Experiment set3IT058 for Pseudomonas fluorescens FW300-N2E3

LB with Sisomicin sulfate salt 0.008 mg/ml

Group: stress
Media: LB + Sisomicin sulfate salt (0.008 mg/ml)
Culturing: pseudo3_N2E3_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Jayashree on 6/18/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 943 B7,B8

Specific Phenotypes

For 43 genes in this experiment

For stress Sisomicin sulfate salt in Pseudomonas fluorescens FW300-N2E3

For stress Sisomicin sulfate salt across organisms

SEED Subsystems

Subsystem	#Specific
Heat shock dnaK gene cluster extended	3
Potassium homeostasis	3
Bacterial Chemotaxis	2
Conserved gene cluster associated with Met-tRNA formyltransferase	2
ATP-dependent RNA helicases, bacterial	1
Bacterial Cell Division	1
Bacterial RNA-metabolizing Zn-dependent hydrolases	1
Bacterial hemoglobins	1
Biogenesis of cbb3-type cytochrome c oxidases	1
Central meta-cleavage pathway of aromatic compound degradation	1
DNA-replication	1
Flagellar motility	1
Flavohaemoglobin	1
Glutaredoxins	1
Glutathione-regulated potassium-efflux system and associated functions	1
Glutathione: Non-redox reactions	1
Heme and Siroheme Biosynthesis	1
Hemin transport system	1
Polyamine Metabolism	1
Queuosine-Archaeosine Biosynthesis	1
Rhamnose containing glycans	1
Ribosomal protein S12p Asp methylthiotransferase	1
Terminal cytochrome C oxidases	1
Transcription factors bacterial	1
Two-component regulatory systems in Campylobacter	1
Ubiquinone Biosynthesis	1
dTDP-rhamnose synthesis	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:

• Lipopolysaccharide biosynthesis
• Thiamine metabolism
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Fructose and mannose metabolism
• Urea cycle and metabolism of amino groups
• Puromycin biosynthesis
• Methionine metabolism
• Arginine and proline metabolism
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Glutathione metabolism
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Streptomycin biosynthesis
• Polyketide sugar unit biosynthesis
• Keratan sulfate biosynthesis
• Peptidoglycan biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Naphthalene and anthracene degradation
• Folate biosynthesis
• Atrazine degradation
• Zeatin biosynthesis
• Phenylpropanoid biosynthesis
• Flavone and flavonol biosynthesis
• Alkaloid biosynthesis I
• Metabolism of xenobiotics by cytochrome P450
• Insect hormone biosynthesis
• Drug metabolism - cytochrome P450
• Drug metabolism - other enzymes
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
hydroxymethylpyrimidine salvage	2	2	2
4-hydroxybenzoate biosynthesis II (bacteria)	1	1	1
spermidine biosynthesis I	2	2	1
4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis I	2	2	1
spermine biosynthesis	2	1	1
thiamine diphosphate salvage II	5	4	2
aminopropylcadaverine biosynthesis	3	3	1
UTP and CTP dephosphorylation I	7	5	2
thiamine diphosphate salvage IV (yeast)	7	3	2
spermidine biosynthesis III	4	2	1
thiamine diphosphate formation from pyrithiamine and oxythiamine (yeast)	8	3	2
4-hydroxy-2-nonenal detoxification	4	1	1
polybrominated phenols biosynthesis	4	1	1
dTDP-β-L-rhamnose biosynthesis	5	5	1
pentachlorophenol degradation	10	4	2
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
superpathway of thiamine diphosphate biosynthesis III (eukaryotes)	7	3	1
spongiadioxin C biosynthesis	7	2	1
superpathway of polyamine biosynthesis I	8	7	1
superpathway of polyamine biosynthesis II	8	6	1
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	6	1
4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis II	8	4	1
glutathione-mediated detoxification I	8	3	1
polybrominated dihydroxylated diphenyl ethers biosynthesis	8	2	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	1
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	1
ubiquinol-8 biosynthesis (late decarboxylation)	9	4	1
glutathione-mediated detoxification II	9	2	1
gliotoxin biosynthesis	9	2	1
p-HBAD biosynthesis	9	1	1
superpathway of thiamine diphosphate biosynthesis I	10	8	1
L-methionine salvage cycle III	11	10	1
O-antigen building blocks biosynthesis (E. coli)	11	10	1
superpathway of thiamine diphosphate biosynthesis II	11	9	1
superpathway of ubiquinol-8 biosynthesis (early decarboxylation)	12	10	1
L-methionine salvage cycle I (bacteria and plants)	12	9	1
indole glucosinolate activation (intact plant cell)	12	3	1
camalexin biosynthesis	12	2	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	12	1
tetrahydromethanopterin biosynthesis	14	3	1
superpathway of arginine and polyamine biosynthesis	17	16	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	5	1
superpathway of polybrominated aromatic compound biosynthesis	20	2	1
phenolphthiocerol biosynthesis	23	1	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	13	1
superpathway of chorismate metabolism	59	43	1