Experiment set20IT048 for Pseudomonas simiae WCS417

Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X

Group: supernatant
Media: R2A + supernatant from Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered (0.8 X)
Culturing: fluoroDangl_ML3, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Cat_Manuel on 1-Feb-22
Media components: 0.5 g/L Bacto Peptone, 0.5 g/L casamino acids, 0.5 g/L Yeast Extract, 0.5 g/L D-Glucose, 0.5 g/L Starch, 0.3 g/L Potassium phosphate dibasic, 0.05 g/L Magnesium Sulfate Heptahydrate, 0.3 g/L Sodium pyruvate

Specific Phenotypes

For 25 genes in this experiment

For supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered in Pseudomonas simiae WCS417

For supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered across organisms

SEED Subsystems

Subsystem	#Specific
Campylobacter Iron Metabolism	2
Cobalt-zinc-cadmium resistance	2
Iron acquisition in Vibrio	2
Lysine degradation	2
Transport of Iron	2
Pyruvate Alanine Serine Interconversions	1
Rhamnose containing glycans	1
Siderophore Pyoverdine	1
Ton and Tol transport systems	1
dTDP-rhamnose synthesis	1
linker unit-arabinogalactan synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Alanine and aspartate metabolism
• beta-Alanine metabolism
• Propanoate metabolism
• Puromycin biosynthesis
• Glutamate metabolism
• Methionine metabolism
• Valine, leucine and isoleucine degradation
• Lysine biosynthesis
• Lysine degradation
• Arginine and proline metabolism
• Aminophosphonate metabolism
• Nucleotide sugars metabolism
• Streptomycin biosynthesis
• Polyketide sugar unit biosynthesis
• Lipopolysaccharide biosynthesis
• Butanoate metabolism
• Porphyrin and chlorophyll metabolism
• Caprolactam degradation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
β-alanine degradation II	2	2	1
putrescine degradation V	2	2	1
4-aminobutanoate degradation I	2	2	1
4-aminobutanoate degradation III	2	2	1
4-aminobutanoate degradation II	2	1	1
benzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	3	1
adeninyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	3	1
5-methoxy-6-methylbenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	3	1
5-methylbenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	3	1
adenosylcobalamin biosynthesis from adenosylcobinamide-GDP I	3	3	1
5-methoxybenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	3	1
2-methyladeninyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	3	1
5-hydroxybenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	3	1
phenyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	2	1
superpathway of 4-aminobutanoate degradation	3	2	1
4-methylphenyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP	3	2	1
GABA shunt II	4	3	1
adenosylcobalamin biosynthesis from adenosylcobinamide-GDP II	4	2	1
GABA shunt I	4	2	1
dTDP-β-L-rhamnose biosynthesis	5	5	1
β-alanine biosynthesis II	6	5	1
4-aminobutanoate degradation V	7	2	1
superpathway of adenosylcobalamin salvage from cobinamide I	8	8	1
superpathway of adenosylcobalamin salvage from cobinamide II	9	8	1
superpathway of coenzyme A biosynthesis II (plants)	10	9	1
O-antigen building blocks biosynthesis (E. coli)	11	10	1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	8	1
superpathway of L-arginine and L-ornithine degradation	13	10	1
nicotine degradation I (pyridine pathway)	17	4	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	5	1
adenosylcobalamin biosynthesis II (aerobic)	33	31	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	1
adenosylcobalamin biosynthesis I (anaerobic)	36	28	1