Experiment set2IT069 for Pseudomonas fluorescens FW300-N2C3

D-Trehalose dihydrate carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + D-Trehalose dihydrate (20 mM), pH=7.2
Culturing: pseudo5_N2-C3_1_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 5.8 generations
By: Jayashree on 6/12/2014
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 16 genes in this experiment

For carbon source D-Trehalose dihydrate in Pseudomonas fluorescens FW300-N2C3

For carbon source D-Trehalose dihydrate across organisms

SEED Subsystems

Subsystem	#Specific
Flagellum	3
Proline, 4-hydroxyproline uptake and utilization	1
Rhamnose containing glycans	1
Ribosome biogenesis bacterial	1
Teichoic and lipoteichoic acids biosynthesis	1
Threonine degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose and glucuronate interconversions
• Lysine biosynthesis
• Arginine and proline metabolism
• Tryptophan metabolism
• Starch and sucrose metabolism
• Biosynthesis of siderophore group nonribosomal peptides
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
trehalose degradation II (cytosolic)	2	2	1
trehalose degradation VI (periplasmic)	2	2	1
trans-4-hydroxy-L-proline degradation II	4	4	1
D-galacturonate degradation I	5	3	1
chitin biosynthesis	9	6	1
Escherichia coli serotype O:8 O antigen biosynthesis	9	2	1
superpathway of hexuronide and hexuronate degradation	10	6	1
superpathway of microbial D-galacturonate and D-glucuronate degradation	31	17	1