Experiment set5IT017 for Pseudomonas fluorescens FW300-N2E3

D-Mannose carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + D-Mannose (20 mM), pH=7
Culturing: pseudo3_N2E3_ML2, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 12/17/2015
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)

Specific Phenotypes

For 15 genes in this experiment

For carbon source D-Mannose in Pseudomonas fluorescens FW300-N2E3

For carbon source D-Mannose across organisms

SEED Subsystems

Subsystem	#Specific
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization	7
Fructose utilization	3
Mannitol Utilization	3
Fructose and Mannose Inducible PTS	1
Sialic Acid Metabolism	1
Sucrose utilization	1
Sucrose utilization Shewanella	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
• Nucleotide sugars metabolism
• Aminosugars metabolism
• Glycolysis / Gluconeogenesis
• Ascorbate and aldarate metabolism
• Starch and sucrose metabolism
• Galactose metabolism
• C21-Steroid hormone metabolism
• Glycine, serine and threonine metabolism
• Bisphenol A degradation
• Polyketide sugar unit biosynthesis
• Linoleic acid metabolism
• Tetrachloroethene degradation
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• Retinol metabolism
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide products
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
mannitol cycle	5	3	2
D-sorbitol degradation I	3	2	1
sucrose degradation I (sucrose phosphotransferase)	3	2	1
N-acetylneuraminate and N-acetylmannosamine degradation II	3	1	1
sucrose degradation III (sucrose invertase)	4	4	1
D-fructuronate degradation	4	3	1
sucrose degradation IV (sucrose phosphorylase)	4	3	1
sucrose degradation VII (sucrose 3-dehydrogenase)	4	1	1
sucrose degradation II (sucrose synthase)	5	4	1
superpathway of β-D-glucuronosides degradation	7	4	1
glycolysis IV	10	8	1
superpathway of hexuronide and hexuronate degradation	10	4	1
heterolactic fermentation	18	16	1
superpathway of anaerobic sucrose degradation	19	15	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	18	1
superpathway of microbial D-galacturonate and D-glucuronate degradation	31	12	1