Experiment set8H33 for Pseudomonas stutzeri RCH2

Compare to:

RCH2 defined media with Polymyxin B sulfate 0.00008 mg/ml

Group: stress
Media: RCH2_defined_no_vitamin + Polymyxin B sulfate (8e-05 mg/ml), pH=7.2
Culturing: psRCH2_ML7c, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Adam on 9/23/2013
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)
Growth plate: extra_min5 F3,F4

Specific Phenotypes

For 8 genes in this experiment

For stress Polymyxin B sulfate in Pseudomonas stutzeri RCH2

For stress Polymyxin B sulfate across organisms

SEED Subsystems

Subsystem #Specific
Bacterial hemoglobins 2
Alkanesulfonate assimilation 1
Alkanesulfonates Utilization 1
Glycolate, glyoxylate interconversions 1
Malonate decarboxylase 1
Photorespiration (oxidative C2 cycle) 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
glycolate and glyoxylate degradation II 2 2 1
two-component alkanesulfonate monooxygenase 2 2 1
bacterial bioluminescence 8 3 3
malonate degradation I (biotin-independent) 3 3 1
fatty acid biosynthesis initiation (type II) 3 3 1
5,6-dimethylbenzimidazole biosynthesis I (aerobic) 3 2 1
glycolate and glyoxylate degradation III 3 1 1
glycolate and glyoxylate degradation I 4 3 1
fatty acid biosynthesis initiation (mitochondria) 4 2 1
fatty acid biosynthesis initiation (plant mitochondria) 4 1 1
superpathway of fatty acid biosynthesis initiation 5 4 1
dibenzothiophene desulfurization 5 1 1
superpathway of glycol metabolism and degradation 7 5 1
pederin biosynthesis 14 2 2
photorespiration III 9 6 1
photorespiration I 9 6 1
bryostatin biosynthesis 19 2 2
photorespiration II 10 6 1
mycobactin biosynthesis 11 1 1
superpathway of fatty acid biosynthesis I (E. coli) 16 15 1
mupirocin biosynthesis 26 2 1
corallopyronin A biosynthesis 30 2 1
adenosylcobalamin biosynthesis II (aerobic) 33 21 1
superpathway of fatty acid biosynthesis II (plant) 43 38 1
superpathway of fatty acids biosynthesis (E. coli) 53 51 1