Experiment set8IT074 for Herbaspirillum seropedicae SmR1

Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, non-filtered; 1X

Group: supernatant
Media: + supernatant from Trichoderma atroviride IMI grown in Vogels_fungal_media, non-filtered (1 X)
Culturing: HerbieS_ML4a, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Cat_Manuel_Trenton on 3/3/21

Specific Phenotypes

For 4 genes in this experiment

For supernatant Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, non-filtered in Herbaspirillum seropedicae SmR1

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

SEED Subsystems

Subsystem	#Specific
Methionine Biosynthesis	2
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
MLST	1
NAD and NADP cofactor biosynthesis global	1
NAD regulation	1
Redox-dependent regulation of nucleus processes	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Methionine metabolism
• Glycerolipid metabolism
• Nicotinate and nicotinamide metabolism
• 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
S-adenosyl-L-methionine salvage II	3	3	1
glycerol degradation I	3	2	1
L-methionine biosynthesis III	4	4	1
S-adenosyl-L-methionine salvage I	4	3	1
glycerol and glycerophosphodiester degradation	4	3	1
NAD salvage pathway V (PNC V cycle)	5	4	1
L-methionine biosynthesis I	5	3	1
seleno-amino acid biosynthesis (plants)	5	3	1
L-methionine biosynthesis II	6	5	1
NAD salvage pathway I (PNC VI cycle)	7	6	1
superpathway of L-homoserine and L-methionine biosynthesis	8	6	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	7	1
superpathway of L-methionine biosynthesis (transsulfuration)	9	7	1
NAD salvage (plants)	11	6	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	11	1
superpathway of NAD biosynthesis in eukaryotes	14	7	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	16	1
superpathway of seleno-compound metabolism	19	6	1
aspartate superpathway	25	23	1