Experiment set6S40 for Bosea sp. OAE506

R2A with 2-pentyl-furan 21.3684 mM

Group: stress
Media: R2A + 2-pentyl-furan (21.3684 mM)
Culturing: Bosea_OAE506_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Cat Adams on 2/14/24
Media components: 0.5 g/L Bacto Peptone, 0.5 g/L casamino acids, 0.5 g/L Yeast Extract, 0.5 g/L D-Glucose, 0.5 g/L Starch, 0.3 g/L Potassium phosphate dibasic, 0.05 g/L Magnesium Sulfate Heptahydrate, 0.3 g/L Sodium pyruvate

Specific Phenotypes

For 68 genes in this experiment

For stress 2-pentyl-furan in Bosea sp. OAE506

For stress 2-pentyl-furan across organisms

SEED Subsystems

Subsystem	#Specific
Molybdenum cofactor biosynthesis	3
Phosphate metabolism	3
Ammonia assimilation	2
Heat shock dnaK gene cluster extended	2
High affinity phosphate transporter and control of PHO regulon	2
N-heterocyclic aromatic compound degradation	2
Peptidoglycan Biosynthesis	2
Transport of Molybdenum	2
Type IV pilus	2
ATP-dependent RNA helicases, bacterial	1
Acetyl-CoA fermentation to Butyrate	1
Alginate metabolism	1
CO Dehydrogenase	1
Carbon monoxide dehydrogenase maturation factors	1
Copper homeostasis: copper tolerance	1
Entner-Doudoroff Pathway	1
Lipid A-Ara4N pathway ( Polymyxin resistance )	1
Multidrug Resistance Efflux Pumps	1
Pentose phosphate pathway	1
Polyhydroxybutyrate metabolism	1
Potassium homeostasis	1
Protein chaperones	1
Serine-glyoxylate cycle	1
Soluble cytochromes and functionally related electron carriers	1
Teichuronic acid biosynthesis	1
Ton and Tol transport systems	1
ZZ gjo need homes	1
p-Hydroxybenzoate degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Carotenoid biosynthesis - General
• Alkaloid biosynthesis I
• Nucleotide sugars metabolism
• Peptidoglycan biosynthesis
• Butanoate metabolism
• Anthocyanin biosynthesis
• Insect hormone biosynthesis
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Lysine degradation
• Histidine metabolism
• Tyrosine metabolism
• Glutathione metabolism
• Lipopolysaccharide biosynthesis
• Glycosphingolipid biosynthesis - ganglio series
• Benzoate degradation via CoA ligation
• Porphyrin and chlorophyll metabolism
• Flavonoid biosynthesis
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of alkaloids derived from shikimate pathway
• Pentose phosphate pathway
• Pentose and glucuronate interconversions
• Fatty acid biosynthesis
• Ubiquinone and menaquinone biosynthesis
• C21-Steroid hormone metabolism
• Purine metabolism
• Puromycin biosynthesis
• Pyrimidine metabolism
• Glycine, serine and threonine metabolism
• Phenylalanine metabolism
• Benzoate degradation via hydroxylation
• Bisphenol A degradation
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Starch and sucrose metabolism
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Polyketide sugar unit biosynthesis
• Aminosugars metabolism
• Keratan sulfate biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Glycerophospholipid metabolism
• Ether lipid metabolism
• Linoleic acid metabolism
• alpha-Linolenic acid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• 2,4-Dichlorobenzoate degradation
• 1- and 2-Methylnaphthalene degradation
• Tetrachloroethene degradation
• Naphthalene and anthracene degradation
• Glyoxylate and dicarboxylate metabolism
• Trinitrotoluene degradation
• Ethylbenzene degradation
• Methane metabolism
• Biotin metabolism
• Retinol metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Zeatin biosynthesis
• Phenylpropanoid biosynthesis
• Flavone and flavonol biosynthesis
• Alkaloid biosynthesis II
• Aminoacyl-tRNA biosynthesis
• Biosynthesis of type II polyketide backbone
• Biosynthesis of type II polyketide products
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
UDP-α-D-glucuronate biosynthesis (from UDP-glucose)	1	1	1
UDP-α-D-xylose biosynthesis	2	2	1
UDP-N-acetyl-α-D-galactosaminuronate biosynthesis	2	1	1
nitroglycerin degradation	5	2	2
pentose phosphate pathway (oxidative branch) I	3	3	1
polyhydroxybutanoate biosynthesis	3	2	1
molybdenum cofactor biosynthesis	3	2	1
(2S)-ethylmalonyl-CoA biosynthesis	4	3	1
arsenic detoxification (bacteria)	4	2	1
4-chlorobenzoate degradation	4	1	1
bis(tungstenpterin) cofactor biosynthesis	4	1	1
4-methylphenol degradation to protocatechuate	4	1	1
cytosolic NADPH production (yeast)	5	4	1
(R)- and (S)-3-hydroxybutanoate biosynthesis (engineered)	5	3	1
UDP-2,3-diacetamido-2,3-dideoxy-α-D-mannuronate biosynthesis	5	1	1
4-coumarate degradation (aerobic)	5	1	1
bisphenol A degradation	5	1	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	5	1
formaldehyde oxidation I	6	3	1
arsenate detoxification I	6	3	1
4-hydroxymandelate degradation	6	1	1
L-lysine biosynthesis VI	7	6	1
acetyl-CoA fermentation to butanoate	7	5	1
spongiadioxin C biosynthesis	7	1	1
pentose phosphate pathway	8	7	1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast)	8	6	1
2-deoxy-D-ribose degradation II	8	5	1
polybrominated dihydroxylated diphenyl ethers biosynthesis	8	1	1
peptidoglycan biosynthesis II (staphylococci)	17	12	2
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	2
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
L-lysine biosynthesis I	9	8	1
Entner-Doudoroff pathway I	9	7	1
L-lysine biosynthesis II	9	7	1
UDP-sugars interconversion	9	4	1
4-oxopentanoate degradation	9	2	1
teichuronic acid biosynthesis (B. subtilis 168)	9	2	1
myxochelin A and B biosynthesis	9	1	1
colanic acid building blocks biosynthesis	11	9	1
ethylmalonyl-CoA pathway	11	6	1
toluene degradation III (aerobic) (via p-cresol)	11	6	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	11	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	3	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
superpathway of glucose and xylose degradation	17	13	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	11	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	14	1
heterolactic fermentation	18	11	1
tRNA charging	21	19	1
superpathway of UDP-N-acetylglucosamine-derived O-antigen building blocks biosynthesis	24	6	1
aspartate superpathway	25	19	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	18	1
superpathway of aerobic toluene degradation	30	9	1
superpathway of aromatic compound degradation via 3-oxoadipate	35	10	1
superpathway of aromatic compound degradation via 2-hydroxypentadienoate	42	8	1