Experiment set5H6 for Pseudomonas stutzeri RCH2

LB with methylglyoxal 0.0016 vol%

Group: stress
Media: LB + methylglyoxal (0.0016 vol%)
Culturing: psRCH2_ML7, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Adam on 6/28/2013
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 563 A1,A2

Specific Phenotypes

For 18 genes in this experiment

For stress methylglyoxal in Pseudomonas stutzeri RCH2

For stress methylglyoxal across organisms

SEED Subsystems

Subsystem	#Specific
DNA repair, UvrABC system	3
DNA-replication	2
DNA repair, bacterial RecFOR pathway	2
Glutathione: Non-redox reactions	2
Methylglyoxal Metabolism	2
ATP-dependent RNA helicases, bacterial	1
Biotin biosynthesis	1
DNA Repair Base Excision	1
DNA repair, bacterial DinG and relatives	1
DNA repair, bacterial MutL-MutS system	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Oxidative stress	1
Photorespiration (oxidative C2 cycle)	1
Transcription factors bacterial	1
n-Phenylalkanoic acid degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pyruvate metabolism
• Fatty acid metabolism
• Purine metabolism
• Tryptophan metabolism
• Aminophosphonate metabolism
• High-mannose type N-glycan biosynthesis
• Nucleotide sugars metabolism
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis
• Glycerophospholipid metabolism
• Sphingolipid metabolism
• Methane metabolism
• Folate biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
long-chain fatty acid activation	1	1	1
methylglyoxal degradation I	3	2	2
methylglyoxal degradation VIII	3	2	2
superoxide radicals degradation	2	2	1
γ-linolenate biosynthesis II (animals)	2	1	1
linoleate biosynthesis II (animals)	2	1	1
methanol oxidation to formaldehyde IV	2	1	1
cardiolipin biosynthesis II	3	3	1
ethanol degradation IV	3	3	1
3-methyl-branched fatty acid α-oxidation	6	3	2
alkane biosynthesis II	3	1	1
oleate biosynthesis I (plants)	3	1	1
reactive oxygen species degradation	4	4	1
phytol degradation	4	3	1
cardiolipin and phosphatidylethanolamine biosynthesis (Xanthomonas)	4	3	1
superpathway of methylglyoxal degradation	8	3	2
long chain fatty acid ester synthesis (engineered)	4	1	1
wax esters biosynthesis II	4	1	1
phosphatidylcholine acyl editing	4	1	1
sporopollenin precursors biosynthesis	18	4	4
octane oxidation	5	3	1
sphingosine and sphingosine-1-phosphate metabolism	10	4	2
fatty acid salvage	6	6	1
stearate biosynthesis II (bacteria and plants)	6	5	1
stearate biosynthesis IV	6	4	1
6-gingerol analog biosynthesis (engineered)	6	2	1
stearate biosynthesis I (animals)	6	1	1
ceramide degradation by α-oxidation	7	2	1
icosapentaenoate biosynthesis III (8-desaturase, mammals)	7	1	1
arachidonate biosynthesis III (6-desaturase, mammals)	7	1	1
capsaicin biosynthesis	7	1	1
icosapentaenoate biosynthesis II (6-desaturase, mammals)	7	1	1
ceramide and sphingolipid recycling and degradation (yeast)	16	4	2
2-deoxy-D-ribose degradation II	8	2	1
suberin monomers biosynthesis	20	2	2
superpathway of fatty acid biosynthesis II (plant)	43	38	4
superpathway of cardiolipin biosynthesis (bacteria)	13	9	1
palmitate biosynthesis II (type II fatty acid synthase)	31	29	2
cutin biosynthesis	16	1	1
superpathway of fatty acids biosynthesis (E. coli)	53	51	2
palmitate biosynthesis III	29	21	1
oleate β-oxidation	35	30	1