Experiment set12IT079 for Paraburkholderia graminis OAS925

caffeic acid 5 mM in soil extract

Group: soil extract
Media: Soil Extract + caffeic acid (5 mM) + Dimethyl Sulfoxide (1 vol%)
Culturing: Burkholderia_OAS925_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Albina on 15-Mar-22

Specific Phenotypes

For 3 genes in this experiment

For soil extract caffeic acid in Paraburkholderia graminis OAS925

For soil extract caffeic acid across organisms

SEED Subsystems

Subsystem	#Specific
Transport of Manganese	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Tyrosine metabolism
• Phenylalanine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Novobiocin biosynthesis
• Alkaloid biosynthesis II
• Biosynthesis of phenylpropanoids
• Methionine metabolism
• Lysine biosynthesis
• Histidine metabolism
• Alkaloid biosynthesis I
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
3-(4-hydroxyphenyl)pyruvate biosynthesis	1	1	1
L-phenylalanine biosynthesis III (cytosolic, plants)	2	2	1
L-tyrosine degradation II	2	1	1
atromentin biosynthesis	2	1	1
L-tyrosine biosynthesis I	3	3	1
L-phenylalanine biosynthesis I	3	3	1
ferulate degradation	3	3	1
umbelliferone biosynthesis	3	2	1
L-phenylalanine degradation II (anaerobic)	3	1	1
L-tyrosine degradation IV (to 4-methylphenol)	3	1	1
L-phenylalanine degradation III	4	2	1
L-tyrosine degradation III	4	2	1
xanthohumol biosynthesis	4	1	1
naringenin biosynthesis (engineered)	4	1	1
L-tyrosine degradation I	5	5	1
4-hydroxybenzoate biosynthesis III (plants)	5	4	1
superpathway of plastoquinol biosynthesis	5	2	1
4-coumarate degradation (aerobic)	5	2	1
rosmarinic acid biosynthesis I	10	2	2
L-tyrosine degradation V (reductive Stickland reaction)	5	1	1
L-phenylalanine degradation VI (reductive Stickland reaction)	5	1	1
flavonoid biosynthesis	5	1	1
chlorogenic acid biosynthesis II	5	1	1
4-hydroxybenzoate biosynthesis I (eukaryotes)	5	1	1
phaselate biosynthesis	5	1	1
6-gingerol analog biosynthesis (engineered)	6	3	1
4-coumarate degradation (anaerobic)	6	1	1
superpathway of rosmarinic acid biosynthesis	14	2	2
chlorogenic acid biosynthesis I	8	1	1
superpathway of aromatic amino acid biosynthesis	18	18	2
L-phenylalanine degradation IV (mammalian, via side chain)	9	3	1
avenanthramide biosynthesis	9	1	1
superpathway of L-tyrosine biosynthesis	10	10	1
superpathway of L-phenylalanine biosynthesis	10	10	1
L-histidine biosynthesis	10	10	1
curcuminoid biosynthesis	10	1	1
(S)-reticuline biosynthesis I	11	1	1
tropane alkaloids biosynthesis	11	1	1
coumarins biosynthesis (engineered)	13	5	1
flavonoid di-C-glucosylation	15	3	1
monolignol biosynthesis	15	1	1
superpathway of hyoscyamine (atropine) and scopolamine biosynthesis	16	3	1
suberin monomers biosynthesis	20	5	1
anaerobic aromatic compound degradation (Thauera aromatica)	27	5	1
superpathway of chorismate metabolism	59	42	2
superpathway of histidine, purine, and pyrimidine biosynthesis	46	44	1