Experiment set4IT044 for Agrobacterium fabrum C58

R2A with Strontium chloride 750 mM

Group: stress
Media: R2A + Strontium chloride (750 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 E6

Specific Phenotypes

For 20 genes in this experiment

For stress Strontium chloride in Agrobacterium fabrum C58

For stress Strontium chloride across organisms

SEED Subsystems

Subsystem	#Specific
Peptidoglycan Biosynthesis	3
Transport of Manganese	3
Sodium Hydrogen Antiporter	2
Choline and Betaine Uptake and Betaine Biosynthesis	1
Cobalamin synthesis	1
Coenzyme B12 biosynthesis	1
Methionine Biosynthesis	1
Sex pheromones in Enterococcus faecalis and other Firmicutes	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
• Methionine metabolism
• Cysteine metabolism
• Lipopolysaccharide biosynthesis
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Lysine degradation
• Selenoamino acid metabolism
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Nucleotide sugars metabolism
• Glycosaminoglycan degradation
• Keratan sulfate biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Biotin metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Zeatin biosynthesis
• Sulfur metabolism
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Flavone and flavonol biosynthesis
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-homocysteine biosynthesis	2	2	1
mannosylfructose biosynthesis	2	2	1
aminopropanol phosphate biosynthesis I	2	1	1
superpathway of L-cysteine biosynthesis (fungi)	6	3	2
L-methionine biosynthesis III	4	4	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	3	3
homocysteine and cysteine interconversion	4	1	1
tRNA processing	10	10	2
L-methionine biosynthesis I	5	4	1
superpathway of sulfur amino acid biosynthesis (Saccharomyces cerevisiae)	10	7	2
S-methyl-5-thio-α-D-ribose 1-phosphate degradation III	5	1	1
S-methyl-5-thio-α-D-ribose 1-phosphate degradation II	5	1	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	3
peptidoglycan biosynthesis II (staphylococci)	17	12	3
L-methionine biosynthesis II	6	5	1
superpathway of L-homoserine and L-methionine biosynthesis	8	7	1
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
superpathway of L-methionine biosynthesis (transsulfuration)	9	8	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	8	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	12	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	11	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	17	1
superpathway of L-threonine metabolism	18	11	1
aspartate superpathway	25	24	1
adenosylcobalamin biosynthesis II (aerobic)	33	29	1
adenosylcobalamin biosynthesis I (anaerobic)	36	26	1