Experiment set17IT068 for Escherichia coli BW25113

LB with pinene 0.3125 vol%

Group: stress
Media: LB + pinene (0.3125 vol%)
Culturing: Keio_ML9a, 48 well microplate; Tecan Safire, Aerobic, at 30 (C), shaken=orbital
Growth: about 5.5 generations
By: Mitch on 12/27/16
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 14 genes in this experiment

For stress pinene in Escherichia coli BW25113

For stress pinene across organisms

SEED Subsystems

Subsystem	#Specific
Glycerol and Glycerol-3-phosphate Uptake and Utilization	2
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	2
Proteasome bacterial	2
Proteolysis in bacteria, ATP-dependent	2
Auxin degradation	1
Entner-Doudoroff Pathway	1
Glycerol fermenation to 1,3-propanediol	1
Glycolysis and Gluconeogenesis	1
Glycolysis and Gluconeogenesis, including Archaeal enzymes	1
MLST	1
Menaquinone and Phylloquinone Biosynthesis	1
Oxidative stress	1
Photorespiration (oxidative C2 cycle)	1
Pyruvate metabolism I: anaplerotic reactions, PEP	1
Transport of Manganese	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Methane metabolism
• Biosynthesis of phenylpropanoids
• Glycolysis / Gluconeogenesis
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Phenylalanine metabolism
• Tryptophan metabolism
• Aminophosphonate metabolism
• High-mannose type N-glycan biosynthesis
• Nucleotide sugars metabolism
• Glycerolipid metabolism
• Glycerophospholipid metabolism
• Sphingolipid metabolism
• Pyruvate metabolism
• Carbon fixation in photosynthetic organisms
• Phenylpropanoid biosynthesis
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
betanidin degradation	1	1	1
glycerol degradation I	3	3	2
glycerol and glycerophosphodiester degradation	4	4	2
arsenate detoxification III	2	2	1
superoxide radicals degradation	2	2	1
baicalein degradation (hydrogen peroxide detoxification)	2	1	1
methanol oxidation to formaldehyde IV	2	1	1
cardiolipin biosynthesis II	3	3	1
ethanol degradation IV	3	3	1
cardiolipin biosynthesis I	3	3	1
reactive oxygen species degradation	4	4	1
luteolin triglucuronide degradation	4	3	1
cardiolipin and phosphatidylethanolamine biosynthesis (Xanthomonas)	4	3	1
xanthommatin biosynthesis	4	1	1
arsenic detoxification (plants)	6	5	1
superpathway of cardiolipin biosynthesis (bacteria)	13	11	2
2-carboxy-1,4-naphthoquinol biosynthesis	7	7	1
anaerobic energy metabolism (invertebrates, cytosol)	7	5	1
sesamin biosynthesis	8	1	1
superpathway of demethylmenaquinol-8 biosynthesis I	9	9	1
Entner-Doudoroff pathway I	9	9	1
superpathway of demethylmenaquinol-6 biosynthesis I	9	8	1
superpathway of demethylmenaquinol-9 biosynthesis	9	8	1
Entner-Doudoroff pathway III (semi-phosphorylative)	9	6	1
Entner-Doudoroff pathway II (non-phosphorylative)	9	6	1
superpathway of menaquinol-8 biosynthesis I	10	10	1
Rubisco shunt	10	9	1
superpathway of menaquinol-6 biosynthesis	10	9	1
superpathway of menaquinol-7 biosynthesis	10	9	1
superpathway of menaquinol-10 biosynthesis	10	9	1
superpathway of menaquinol-11 biosynthesis	10	9	1
superpathway of menaquinol-12 biosynthesis	10	9	1
superpathway of menaquinol-13 biosynthesis	10	9	1
superpathway of menaquinol-9 biosynthesis	10	9	1
glycolysis IV	10	8	1
glycolysis V (Pyrococcus)	10	7	1
matairesinol biosynthesis	10	1	1
justicidin B biosynthesis	10	1	1
glycolysis II (from fructose 6-phosphate)	11	11	1
glycolysis III (from glucose)	11	11	1
glycolysis VI (from fructose)	11	8	1
superpathway of phospholipid biosynthesis III (E. coli)	12	12	1
homolactic fermentation	12	12	1
arsenic detoxification (yeast)	12	4	1
glycolysis I (from glucose 6-phosphate)	13	13	1
Bifidobacterium shunt	15	13	1
superpathway of phylloquinol biosynthesis	15	7	1
mixed acid fermentation	16	16	1
glycerol degradation to butanol	16	11	1
superpathway of glucose and xylose degradation	17	17	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	17	1
superpathway of anaerobic energy metabolism (invertebrates)	17	12	1
arsenic detoxification (mammals)	17	8	1
superpathway of hexitol degradation (bacteria)	18	18	1
heterolactic fermentation	18	16	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	19	1
superpathway of anaerobic sucrose degradation	19	17	1
superpathway of N-acetylneuraminate degradation	22	22	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	18	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	25	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	19	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1
superpathway of chorismate metabolism	59	54	1