Experiment set4IT024 for Agrobacterium fabrum C58

R2A with Sodium tungstate dihydrate 375 mM

Group: stress
Media: R2A + Sodium tungstate dihydrate (375 mM)
Culturing: Agro_ML11, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 28 (C), shaken=700 rpm
By: Hans Carlson and Mitchell Thompson on 22-Jun-21
Media components: 0.5 g/L Bacto Peptone, 0.5 g/L casamino acids, 0.5 g/L Yeast Extract, 0.5 g/L D-Glucose, 0.5 g/L Starch, 0.3 g/L Potassium phosphate dibasic, 0.05 g/L Magnesium Sulfate Heptahydrate, 0.3 g/L Sodium pyruvate
Growth plate: 2 H3

Specific Phenotypes

For 6 genes in this experiment

For stress Sodium tungstate dihydrate in Agrobacterium fabrum C58

For stress Sodium tungstate dihydrate across organisms

SEED Subsystems

Subsystem	#Specific
Propionate-CoA to Succinate Module	1
TCA Cycle	1
Transcription factors bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Citrate cycle (TCA cycle)
• Glyoxylate and dicarboxylate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• 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
glyoxylate cycle	6	6	2
partial TCA cycle (obligate autotrophs)	8	7	2
nitrogen remobilization from senescing leaves	8	5	2
TCA cycle VII (acetate-producers)	9	8	2
TCA cycle V (2-oxoglutarate synthase)	9	8	2
TCA cycle IV (2-oxoglutarate decarboxylase)	9	8	2
TCA cycle II (plants and fungi)	9	8	2
TCA cycle VI (Helicobacter)	9	6	2
TCA cycle I (prokaryotic)	10	10	2
TCA cycle III (animals)	10	9	2
reductive TCA cycle I	11	7	2
superpathway of glyoxylate bypass and TCA	12	12	2
reductive TCA cycle II	12	6	2
superpathway of glyoxylate cycle and fatty acid degradation	14	12	2
mixed acid fermentation	16	9	2
methylaspartate cycle	19	12	2
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	20	2
ethene biosynthesis V (engineered)	25	16	2
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	22	2