Experiment set4IT003 for Pseudomonas fluorescens FW300-N2C3

LB with Sisomicin sulfate salt 0.001 mg/ml

Group: stress
Media: LB + Sisomicin sulfate salt (0.001 mg/ml)
Culturing: pseudo5_N2-C3_1_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Adam on 10/6/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 983 B5,B6

Specific Phenotypes

For 27 genes in this experiment

For stress Sisomicin sulfate salt in Pseudomonas fluorescens FW300-N2C3

For stress Sisomicin sulfate salt across organisms

SEED Subsystems

Subsystem	#Specific
Terminal cytochrome O ubiquinol oxidase	4
Terminal cytochrome oxidases	4
Polyamine Metabolism	3
Bacterial Chemotaxis	2
Acid resistance mechanisms	1
Alginate metabolism	1
Arginine and Ornithine Degradation	1
Bacterial Cell Division	1
Bacterial Cytoskeleton	1
Experimental tye	1
Flagellar motility	1
Glutathione-regulated potassium-efflux system and associated functions	1
Glutathione: Redox cycle	1
Heme and Siroheme Biosynthesis	1
Hemin transport system	1
Mannose Metabolism	1
NAD and NADP cofactor biosynthesis global	1
NAD regulation	1
Peptidoglycan Biosynthesis	1
Potassium homeostasis	1
Queuosine-Archaeosine Biosynthesis	1
Two-component regulatory systems in Campylobacter	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Tryptophan metabolism
• Nucleotide sugars metabolism
• Porphyrin and chlorophyll metabolism
• C21-Steroid hormone metabolism
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Glycine, serine and threonine metabolism
• Methionine metabolism
• Arginine and proline metabolism
• Tyrosine metabolism
• 1,1,1-Trichloro-2,2-bis(4-chlorophenyl)ethane (DDT) degradation
• Phenylalanine metabolism
• Benzoate degradation via hydroxylation
• Bisphenol A degradation
• Glutathione metabolism
• Polyketide sugar unit biosynthesis
• Aminosugars metabolism
• Linoleic acid metabolism
• Pyruvate metabolism
• Biphenyl degradation
• 1- and 2-Methylnaphthalene degradation
• Tetrachloroethene degradation
• Fluorene degradation
• Benzoate degradation via CoA ligation
• 3-Chloroacrylic acid degradation
• Butanoate metabolism
• Riboflavin metabolism
• Nicotinate and nicotinamide metabolism
• Retinol metabolism
• Terpenoid biosynthesis
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Drug metabolism - other enzymes
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide products
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
arginine dependent acid resistance	1	1	1
proline to cytochrome bo oxidase electron transfer	2	2	1
putrescine biosynthesis I	2	2	1
succinate to cytochrome bo oxidase electron transfer	2	2	1
NADH to cytochrome bo oxidase electron transfer II	2	2	1
glycerol-3-phosphate to cytochrome bo oxidase electron transfer	2	2	1
NADH to cytochrome bo oxidase electron transfer I	2	2	1
L-arginine degradation III (arginine decarboxylase/agmatinase pathway)	2	2	1
D-mannose degradation II	2	1	1
D-lactate to cytochrome bo oxidase electron transfer	2	1	1
D-mannose degradation I	2	1	1
pyruvate to cytochrome bo oxidase electron transfer	2	1	1
L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway)	3	3	1
putrescine biosynthesis II	3	3	1
β-1,4-D-mannosyl-N-acetyl-D-glucosamine degradation	3	2	1
glutathione-peroxide redox reactions	3	2	1
mannitol biosynthesis	3	1	1
GDP-mannose biosynthesis	4	4	1
NAD biosynthesis from 2-amino-3-carboxymuconate semialdehyde	4	3	1
superpathway of putrescine biosynthesis	4	3	1
tetrapyrrole biosynthesis II (from glycine)	4	3	1
mannitol degradation II	4	2	1
heme a biosynthesis	4	2	1
spermidine biosynthesis III	4	1	1
NAD salvage pathway II (PNC IV cycle)	5	3	1
NAD salvage pathway V (PNC V cycle)	5	3	1
1,5-anhydrofructose degradation	5	2	1
tetrapyrrole biosynthesis I (from glutamate)	6	6	1
NAD de novo biosynthesis I	6	5	1
NAD de novo biosynthesis IV (anaerobic)	6	5	1
NAD de novo biosynthesis III	6	4	1
norspermidine biosynthesis	6	4	1
NAD salvage pathway I (PNC VI cycle)	7	5	1
β-(1,4)-mannan degradation	7	2	1
superpathway of heme b biosynthesis from glycine	8	6	1
superpathway of polyamine biosynthesis I	8	5	1
superpathway of polyamine biosynthesis II	8	5	1
superpathway of polyamine biosynthesis III	8	4	1
NAD de novo biosynthesis II (from tryptophan)	9	3	1
superpathway of heme b biosynthesis from glutamate	10	9	1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	10	1
colanic acid building blocks biosynthesis	11	9	1
NAD salvage (plants)	11	6	1
superpathway of L-arginine and L-ornithine degradation	13	12	1
superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis	14	7	1
superpathway of NAD biosynthesis in eukaryotes	14	6	1
superpathway of arginine and polyamine biosynthesis	17	14	1
aspartate superpathway	25	22	1
superpathway of bacteriochlorophyll a biosynthesis	26	6	1
adenosylcobalamin biosynthesis II (aerobic)	33	31	1
adenosylcobalamin biosynthesis I (anaerobic)	36	29	1