Experiment set9IT029 for Pseudomonas putida KT2440

LB 0.1x with 55.5 mM D-Glucose with Supernatant: Acinetobacter

Group: supernatant
Media: LB (0.1x) + D-Glucose (55.5 mM) + Supernatant: Acinetobacter
Culturing: Putida_ML5_JBEI, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=250 rpm
By: Robin Herbert on 7/11/18
Media components: 1 g/L Tryptone, 0.5 g/L Yeast Extract, 0.5 g/L Sodium Chloride (final concentrations)

Specific Phenotypes

For 13 genes in this experiment

For supernatant D-Glucose in Pseudomonas putida KT2440

For supernatant D-Glucose across organisms

SEED Subsystems

Subsystem	#Specific
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	2
High affinity phosphate transporter and control of PHO regulon	2
Phosphate metabolism	2
ABC transporter alkylphosphonate (TC 3.A.1.9.1)	1
Ammonia assimilation	1
Glutamate dehydrogenases	1
Purine conversions	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Arginine and proline metabolism
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Glutamate metabolism
• Nitrogen metabolism
• Puromycin biosynthesis
• Caffeine metabolism
• Phenylalanine metabolism
• Tryptophan metabolism
• Cyanoamino acid metabolism
• Lipopolysaccharide biosynthesis
• Benzoate degradation via CoA ligation
• Styrene degradation
• Drug metabolism - other enzymes
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate biosynthesis I	2	2	2
L-glutamine degradation II	1	1	1
L-glutamate degradation I	1	1	1
L-glutamine degradation I	1	1	1
adenosine nucleotides degradation III	1	1	1
ammonia assimilation cycle III	3	3	2
indole-3-acetate biosynthesis III (bacteria)	2	2	1
acrylonitrile degradation I	2	1	1
indole-3-acetate biosynthesis IV (bacteria)	2	1	1
putrescine biosynthesis II	3	3	1
L-alanine degradation II (to D-lactate)	3	3	1
L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway)	3	3	1
urate conversion to allantoin I	3	2	1
L-arginine degradation X (arginine monooxygenase pathway)	3	2	1
superpathway of acrylonitrile degradation	3	1	1
ethene biosynthesis IV (engineered)	3	1	1
L-glutamate and L-glutamine biosynthesis	7	6	2
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	3	1
ureide biosynthesis	7	6	1
L-glutamate degradation XI (reductive Stickland reaction)	7	2	1
4-aminobutanoate degradation V	7	2	1
L-citrulline biosynthesis	8	7	1
superpathway of polyamine biosynthesis II	8	5	1
L-glutamate degradation V (via hydroxyglutarate)	10	5	1
superpathway of L-citrulline metabolism	12	9	1
indole-3-acetate biosynthesis II	12	5	1
superpathway of purines degradation in plants	18	13	1
methylaspartate cycle	19	10	1