Experiment set3H36 for Shewanella amazonensis SB2B

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L-Aspartic Acid nitrogen source

Group: nitrogen source
Media: ShewMM_noNitrogen + L-Aspartic Acid (6 mM), pH=7
Culturing: SB2B_ML5, 48 well microplate; Tecan Infinite F200, Aerobic, at 37 (C), shaken=orbital
By: Jake on 4/24/2013
Media components: 1.75 g/L Sodium Chloride, 0.61 g/L Magnesium chloride hexahydrate, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 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)
Growth plate: 511 D3, D4

Specific Phenotypes

For 9 genes in this experiment

For nitrogen source L-Aspartic Acid in Shewanella amazonensis SB2B

For nitrogen source L-Aspartic Acid across organisms

SEED Subsystems

Subsystem #Specific
Carboxysome 1
Cyanate hydrolysis 1
Pentose phosphate pathway 1
Potassium homeostasis 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 1
ZZ gjo need homes 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
CO2 fixation into oxaloacetate (anaplerotic) 2 2 1
pentose phosphate pathway (oxidative branch) I 3 3 1
cyanate degradation 3 2 1
C4 photosynthetic carbon assimilation cycle, NADP-ME type 7 4 1
pentose phosphate pathway 8 8 1
C4 photosynthetic carbon assimilation cycle, NAD-ME type 11 8 1
3-hydroxypropanoate cycle 13 3 1
glyoxylate assimilation 13 2 1
C4 photosynthetic carbon assimilation cycle, PEPCK type 14 9 1
superpathway of glucose and xylose degradation 17 14 1
gluconeogenesis II (Methanobacterium thermoautotrophicum) 18 8 1
3-hydroxypropanoate/4-hydroxybutanate cycle 18 6 1
superpathway of the 3-hydroxypropanoate cycle 18 3 1
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 22 1