Experiment set7S259 for Pseudomonas sp. RS175

Compare to:

Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct

Group: in planta
Media: + Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct
Culturing: Pseudomonas_RS175_ML2, tube
By: Andrew Frank on 10/21/24

Specific Phenotypes

For 41 genes in this experiment

For in planta Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct in Pseudomonas sp. RS175

For in planta Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct across organisms

SEED Subsystems

Subsystem #Specific
Phosphate metabolism 3
Bacterial Chemotaxis 2
Bacterial hemoglobins 2
Oxidative stress 2
Trehalose Biosynthesis 2
Alginate metabolism 1
Campylobacter Iron Metabolism 1
Carboxysome 1
Copper homeostasis: copper tolerance 1
Cyanate hydrolysis 1
DNA-binding regulatory proteins, strays 1
De Novo Pyrimidine Synthesis 1
Denitrification 1
Flagellar motility 1
Glycogen metabolism 1
High affinity phosphate transporter and control of PHO regulon 1
LMPTP YwlE cluster 1
Maltose and Maltodextrin Utilization 1
Multidrug Resistance Efflux Pumps 1
Nitrosative stress 1
Propionate-CoA to Succinate Module 1
Serine-glyoxylate cycle 1
TCA Cycle 1
Thioredoxin-disulfide reductase 1
Ton and Tol transport systems 1
Transcription initiation, bacterial sigma factors 1
Triacylglycerol metabolism 1
Two-component regulatory systems in Campylobacter 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
pyrimidine nucleobases salvage I 1 1 1
trehalose biosynthesis IV 1 1 1
di-trans,poly-cis-undecaprenyl phosphate biosynthesis 2 2 1
CO2 fixation into oxaloacetate (anaplerotic) 2 2 1
pyrimidine nucleobases salvage II 2 2 1
trehalose biosynthesis V 3 3 1
cyanate degradation 3 3 1
glyoxylate cycle 6 5 2
partial TCA cycle (obligate autotrophs) 8 8 2
superpathway of pyrimidine nucleobases salvage 4 4 1
starch degradation V 4 3 1
nitrogen remobilization from senescing leaves 8 5 2
phospholipid remodeling (phosphatidylethanolamine, yeast) 4 2 1
TCA cycle VII (acetate-producers) 9 7 2
TCA cycle V (2-oxoglutarate synthase) 9 7 2
TCA cycle VI (Helicobacter) 9 7 2
TCA cycle II (plants and fungi) 9 6 2
TCA cycle IV (2-oxoglutarate decarboxylase) 9 6 2
polyisoprenoid biosynthesis (E. coli) 5 5 1
TCA cycle I (prokaryotic) 10 8 2
TCA cycle III (animals) 10 6 2
reductive TCA cycle I 11 6 2
superpathway of glyoxylate bypass and TCA 12 10 2
reductive TCA cycle II 12 4 2
superpathway of glyoxylate cycle and fatty acid degradation 14 11 2
C4 photosynthetic carbon assimilation cycle, NADP-ME type 7 4 1
alginate degradation 7 2 1
glycogen degradation I 8 7 1
mixed acid fermentation 16 12 2
sucrose biosynthesis II 8 6 1
glycogen biosynthesis III (from α-maltose 1-phosphate) 8 3 1
starch degradation II 9 1 1
methylaspartate cycle 19 9 2
superpathway of pyrimidine ribonucleosides salvage 10 6 1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle 22 17 2
C4 photosynthetic carbon assimilation cycle, NAD-ME type 11 6 1
ethene biosynthesis V (engineered) 25 19 2
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass 26 21 2
3-hydroxypropanoate cycle 13 5 1
glyoxylate assimilation 13 4 1
C4 photosynthetic carbon assimilation cycle, PEPCK type 14 9 1
gluconeogenesis II (Methanobacterium thermoautotrophicum) 18 9 1
3-hydroxypropanoate/4-hydroxybutanate cycle 18 8 1
superpathway of the 3-hydroxypropanoate cycle 18 5 1
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 20 1