Experiment set5IT053 for Pseudomonas fluorescens FW300-N2C3

LB with Choline chloride 500 mM

Group: stress
Media: LB + Choline chloride (500 mM)
Culturing: pseudo5_N2-C3_1_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Adam on 10/8/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 989 A5,A6

Specific Phenotypes

For 31 genes in this experiment

For stress Choline chloride in Pseudomonas fluorescens FW300-N2C3

For stress Choline chloride across organisms

SEED Subsystems

Subsystem	#Specific
Siderophore Pyoverdine	8
Alginate metabolism	4
Mannose Metabolism	2
Ammonia assimilation	1
Arginine and Ornithine Degradation	1
Campylobacter Iron Metabolism	1
Choline and Betaine Uptake and Betaine Biosynthesis	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Iron acquisition in Vibrio	1
RNA processing and degradation, bacterial	1
Transport of Iron	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Fructose and mannose metabolism
• Glycine, serine and threonine metabolism
• Lysine biosynthesis
• Nitrogen metabolism
• Caprolactam degradation
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Galactose metabolism
• Caffeine metabolism
• Glutamate metabolism
• Methionine metabolism
• Lysine degradation
• Arginine and proline metabolism
• Tyrosine metabolism
• Aminophosphonate metabolism
• Glutathione metabolism
• Starch and sucrose metabolism
• Streptomycin biosynthesis
• Lipopolysaccharide biosynthesis
• Sphingolipid metabolism
• 1,4-Dichlorobenzene degradation
• Nicotinate and nicotinamide metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate biosynthesis I	2	2	2
L-glutamine degradation I	1	1	1
L-glutamine degradation II	1	1	1
GDP-mannose biosynthesis	4	4	3
ammonia assimilation cycle III	3	3	2
β-1,4-D-mannosyl-N-acetyl-D-glucosamine degradation	3	2	2
UDP-α-D-glucose biosynthesis	2	2	1
glycine betaine biosynthesis I (Gram-negative bacteria)	2	2	1
glycine betaine biosynthesis II (Gram-positive bacteria)	2	2	1
choline degradation I	2	2	1
D-mannose degradation II	2	1	1
D-mannose degradation I	2	1	1
ferrichrome biosynthesis	2	1	1
colanic acid building blocks biosynthesis	11	9	4
choline-O-sulfate degradation	3	3	1
alginate biosynthesis I (algal)	3	3	1
trehalose degradation V	3	2	1
GDP-α-D-glucose biosynthesis	3	2	1
mannitol biosynthesis	3	1	1
L-glutamate and L-glutamine biosynthesis	7	6	2
alginate biosynthesis II (bacterial)	7	6	2
β-(1,4)-mannan degradation	7	2	2
pyoverdine I biosynthesis	11	7	3
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
starch degradation V	4	3	1
glycogen biosynthesis I (from ADP-D-Glucose)	4	3	1
sucrose degradation IV (sucrose phosphorylase)	4	3	1
starch degradation III	4	2	1
mannitol degradation II	4	2	1
ectoine degradation	4	1	1
superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis	14	7	3
dTDP-β-L-rhamnose biosynthesis	5	5	1
sucrose degradation II (sucrose synthase)	5	4	1
glucose and glucose-1-phosphate degradation	5	4	1
D-galactose degradation I (Leloir pathway)	5	3	1
ectoine biosynthesis	5	3	1
1,5-anhydrofructose degradation	5	2	1
ferrichrome A biosynthesis	5	2	1
glucosylglycerol biosynthesis	5	2	1
CDP-6-deoxy-D-gulose biosynthesis	5	1	1
glycogen degradation II	6	5	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	5	1
norspermidine biosynthesis	6	4	1
rhizobactin 1021 biosynthesis	7	1	1
sucrose biosynthesis II	8	6	1
L-citrulline biosynthesis	8	6	1
glycogen degradation I	8	6	1
superpathway of polyamine biosynthesis III	8	4	1
glycogen biosynthesis III (from α-maltose 1-phosphate)	8	3	1
sucrose biosynthesis I (from photosynthesis)	9	7	1
chitin biosynthesis	9	6	1
starch biosynthesis	10	5	1
O-antigen building blocks biosynthesis (E. coli)	11	10	1
mycobactin biosynthesis	11	3	1
baumannoferrin biosynthesis	11	1	1
superpathway of L-citrulline metabolism	12	8	1
streptomycin biosynthesis	18	2	1
superpathway of anaerobic sucrose degradation	19	15	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	5	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	1