Experiment set6IT044 for Phaeobacter inhibens DSM 17395

marine broth with Fusidic acid sodium salt 0.0002 mg/ml

Group: stress
Media: marine_broth_2216 + Fusidic acid sodium salt (2e-04 mg/ml)
Culturing: Phaeo_ML1, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Adam on marchapr14
Media components: 5 g/L Bacto Peptone, 1 g/L Yeast Extract, 0.1 g/L Ferric citrate, 19.45 g/L Sodium Chloride, 5.9 g/L Magnesium chloride hexahydrate, 3.24 g/L Magnesium sulfate, 1.8 g/L Calcium chloride, 0.55 g/L Potassium Chloride, 0.16 g/L Sodium bicarbonate, 0.08 g/L Potassium bromide, 34 mg/L Strontium chloride, 22 mg/L Boric Acid, 4 mg/L Sodium metasilicate, 2.4 mg/L sodium fluoride, 8 mg/L Disodium phosphate
Growth plate: 897 B1,B2

Specific Phenotypes

For 14 genes in this experiment

For stress Fusidic acid sodium salt in Phaeobacter inhibens DSM 17395

For stress Fusidic acid sodium salt across organisms

SEED Subsystems

Subsystem	#Specific
Valine degradation	2
Acetyl-CoA fermentation to Butyrate	1
Ammonia assimilation	1
Butanol Biosynthesis	1
Cobalt-zinc-cadmium resistance	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Heat shock dnaK gene cluster extended	1
Isobutyryl-CoA to Propionyl-CoA Module	1
Isoleucine degradation	1
Nudix proteins (nucleoside triphosphate hydrolases)	1
Polyhydroxybutyrate metabolism	1
cAMP signaling in bacteria	1
n-Phenylalkanoic acid degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Valine, leucine and isoleucine degradation
• Tryptophan metabolism
• beta-Alanine metabolism
• Propanoate metabolism
• Fatty acid elongation in mitochondria
• Fatty acid metabolism
• Ubiquinone and menaquinone biosynthesis
• Pyrimidine metabolism
• Glutamate metabolism
• Geraniol degradation
• Lysine degradation
• Histidine metabolism
• Tyrosine metabolism
• Benzoxazinone biosynthesis
• alpha-Linolenic acid metabolism
• Naphthalene and anthracene degradation
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• Porphyrin and chlorophyll metabolism
• Limonene and pinene degradation
• Carotenoid biosynthesis - General
• Nitrogen metabolism
• Caprolactam degradation
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate biosynthesis I	2	2	2
L-glutamine degradation II	1	1	1
L-glutamine degradation I	1	1	1
ammonia assimilation cycle III	3	3	2
benzoyl-CoA biosynthesis	3	3	1
pyrimidine deoxyribonucleotides dephosphorylation	3	1	1
L-glutamate and L-glutamine biosynthesis	7	7	2
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
L-valine degradation I	8	5	2
phenylacetate degradation I (aerobic)	9	6	2
2-methyl-branched fatty acid β-oxidation	14	10	3
adipate degradation	5	5	1
adipate biosynthesis	5	4	1
fatty acid β-oxidation II (plant peroxisome)	5	3	1
glutaryl-CoA degradation	5	3	1
fatty acid β-oxidation IV (unsaturated, even number)	5	3	1
propanoyl-CoA degradation II	5	3	1
acrylate degradation I	5	2	1
benzoate biosynthesis III (CoA-dependent, non-β-oxidative)	5	1	1
pyruvate fermentation to hexanol (engineered)	11	7	2
superpathway of phenylethylamine degradation	11	6	2
(8E,10E)-dodeca-8,10-dienol biosynthesis	11	5	2
oleate β-oxidation	35	30	6
fatty acid salvage	6	6	1
pyruvate fermentation to butanol II (engineered)	6	4	1
β-alanine biosynthesis II	6	4	1
L-isoleucine degradation I	6	4	1
propanoate fermentation to 2-methylbutanoate	6	3	1
methyl ketone biosynthesis (engineered)	6	3	1
pyrimidine deoxyribonucleotides de novo biosynthesis II	7	5	1
fatty acid β-oxidation I (generic)	7	5	1
fatty acid β-oxidation VI (mammalian peroxisome)	7	3	1
benzoyl-CoA degradation I (aerobic)	7	3	1
pyruvate fermentation to butanoate	7	3	1
L-citrulline biosynthesis	8	8	1
pyruvate fermentation to butanol I	8	3	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	1
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	1
valproate β-oxidation	9	6	1
superpathway of Clostridium acetobutylicum acidogenic fermentation	9	5	1
benzoate biosynthesis I (CoA-dependent, β-oxidative)	9	3	1
superpathway of coenzyme A biosynthesis II (plants)	10	8	1
3-phenylpropanoate degradation	10	4	1
L-glutamate degradation V (via hydroxyglutarate)	10	4	1
gallate degradation III (anaerobic)	11	3	1
Spodoptera littoralis pheromone biosynthesis	22	3	2
superpathway of L-citrulline metabolism	12	10	1
L-glutamate degradation VII (to butanoate)	12	4	1
superpathway of Clostridium acetobutylicum solventogenic fermentation	13	5	1
(4Z,7Z,10Z,13Z,16Z)-docosapentaenoate biosynthesis (6-desaturase)	13	2	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	12	1
superpathway of glyoxylate cycle and fatty acid degradation	14	10	1
docosahexaenoate biosynthesis III (6-desaturase, mammals)	14	2	1
L-tryptophan degradation III (eukaryotic)	15	5	1
glycerol degradation to butanol	16	9	1
crotonate fermentation (to acetate and cyclohexane carboxylate)	16	4	1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	7	1
benzoate fermentation (to acetate and cyclohexane carboxylate)	17	4	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	17	1
3-hydroxypropanoate/4-hydroxybutanate cycle	18	11	1
toluene degradation VI (anaerobic)	18	4	1
platensimycin biosynthesis	26	6	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1