Experiment set4IT023 for Pseudomonas putida KT2440

LB with 3-methyl-3-butenol (commercial) 0.25 vol%

Group: stress
Media: LB + 3-methyl-3-butenol (commercial) (0.25 vol%)
Culturing: Putida_ML5, 48 well microplate; Tecan Safire, Aerobic, at 30 (C), shaken=orbital
Growth: about 6.9 generations
By: Mitch on 10/28/16
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 3 genes in this experiment

For stress 3-methyl-3-butenol (commercial) in Pseudomonas putida KT2440

For stress 3-methyl-3-butenol (commercial) across organisms

SEED Subsystems

Subsystem	#Specific
Biogenesis of c-type cytochromes	1
Glutathione-dependent pathway of formaldehyde detoxification	1
Periplasmic disulfide interchange	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glycolysis / Gluconeogenesis
• Fatty acid metabolism
• Glycine, serine and threonine metabolism
• Tyrosine metabolism
• 1- and 2-Methylnaphthalene degradation
• 3-Chloroacrylic acid degradation
• Methane metabolism
• Retinol metabolism
• Metabolism of xenobiotics by cytochrome P450
• Drug metabolism - cytochrome P450

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetaldehyde biosynthesis I	1	1	1
pyruvate fermentation to ethanol II	2	1	1
ethanol degradation I	2	1	1
formaldehyde oxidation II (glutathione-dependent)	3	3	1
ethanol degradation II	3	3	1
L-isoleucine degradation II	3	2	1
L-leucine degradation III	3	2	1
L-valine degradation II	3	2	1
L-methionine degradation III	3	1	1
pyruvate fermentation to ethanol III	3	1	1
pyruvate fermentation to ethanol I	3	1	1
salidroside biosynthesis	4	3	1
phytol degradation	4	3	1
L-tyrosine degradation III	4	2	1
L-phenylalanine degradation III	4	2	1
pyruvate fermentation to isobutanol (engineered)	5	4	1
ethanolamine utilization	5	4	1
protein S-nitrosylation and denitrosylation	5	3	1
phenylethanol biosynthesis	5	3	1
acetylene degradation (anaerobic)	5	3	1
(S)-propane-1,2-diol degradation	5	2	1
noradrenaline and adrenaline degradation	13	8	2
3-methylbutanol biosynthesis (engineered)	7	6	1
serotonin degradation	7	4	1
butanol and isobutanol biosynthesis (engineered)	8	3	1
superpathway of fermentation (Chlamydomonas reinhardtii)	9	4	1
superpathway of C1 compounds oxidation to CO2	12	5	1
superpathway of Clostridium acetobutylicum solventogenic fermentation	13	4	1
L-tryptophan degradation V (side chain pathway)	13	1	1
mixed acid fermentation	16	12	1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	6	1
heterolactic fermentation	18	12	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	14	1
superpathway of anaerobic sucrose degradation	19	13	1
superpathway of N-acetylneuraminate degradation	22	12	1