Experiment set5IT019 for Pseudomonas fluorescens FW300-N2E3

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L-Phenylalanine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + L-Phenylalanine (5 mM), pH=7
Culturing: pseudo3_N2E3_ML2, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 12/17/2015
Media components: 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM D-Glucose, 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 6 genes in this experiment

For nitrogen source L-Phenylalanine in Pseudomonas fluorescens FW300-N2E3

For nitrogen source L-Phenylalanine across organisms

SEED Subsystems

Subsystem #Specific
Aromatic amino acid degradation 3
ABC transporter branched-chain amino acid (TC 3.A.1.4.1) 1
Arginine and Ornithine Degradation 1
Homogentisate pathway of aromatic compound degradation 1
Plastoquinone Biosynthesis 1
Proline, 4-hydroxyproline uptake and utilization 1
Pterin biosynthesis 1
Respiratory dehydrogenases 1 1
Tocopherol Biosynthesis 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
L-tyrosine biosynthesis IV 1 1 1
L-phenylalanine degradation I (aerobic) 1 1 1
L-proline degradation I 3 3 2
proline to cytochrome bo oxidase electron transfer 2 2 1
L-tyrosine degradation I 5 5 2
L-phenylalanine degradation V 3 2 1
L-arginine degradation I (arginase pathway) 3 2 1
gentisate degradation I 3 1 1
plastoquinol-9 biosynthesis I 3 1 1
ethene biosynthesis II (microbes) 4 4 1
4-hydroxy-2-nonenal detoxification 4 1 1
pentachlorophenol degradation 10 4 2
superpathway of plastoquinol biosynthesis 5 2 1
5-nitroanthranilate degradation 6 2 1
(5R)-carbapenem carboxylate biosynthesis 6 1 1
L-Nδ-acetylornithine biosynthesis 7 5 1
vitamin E biosynthesis (tocopherols) 7 1 1
L-citrulline biosynthesis 8 7 1
glutathione-mediated detoxification I 8 3 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 3 1
gliotoxin biosynthesis 9 2 1
glutathione-mediated detoxification II 9 2 1
3-phenylpropanoate degradation 10 4 1
superpathway of L-citrulline metabolism 12 9 1
indole glucosinolate activation (intact plant cell) 12 3 1
camalexin biosynthesis 12 2 1