oxidase pathway)	3	2	1
aerobic respiration I (cytochrome c)	4	2	1
5-aminoimidazole ribonucleotide biosynthesis II	5	5	1
5-aminoimidazole ribonucleotide biosynthesis I	5	5	1
superpathway of 5-aminoimidazole ribonucleotide biosynthesis	6	6	1
NAD(P)/NADPH interconversion	6	2	1
Fe(II) oxidation	6	1	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	1
superpathway of purine nucleotides de novo biosynthesis II	26	23	1
superpathway of histidine, purine, and pyrimidine biosynthesis	46	42	1