Experiment set2IT002 for Pseudomonas fluorescens FW300-N2E2

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D-Fructose carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + D-Fructose (20 mM), pH=7
Culturing: pseudo6_N2E2_ML5, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 3/9/2015
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 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), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)

Specific Phenotypes

For 27 genes in this experiment

For carbon source D-Fructose in Pseudomonas fluorescens FW300-N2E2

For carbon source D-Fructose across organisms

SEED Subsystems

Subsystem #Specific
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization 4
Coenzyme PQQ synthesis 2
Mannitol Utilization 2
Pyrroloquinoline Quinone biosynthesis 2
ABC transporter alkylphosphonate (TC 3.A.1.9.1) 1
Aromatic amino acid degradation 1
Biogenesis of c-type cytochromes 1
Chorismate Synthesis 1
Cobalt-zinc-cadmium resistance 1
Common Pathway For Synthesis of Aromatic Compounds (DAHP synthase to chorismate) 1
DNA repair, bacterial MutL-MutS system 1
Fructose utilization 1
Hfl operon 1
Homogentisate pathway of aromatic compound degradation 1
Inositol catabolism 1
Periplasmic disulfide interchange 1
Plastoquinone Biosynthesis 1
Sucrose utilization 1
Sucrose utilization Shewanella 1
Tocopherol Biosynthesis 1
Universal GTPases 1
Universal stress protein family 1
Xylose utilization 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
3-dehydroquinate biosynthesis I 2 2 1
D-xylose degradation I 2 2 1
xylitol degradation I 2 1 1
D-arabinitol degradation I 2 1 1
mannitol cycle 5 3 2
D-sorbitol degradation I 3 3 1
sucrose degradation I (sucrose phosphotransferase) 3 1 1
plastoquinol-9 biosynthesis I 3 1 1
pyrroloquinoline quinone biosynthesis 7 4 2
sucrose degradation III (sucrose invertase) 4 4 1
sucrose degradation IV (sucrose phosphorylase) 4 3 1
D-fructuronate degradation 4 3 1
sucrose degradation VII (sucrose 3-dehydrogenase) 4 1 1
L-tyrosine degradation I 5 5 1
sucrose degradation II (sucrose synthase) 5 4 1
superpathway of plastoquinol biosynthesis 5 2 1
myo-inositol degradation II 5 1 1
myo-inositol degradation I 7 7 1
chorismate biosynthesis I 7 7 1
superpathway of β-D-glucuronosides degradation 7 4 1
vitamin E biosynthesis (tocopherols) 7 1 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 5 1
superpathway of L-tyrosine biosynthesis 10 10 1
superpathway of L-phenylalanine biosynthesis 10 10 1
myo-, chiro- and scyllo-inositol degradation 10 7 1
superpathway of hexuronide and hexuronate degradation 10 5 1
superpathway of L-tryptophan biosynthesis 13 13 1
superpathway of glucose and xylose degradation 17 16 1
superpathway of aromatic amino acid biosynthesis 18 18 1
heterolactic fermentation 18 15 1
streptomycin biosynthesis 18 3 1
superpathway of anaerobic sucrose degradation 19 14 1
superpathway of microbial D-galacturonate and D-glucuronate degradation 31 16 1
superpathway of pentose and pentitol degradation 42 15 1
superpathway of chorismate metabolism 59 43 1