Experiment set1IT089 for Pseudomonas fluorescens FW300-N2E3

LB with Paraquat dichloride 0.032 mg/mL

Group: stress
Media: LB + Paraquat dichloride (0.032 mg/ml), pH=7
Culturing: pseudo3_N2E3_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 28 (C), shaken=200 rpm
By: Jayashree on 4/28/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 891 D1,D2

Specific Phenotypes

For 11 genes in this experiment

For stress Paraquat dichloride in Pseudomonas fluorescens FW300-N2E3

For stress Paraquat dichloride across organisms

SEED Subsystems

Subsystem	#Specific
Choline and Betaine Uptake and Betaine Biosynthesis	4
Biogenesis of cytochrome c oxidases	1
Entner-Doudoroff Pathway	1
Glutathione-regulated potassium-efflux system and associated functions	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Methionine Biosynthesis	1
Methionine Degradation	1
Methylglyoxal Metabolism	1
Potassium homeostasis	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Arginine and proline metabolism
• Urea cycle and metabolism of amino groups
• Tryptophan metabolism
• Limonene and pinene degradation
• Glycolysis / Gluconeogenesis
• Ascorbate and aldarate metabolism
• Fatty acid metabolism
• Photosynthesis
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Geraniol degradation
• Lysine biosynthesis
• Lysine degradation
• Histidine metabolism
• beta-Alanine metabolism
• Glycerolipid metabolism
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• Naphthalene and anthracene degradation
• 1,2-Dichloroethane degradation
• Propanoate metabolism
• 3-Chloroacrylic acid degradation
• Butanoate metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
glycine betaine biosynthesis II (Gram-positive bacteria)	2	2	1
choline degradation I	2	2	1
ethylene glycol degradation	2	2	1
putrescine degradation I	2	2	1
putrescine degradation V	2	2	1
glycine betaine biosynthesis I (Gram-negative bacteria)	2	2	1
choline-O-sulfate degradation	3	3	1
ethanol degradation IV	3	3	1
ethanol degradation II	3	3	1
putrescine degradation IV	3	2	1
hypotaurine degradation	3	2	1
ethanol degradation III	3	2	1
histamine degradation	3	1	1
L-arginine degradation IX (arginine:pyruvate transaminase pathway)	4	4	1
L-arginine degradation VIII (arginine oxidase pathway)	4	3	1
phytol degradation	4	3	1
fatty acid α-oxidation I (plants)	4	2	1
putrescine degradation III	4	2	1
photosynthesis light reactions	4	1	1
D-arabinose degradation II	4	1	1
L-tryptophan degradation X (mammalian, via tryptamine)	4	1	1
NADPH to cytochrome c oxidase via plastocyanin (thylakoid membrane)	4	1	1
mitochondrial NADPH production (yeast)	5	4	1
octane oxidation	5	4	1
sphingosine and sphingosine-1-phosphate metabolism	10	4	2
dopamine degradation	5	1	1
3-methyl-branched fatty acid α-oxidation	6	3	1
superpathway of photosynthetic hydrogen production	6	2	1
alkane oxidation	6	1	1
noradrenaline and adrenaline degradation	13	4	2
superpathway of glycol metabolism and degradation	7	7	1
serotonin degradation	7	3	1
ceramide degradation by α-oxidation	7	2	1
limonene degradation IV (anaerobic)	7	1	1
superpathway of ornithine degradation	8	7	1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast)	8	6	1
ceramide and sphingolipid recycling and degradation (yeast)	16	4	2
aromatic biogenic amine degradation (bacteria)	8	1	1
Entner-Doudoroff pathway II (non-phosphorylative)	9	5	1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	9	1
superpathway of L-arginine and L-ornithine degradation	13	11	1
oxygenic photosynthesis	17	11	1
ethene biosynthesis V (engineered)	25	19	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	20	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1
superpathway of pentose and pentitol degradation	42	8	1