Experiment set4IT016 for Rhodanobacter denitrificans FW104-10B01

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R2A with Cesium chloride 3.90625 mM

Group: stress
Media: R2A + Cesium chloride (3.90625 mM)
Culturing: rhodanobacter_10B01_ML12, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 28 (C), shaken=700 rpm
By: Hans Carlson and Trenton Owens on 06/22/2021
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
Growth plate: 3 B9

Specific Phenotypes

For 26 genes in this experiment

For stress Cesium chloride in Rhodanobacter denitrificans FW104-10B01

For stress Cesium chloride across organisms

SEED Subsystems

Subsystem #Specific
Isoleucine degradation 2
Queuosine-Archaeosine Biosynthesis 2
Valine degradation 2
ATP-dependent RNA helicases, bacterial 1
Acetyl-CoA fermentation to Butyrate 1
Alanine biosynthesis 1
Anaerobic respiratory reductases 1
Biogenesis of cytochrome c oxidases 1
Branched-Chain Amino Acid Biosynthesis 1
Butanol Biosynthesis 1
Conserved gene cluster associated with Met-tRNA formyltransferase 1
Folate Biosynthesis 1
Heat shock dnaK gene cluster extended 1
Heme and Siroheme Biosynthesis 1
Isobutyryl-CoA to Propionyl-CoA Module 1
Leucine Biosynthesis 1
Leucine Degradation and HMG-CoA Metabolism 1
Pyruvate Alanine Serine Interconversions 1
Ribosomal protein S12p Asp methylthiotransferase 1
Ribosome biogenesis bacterial 1
Twin-arginine translocation system 1
YcfH 1
dTDP-rhamnose synthesis 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
L-alanine biosynthesis I 2 2 1
pseudouridine degradation 2 1 1
L-phenylalanine biosynthesis I 3 3 1
L-isoleucine degradation II 3 2 1
L-leucine degradation III 3 2 1
L-valine degradation II 3 2 1
L-isoleucine biosynthesis V 3 2 1
L-valine degradation III (oxidative Stickland reaction) 3 1 1
L-phenylalanine degradation II (anaerobic) 3 1 1
L-isoleucine degradation III (oxidative Stickland reaction) 3 1 1
L-leucine degradation V (oxidative Stickland reaction) 3 1 1
2-chloroacrylate degradation I 3 1 1
L-valine biosynthesis 4 4 1
superpathway of L-alanine biosynthesis 4 4 1
L-phenylalanine degradation III 4 2 1
photosynthesis light reactions 4 1 1
NADPH to cytochrome c oxidase via plastocyanin (thylakoid membrane) 4 1 1
dTDP-3-acetamido-α-D-fucose biosynthesis 5 4 1
L-leucine degradation IV (reductive Stickland reaction) 5 1 1
L-phenylalanine degradation VI (reductive Stickland reaction) 5 1 1
superpathway of branched chain amino acid biosynthesis 17 17 3
L-leucine biosynthesis 6 6 1
L-leucine degradation I 6 5 1
L-isoleucine biosynthesis IV 6 4 1
L-isoleucine degradation I 6 4 1
dTDP-α-D-ravidosamine and dTDP-4-acetyl-α-D-ravidosamine biosynthesis 6 4 1
pyruvate fermentation to butanol II (engineered) 6 4 1
superpathway of photosynthetic hydrogen production 6 3 1
L-isoleucine biosynthesis I (from threonine) 7 7 1
L-isoleucine biosynthesis III 7 4 1
L-isoleucine biosynthesis II 8 6 1
L-valine degradation I 8 3 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 2 1
superpathway of L-phenylalanine biosynthesis 10 10 1
pyruvate fermentation to hexanol (engineered) 11 7 1
superpathway of L-isoleucine biosynthesis I 13 13 1
1-butanol autotrophic biosynthesis (engineered) 27 18 2
oxygenic photosynthesis 17 10 1
superpathway of aromatic amino acid biosynthesis 18 18 1
superpathway of L-threonine metabolism 18 13 1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis 19 7 1
ethene biosynthesis V (engineered) 25 17 1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered) 26 17 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 1 1
even iso-branched-chain fatty acid biosynthesis 34 24 1
anteiso-branched-chain fatty acid biosynthesis 34 24 1
odd iso-branched-chain fatty acid biosynthesis 34 24 1
oleate β-oxidation 35 32 1
superpathway of chorismate metabolism 59 40 1