Experiment set1IT086 for Ralstonia solanacearum PSI07

M63_quarter_strength

Group: m63_quarter_strength
Media: M63_quarter_strength
Culturing: RalstoniaPSI07_ML2, tube, Aerobic, at 28 (C), shaken=200 rpm
By: Tiffany Lowe-Power on 8-Feb-19
Media components: 3.4 g/L Potassium phosphate monobasic, 0.5 g/L Ammonium Sulfate, 1.25e-05 g/L Iron (II) sulfate heptahydrate, 0.0517 mM Magnesium sulfate, 10 mM D-Glucose

Specific Phenotypes

For 6 genes in this experiment

SEED Subsystems

Subsystem	#Specific
Xylose utilization	2
D-galactarate, D-glucarate and D-glycerate catabolism	1
Entner-Doudoroff Pathway	1
Fermentations: Mixed acid	1
Pyruvate metabolism I: anaplerotic reactions, PEP	1
Stringent Response, (p)ppGpp metabolism	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose phosphate pathway
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Glycine, serine and threonine metabolism
• Arginine and proline metabolism
• Lipopolysaccharide biosynthesis
• Pyruvate metabolism
• Glyoxylate and dicarboxylate metabolism
• Carbon fixation in photosynthetic organisms
• Reductive carboxylate cycle (CO2 fixation)
• 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
CO2 fixation into oxaloacetate (anaplerotic)	2	2	1
ppGpp metabolism	6	6	2
L-serine biosynthesis II	4	1	1
L-ornithine biosynthesis I	5	5	1
formaldehyde assimilation I (serine pathway)	13	7	2
C4 photosynthetic carbon assimilation cycle, NADP-ME type	7	4	1
partial TCA cycle (obligate autotrophs)	8	8	1
nitrogen remobilization from senescing leaves	8	6	1
L-arginine biosynthesis I (via L-ornithine)	9	9	1
L-arginine biosynthesis III (via N-acetyl-L-citrulline)	9	8	1
photorespiration I	9	5	1
photorespiration III	9	5	1
L-arginine biosynthesis II (acetyl cycle)	10	10	1
C4 photosynthetic carbon assimilation cycle, NAD-ME type	11	8	1
C4 photosynthetic carbon assimilation cycle, PEPCK type	14	8	1
mixed acid fermentation	16	12	1
superpathway of arginine and polyamine biosynthesis	17	16	1
gluconeogenesis II (Methanobacterium thermoautotrophicum)	18	8	1
ethene biosynthesis V (engineered)	25	18	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	18	1