Experiment set6IT069 for Pseudomonas putida KT2440

Lignin Monomers carbon source

Group: carbon source
Media: M9 minimal media_noCarbon + Lignin Monomers (28.6 vol%)
Culturing: Putida_ML5, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 4.9 generations
By: Mitch on 12/8/17
Media components: 2 mM Magnesium sulfate, 0.1 mM Calcium chloride, 12.8 g/L Sodium phosphate dibasic heptahydrate, 3 g/L Potassium phosphate monobasic, 0.5 g/L Sodium Chloride, 1 g/L Ammonium chloride

Specific Phenotypes

For 15 genes in this experiment

For carbon source Lignin Monomers in Pseudomonas putida KT2440

For carbon source Lignin Monomers across organisms

SEED Subsystems

Subsystem	#Specific
Aromatic amino acid degradation	1
DNA repair, bacterial MutL-MutS system	1
Flavodoxin	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Phosphate metabolism	1
Purine conversions	1
Rubrerythrin	1
Serine-glyoxylate cycle	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid metabolism
• Purine metabolism
• Puromycin biosynthesis
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• Glycerolipid metabolism
• Glycerophospholipid metabolism
• Drug metabolism - other enzymes

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
adenosine nucleotides degradation III	1	1	1
phospholipid remodeling (phosphatidate, yeast)	2	1	1
palmitoleate biosynthesis III (cyanobacteria)	2	1	1
oleate biosynthesis III (cyanobacteria)	3	2	1
CDP-4-dehydro-3,6-dideoxy-D-glucose biosynthesis	3	1	1
CDP-diacylglycerol biosynthesis I	4	4	1
CDP-diacylglycerol biosynthesis II	4	4	1
octane oxidation	5	4	1
phosphatidate biosynthesis (yeast)	5	3	1
CDP-diacylglycerol biosynthesis III	5	3	1
phosphatidylglycerol biosynthesis II	6	6	1
phosphatidylglycerol biosynthesis I	6	6	1
superpathway of phospholipid biosynthesis III (E. coli)	12	10	2
superpathway of stearidonate biosynthesis (cyanobacteria)	6	2	1
palmitoyl ethanolamide biosynthesis	6	2	1
diacylglycerol and triacylglycerol biosynthesis	7	3	1
stigma estolide biosynthesis	7	2	1
anandamide biosynthesis II	8	2	1
superpathway of CDP-glucose-derived O-antigen building blocks biosynthesis	8	1	1
anandamide biosynthesis I	12	3	1
superpathway of cardiolipin biosynthesis (bacteria)	13	9	1
superpathway of phospholipid biosynthesis II (plants)	28	10	2
plasmalogen biosynthesis I (aerobic)	16	1	1