Experiment set4H10 for Pseudomonas stutzeri RCH2

LB with Cephalothin sodium salt 0.04 mg/ml

Group: stress
Media: LB + Cephalothin sodium salt (0.04 mg/ml)
Culturing: psRCH2_ML7, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Kelly on 6/24/2013
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 558 B1,B2

Specific Phenotypes

For 60 genes in this experiment

For stress Cephalothin sodium salt in Pseudomonas stutzeri RCH2

For stress Cephalothin sodium salt across organisms

SEED Subsystems

Subsystem	#Specific
Bacterial Chemotaxis	3
Flagellum	3
Flagellar motility	2
ABC transporter branched-chain amino acid (TC 3.A.1.4.1)	1
Alginate metabolism	1
Cobalt-zinc-cadmium resistance	1
Coenzyme A Biosynthesis	1
Cyanobacterial Circadian Clock	1
Di-Inositol-Phosphate biosynthesis	1
Ectoine biosynthesis and regulation	1
Fructose utilization	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Glycine cleavage system	1
Iron acquisition in Vibrio	1
Lysine degradation	1
Malonate decarboxylase	1
Mannose Metabolism	1
Protein chaperones	1
SigmaB stress responce regulation	1
Ubiquinone Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Fructose and mannose metabolism
• Fatty acid biosynthesis
• Glycine, serine and threonine metabolism
• Phosphatidylinositol signaling system
• Pentose phosphate pathway
• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Alanine and aspartate metabolism
• Tyrosine metabolism
• Benzoate degradation via hydroxylation
• Phenylalanine, tyrosine and tryptophan biosynthesis
• beta-Alanine metabolism
• Streptomycin biosynthesis
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis
• Inositol phosphate metabolism
• Glycerophospholipid metabolism
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• Nicotinate and nicotinamide metabolism
• Pantothenate and CoA biosynthesis
• Porphyrin and chlorophyll metabolism
• Limonene and pinene degradation
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
β-alanine biosynthesis III	1	1	1
fructose degradation	1	1	1
myo-inositol biosynthesis	2	1	1
fatty acid biosynthesis initiation (type II)	3	3	1
malonate degradation I (biotin-independent)	3	3	1
L-serine biosynthesis I	3	3	1
D-myo-inositol (1,4,5)-trisphosphate degradation	3	1	1
CDP-diacylglycerol biosynthesis II	4	4	1
superpathway of L-serine and glycine biosynthesis I	4	4	1
CDP-diacylglycerol biosynthesis I	4	4	1
GDP-mannose biosynthesis	4	4	1
fatty acid biosynthesis initiation (mitochondria)	4	2	1
fatty acid biosynthesis initiation (plant mitochondria)	4	1	1
D-galactosamine and N-acetyl-D-galactosamine degradation	4	1	1
ectoine biosynthesis	5	5	1
superpathway of fatty acid biosynthesis initiation	5	4	1
CDP-diacylglycerol biosynthesis III	5	3	1
galactitol degradation	5	2	1
N-acetyl-D-galactosamine degradation	5	1	1
lactose degradation I	5	1	1
phosphatidylglycerol biosynthesis I	6	6	1
phosphatidylglycerol biosynthesis II	6	6	1
superpathway of D-myo-inositol (1,4,5)-trisphosphate metabolism	6	1	1
phytate degradation I	14	3	2
pederin biosynthesis	14	2	2
ubiquinol-8 biosynthesis (early decarboxylation)	8	6	1
superpathway of coenzyme A biosynthesis I (bacteria)	9	9	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	9	1
bryostatin biosynthesis	19	2	2
peptidoglycan recycling II	10	7	1
colanic acid building blocks biosynthesis	11	10	1
mycobactin biosynthesis	11	1	1
superpathway of ubiquinol-8 biosynthesis (early decarboxylation)	12	10	1
superpathway of phospholipid biosynthesis III (E. coli)	12	10	1
superpathway of cardiolipin biosynthesis (bacteria)	13	9	1
peptidoglycan recycling I	14	9	1
superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis	14	9	1
superpathway of fatty acid biosynthesis I (E. coli)	16	15	1
type I lipoteichoic acid biosynthesis (S. aureus)	17	5	1
superpathway of hexitol degradation (bacteria)	18	13	1
mupirocin biosynthesis	26	2	1
superpathway of phospholipid biosynthesis II (plants)	28	10	1
corallopyronin A biosynthesis	30	2	1
superpathway of fatty acid biosynthesis II (plant)	43	38	1
superpathway of fatty acids biosynthesis (E. coli)	53	51	1
superpathway of chorismate metabolism	59	44	1