Experiment set36S437 for Burkholderia phytofirmans PsJN

Rhizosphere from sorghum RTx_430 plants, grown 2 months, low phosphate; Rep 1

Group: in planta
Media: MS (0.5x) + Rhizosphere from sorghum RTx_430 plants, grown 2 months, low phosphate; Rep 1
Culturing: BFirm_ML3a
By: Robin on 1/19/24

Specific Phenotypes

For 33 genes in this experiment

For in planta Rhizosphere from sorghum RTx_430 plants, grown 2 months, low phosphate; Rep 1 in Burkholderia phytofirmans PsJN

For in planta Rhizosphere from sorghum RTx_430 plants, grown 2 months, low phosphate; Rep 1 across organisms

SEED Subsystems

Subsystem	#Specific
DNA repair, UvrABC system	2
Formate hydrogenase	2
Homogentisate pathway of aromatic compound degradation	2
Bacterial Chemotaxis	1
Choline and Betaine Uptake and Betaine Biosynthesis	1
D-ribose utilization	1
Glutathione: Biosynthesis and gamma-glutamyl cycle	1
Malonate decarboxylase	1
Maltose and Maltodextrin Utilization	1
Molybdenum cofactor biosynthesis	1
Pyruvate Alanine Serine Interconversions	1
Respiratory dehydrogenases 1	1
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization	1
Threonine degradation	1
Translation elongation factor G family	1
Trehalose Biosynthesis	1
Type IV pilus	1
Ubiquinone Biosynthesis	1
Universal GTPases	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Oxidative phosphorylation
• Pentose and glucuronate interconversions
• Fructose and mannose metabolism
• Ubiquinone and menaquinone biosynthesis
• Glycine, serine and threonine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Glutathione metabolism
• Starch and sucrose metabolism
• Naphthalene and anthracene degradation
• Glyoxylate and dicarboxylate metabolism
• Methane metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Nitrogen metabolism
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
bis(guanylyl molybdenum cofactor) biosynthesis	2	2	2
bis(guanylyl tungstenpterin) cofactor biosynthesis	1	1	1
guanylyl molybdenum cofactor biosynthesis	1	1	1
glutathione biosynthesis	2	2	1
D-arabinitol degradation I	2	2	1
homoglutathione biosynthesis	2	1	1
ophthalmate biosynthesis	3	2	1
malonate degradation I (biotin-independent)	3	2	1
creatinine degradation I	4	1	1
malonate degradation II (biotin-dependent)	4	1	1
creatinine degradation II	5	2	1
γ-glutamyl cycle	6	5	1
ergothioneine biosynthesis I (bacteria)	7	4	1
glycine betaine degradation I	8	6	1
superpathway of pentose and pentitol degradation	42	22	1