Experiment set7H10 for Pseudomonas stutzeri RCH2

RCH2 defined media with Vancomycin Hydrochloride Hydrate 0.016 mg/ml

Group: stress
Media: RCH2_defined_no_vitamin + Vancomycin Hydrochloride Hydrate (0.016 mg/ml), pH=7.2
Culturing: psRCH2_ML7, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Adam on 8/12/2013
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate)

Specific Phenotypes

For 14 genes in this experiment

For stress Vancomycin Hydrochloride Hydrate in Pseudomonas stutzeri RCH2

For stress Vancomycin Hydrochloride Hydrate across organisms

SEED Subsystems

Subsystem	#Specific
N-linked Glycosylation in Bacteria	1
Peptidoglycan 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
• Ascorbate and aldarate metabolism
• Fatty acid biosynthesis
• Ubiquinone and menaquinone biosynthesis
• Tyrosine metabolism
• Benzoate degradation via hydroxylation
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Glycosaminoglycan degradation
• Peptidoglycan biosynthesis
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• 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
UDP-N-acetyl-β-L-fucosamine biosynthesis	4	1	1
UDP-N-acetyl-β-L-quinovosamine biosynthesis	4	1	1
CMP-pseudaminate biosynthesis	6	6	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	3	2
CMP-diacetamido-8-epilegionaminic acid biosynthesis	7	1	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	1
peptidoglycan biosynthesis II (staphylococci)	17	12	1
superpathway of UDP-N-acetylglucosamine-derived O-antigen building blocks biosynthesis	24	9	1