Experiment set5IT031 for Agrobacterium fabrum C58

R2A with Sodium hypochlorite 6.25 mM

Group: stress
Media: R2A + Sodium hypochlorite (6.25 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: 3B G4

Specific Phenotypes

For 8 genes in this experiment

For stress Sodium hypochlorite in Agrobacterium fabrum C58

For stress Sodium hypochlorite across organisms

SEED Subsystems

Subsystem	#Specific
Molybdenum cofactor biosynthesis	3
Glutamate dehydrogenases	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Peptidoglycan Biosynthesis	1
Synechocystis experimental	1
Triacylglycerol metabolism	1
Type IV pilus	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Peptidoglycan biosynthesis
• Fructose and mannose metabolism
• Glutamate metabolism
• Lysine degradation
• Arginine and proline metabolism
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Keratan sulfate biosynthesis
• Lipopolysaccharide biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Glycerophospholipid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Biotin metabolism
• Carotenoid biosynthesis - General
• Zeatin biosynthesis
• Nitrogen metabolism
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Flavone and flavonol biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate degradation I	1	1	1
L-alanine degradation II (to D-lactate)	3	3	1
ethene biosynthesis IV (engineered)	3	1	1
phospholipid remodeling (phosphatidylethanolamine, yeast)	4	2	1
tRNA-uridine 2-thiolation (thermophilic bacteria)	5	2	1
molybdopterin biosynthesis	6	2	1
4-aminobutanoate degradation V	7	2	1
L-glutamate degradation XI (reductive Stickland reaction)	7	1	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	2
peptidoglycan biosynthesis II (staphylococci)	17	12	2
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
L-glutamate degradation V (via hydroxyglutarate)	10	4	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	11	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	3	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
methylaspartate cycle	19	12	1