Experiment set2H32 for Marinobacter adhaerens HP15

marine broth with Benzethonium chloride 0.025 mM

Group: stress
Media: marine_broth_2216 + Benzethonium chloride (0.025 mM)
Culturing: Marino_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Jordan on 9/9/2013
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: 682 A3,A4

Specific Phenotypes

For 44 genes in this experiment

For stress Benzethonium chloride in Marinobacter adhaerens HP15

For stress Benzethonium chloride across organisms

SEED Subsystems

Subsystem	#Specific
Type 4 secretion and conjugative transfer	4
Type IV pilus	3
ABC transporter oligopeptide (TC 3.A.1.5.1)	2
Lipid A-Ara4N pathway ( Polymyxin resistance )	2
Teichuronic acid biosynthesis	2
Arginine and Ornithine Degradation	1
Carotenoids	1
Choline and Betaine Uptake and Betaine Biosynthesis	1
Conserved gene cluster associated with Met-tRNA formyltransferase	1
DNA-replication	1
De Novo Pyrimidine Synthesis	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Lacto-N-Biose I and Galacto-N-Biose Metabolic Pathway	1
Lactose and Galactose Uptake and Utilization	1
Multidrug Resistance Efflux Pumps	1
N-linked Glycosylation in Bacteria	1
Phosphate metabolism	1
Polyamine Metabolism	1
Pyrimidine utilization	1
Rhamnose containing glycans	1
Teichoic and lipoteichoic acids biosynthesis	1
Transcription factors bacterial	1
YcfH	1
linker unit-arabinogalactan synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Biosynthesis of plant hormones
• Ascorbate and aldarate metabolism
• Geraniol degradation
• Nucleotide sugars metabolism
• Benzoate degradation via CoA ligation
• Limonene and pinene degradation
• Brassinosteroid biosynthesis
• Caprolactam degradation
• Biosynthesis of terpenoids and steroids
• Pentose and glucuronate interconversions
• Galactose metabolism
• Fatty acid metabolism
• Biosynthesis of steroids
• Ubiquinone and menaquinone biosynthesis
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Arginine and proline metabolism
• Tyrosine metabolism
• gamma-Hexachlorocyclohexane degradation
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Starch and sucrose metabolism
• Lipopolysaccharide biosynthesis
• Glycerolipid metabolism
• Glycerophospholipid metabolism
• alpha-Linolenic acid metabolism
• Sphingolipid metabolism
• 1- and 2-Methylnaphthalene degradation
• Naphthalene and anthracene degradation
• 1,4-Dichlorobenzene degradation
• Propanoate metabolism
• Ethylbenzene degradation
• Folate biosynthesis
• Diterpenoid biosynthesis
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Alkaloid biosynthesis II
• Biosynthesis of phenylpropanoids

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-N-acetyl-D-galactosamine biosynthesis I	1	1	1
UDP-α-D-galactose biosynthesis	1	1	1
choline degradation I	2	2	1
glycine betaine biosynthesis I (Gram-negative bacteria)	2	2	1
UDP-α-D-xylose biosynthesis	2	2	1
glycine betaine biosynthesis II (Gram-positive bacteria)	2	2	1
phospholipid remodeling (phosphatidate, yeast)	2	1	1
UDP-α-D-galactofuranose biosynthesis	2	1	1
β-alanine biosynthesis IV	2	1	1
β-alanine biosynthesis I	2	1	1
palmitoleate biosynthesis III (cyanobacteria)	2	1	1
L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway)	3	3	1
putrescine biosynthesis II	3	3	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	2
glycine betaine biosynthesis III (plants)	3	2	1
oleate biosynthesis III (cyanobacteria)	3	2	1
choline-O-sulfate degradation	3	2	1
D-galactose detoxification	3	1	1
dimethylsulfoniopropanoate biosynthesis I (Wollastonia)	3	1	1
CDP-diacylglycerol biosynthesis II	4	4	1
CDP-diacylglycerol biosynthesis I	4	4	1
choline degradation IV	4	2	1
dimethylsulfoniopropanoate biosynthesis II (Spartina)	4	1	1
4-oxopentanoate degradation	9	4	2
UDP-sugars interconversion	9	3	2
teichuronic acid biosynthesis (B. subtilis 168)	9	2	2
adipate degradation	5	5	1
phosphatidate biosynthesis (yeast)	5	3	1
CDP-diacylglycerol biosynthesis III	5	3	1
D-galactose degradation I (Leloir pathway)	5	2	1
colanic acid building blocks biosynthesis	11	8	2
phosphatidylglycerol biosynthesis I	6	6	1
phosphatidylglycerol biosynthesis II	6	6	1
fatty acid salvage	6	6	1
superpathway of phospholipid biosynthesis III (E. coli)	12	11	2
superpathway of stearidonate biosynthesis (cyanobacteria)	6	2	1
palmitoyl ethanolamide biosynthesis	6	2	1
UDP-N-acetyl-D-galactosamine biosynthesis II	7	4	1
stigma estolide biosynthesis	7	2	1
stachyose degradation	7	2	1
diacylglycerol and triacylglycerol biosynthesis	7	2	1
superpathway of polyamine biosynthesis II	8	6	1
anandamide biosynthesis II	8	2	1
tunicamycin biosynthesis	9	3	1
poly(glycerol phosphate) wall teichoic acid biosynthesis	11	2	1
oleate β-oxidation	35	30	3
anandamide biosynthesis I	12	4	1
superpathway of cardiolipin biosynthesis (bacteria)	13	10	1
cannabinoid biosynthesis	13	6	1
2-methyl-branched fatty acid β-oxidation	14	10	1
superpathway of phospholipid biosynthesis II (plants)	28	10	2
plasmalogen biosynthesis I (aerobic)	16	2	1
mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	18	1	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	1