Experiment set6IT072 for Pseudomonas fluorescens FW300-N2E3

Compare to:

4C survival; 672 hrs

Group: survival
Media: LB
Culturing: pseudo3_N2E3_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 6.9 generations
By: Jayashree on 10/28/2015
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 85 genes in this experiment

SEED Subsystems

Subsystem #Specific
Flagellum 21
Flagellar motility 9
Bacterial Chemotaxis 5
Choline and Betaine Uptake and Betaine Biosynthesis 4
Serine-glyoxylate cycle 4
Bacterial hemoglobins 3
Catechol branch of beta-ketoadipate pathway 2
Flagellum in Campylobacter 2
Heme, hemin uptake and utilization systems in GramPositives 2
Leucine Degradation and HMG-CoA Metabolism 2
Protocatechuate branch of beta-ketoadipate pathway 2
Two-component regulatory systems in Campylobacter 2
Arginine and Ornithine Degradation 1
Biotin biosynthesis 1
Chitin and N-acetylglucosamine utilization 1
Coenzyme B12 biosynthesis 1
DNA-binding regulatory proteins, strays 1
Folate Biosynthesis 1
Fructose and Mannose Inducible PTS 1
Fructose utilization 1
Glycine Biosynthesis 1
Glycine and Serine Utilization 1
Iron acquisition in Vibrio 1
Isoleucine degradation 1
LMPTP YwlE cluster 1
Mannitol Utilization 1
Methylcitrate cycle 1
Multidrug Resistance Efflux Pumps 1
Photorespiration (oxidative C2 cycle) 1
Polyhydroxybutyrate metabolism 1
Propionate-CoA to Succinate Module 1
Serine Biosynthesis 1
Sialic Acid Metabolism 1
Sodium Hydrogen Antiporter 1
Ton and Tol transport systems 1
Transcription factors bacterial 1
Transcription initiation, bacterial sigma factors 1
Transport of Iron 1
Triacylglycerol metabolism 1
ZZ gjo need homes 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:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
glycine biosynthesis I 1 1 1
ketolysis 3 3 2
acetoacetate degradation (to acetyl CoA) 2 1 1
5,6-dehydrokavain biosynthesis (engineered) 10 6 4
polyhydroxybutanoate biosynthesis 3 3 1
dTMP de novo biosynthesis (mitochondrial) 3 3 1
glycine degradation 3 3 1
benzoyl-CoA biosynthesis 3 3 1
superpathway of L-serine and glycine biosynthesis I 4 4 1
(2S)-ethylmalonyl-CoA biosynthesis 4 2 1
phospholipid remodeling (phosphatidylethanolamine, yeast) 4 2 1
glycine betaine degradation II (mammalian) 4 1 1
oleate β-oxidation 35 30 8
valproate β-oxidation 9 7 2
2-methyl-branched fatty acid β-oxidation 14 11 3
(R)- and (S)-3-hydroxybutanoate biosynthesis (engineered) 5 5 1
L-arginine degradation II (AST pathway) 5 5 1
2-methylcitrate cycle I 5 5 1
folate polyglutamylation 5 4 1
ketogenesis 5 3 1
4-hydroxybenzoate biosynthesis III (plants) 5 3 1
glutaryl-CoA degradation 5 3 1
fatty acid β-oxidation II (plant peroxisome) 5 3 1
9-cis, 11-trans-octadecadienoyl-CoA degradation (isomerase-dependent, yeast) 10 4 2
fatty acid β-oxidation VII (yeast peroxisome) 5 2 1
ethylbenzene degradation (anaerobic) 5 1 1
pyruvate fermentation to acetone 5 1 1
isopropanol biosynthesis (engineered) 5 1 1
pyruvate fermentation to hexanol (engineered) 11 7 2
(8E,10E)-dodeca-8,10-dienol biosynthesis 11 6 2
fatty acid salvage 6 6 1
L-leucine degradation I 6 5 1
2-methylcitrate cycle II 6 5 1
L-isoleucine degradation I 6 5 1
propanoate fermentation to 2-methylbutanoate 6 4 1
pyruvate fermentation to butanol II (engineered) 6 4 1
4-ethylphenol degradation (anaerobic) 6 2 1
10-trans-heptadecenoyl-CoA degradation (MFE-dependent, yeast) 6 1 1
jasmonic acid biosynthesis 19 4 3
glycine betaine degradation III 7 7 1
fatty acid β-oxidation I (generic) 7 5 1
acetyl-CoA fermentation to butanoate 7 4 1
fatty acid β-oxidation VI (mammalian peroxisome) 7 4 1
pyruvate fermentation to butanoate 7 3 1
mevalonate pathway II (haloarchaea) 7 2 1
mevalonate pathway I (eukaryotes and bacteria) 7 2 1
glycine betaine degradation I 8 6 1
pyruvate fermentation to butanol I 8 4 1
2-deoxy-D-ribose degradation II 8 3 1
mevalonate pathway IV (archaea) 8 2 1
isoprene biosynthesis II (engineered) 8 2 1
2-methylpropene degradation 8 2 1
mevalonate pathway III (Thermoplasma) 8 2 1
androstenedione degradation I (aerobic) 25 7 3
folate transformations III (E. coli) 9 9 1
TCA cycle VI (Helicobacter) 9 7 1
photorespiration III 9 5 1
superpathway of Clostridium acetobutylicum acidogenic fermentation 9 5 1
photorespiration I 9 5 1
benzoate biosynthesis I (CoA-dependent, β-oxidative) 9 3 1
4-oxopentanoate degradation 9 2 1
superpathway of testosterone and androsterone degradation 28 7 3
L-glutamate degradation V (via hydroxyglutarate) 10 6 1
photorespiration II 10 6 1
superpathway of geranylgeranyldiphosphate biosynthesis I (via mevalonate) 10 5 1
3-phenylpropanoate degradation 10 4 1
L-lysine fermentation to acetate and butanoate 10 3 1
methyl tert-butyl ether degradation 10 2 1
superpathway of cholesterol degradation I (cholesterol oxidase) 42 9 4
folate transformations II (plants) 11 10 1
ethylmalonyl-CoA pathway 11 2 1
superpathway of cholesterol degradation II (cholesterol dehydrogenase) 47 10 4
L-glutamate degradation VII (to butanoate) 12 3 1
10-trans-heptadecenoyl-CoA degradation (reductase-dependent, yeast) 12 2 1
10-cis-heptadecenoyl-CoA degradation (yeast) 12 2 1
cob(II)yrinate a,c-diamide biosynthesis II (late cobalt incorporation) 13 13 1
folate transformations I 13 9 1
formaldehyde assimilation I (serine pathway) 13 6 1
superpathway of Clostridium acetobutylicum solventogenic fermentation 13 6 1
(4Z,7Z,10Z,13Z,16Z)-docosapentaenoate biosynthesis (6-desaturase) 13 3 1
androstenedione degradation II (anaerobic) 27 5 2
superpathway of glyoxylate cycle and fatty acid degradation 14 11 1
docosahexaenoate biosynthesis III (6-desaturase, mammals) 14 3 1
L-tryptophan degradation III (eukaryotic) 15 6 1
glycerol degradation to butanol 16 10 1
crotonate fermentation (to acetate and cyclohexane carboxylate) 16 3 1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation 17 8 1
benzoate fermentation (to acetate and cyclohexane carboxylate) 17 3 1
cholesterol degradation to androstenedione I (cholesterol oxidase) 17 2 1
3-hydroxypropanoate/4-hydroxybutanate cycle 18 8 1
toluene degradation VI (anaerobic) 18 3 1
sitosterol degradation to androstenedione 18 1 1
Spodoptera littoralis pheromone biosynthesis 22 4 1
cholesterol degradation to androstenedione II (cholesterol dehydrogenase) 22 3 1
purine nucleobases degradation II (anaerobic) 24 16 1
superpathway of cholesterol degradation III (oxidase) 49 6 2
photosynthetic 3-hydroxybutanoate biosynthesis (engineered) 26 20 1
platensimycin biosynthesis 26 6 1
superpathway of ergosterol biosynthesis I 26 4 1
1-butanol autotrophic biosynthesis (engineered) 27 19 1
adenosylcobalamin biosynthesis II (aerobic) 33 31 1
superpathway of cholesterol biosynthesis 38 4 1
superpathway of L-lysine degradation 43 18 1
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 21 1