Experiment set2IT066 for Herbaspirillum seropedicae SmR1
LB with Nickel (II) chloride hexahydrate 0.6 mM
Group: stressMedia: LB + Nickel (II) chloride hexahydrate (0.6 mM)
Culturing: HerbieS_ML4, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
Growth: about 3.9 generations
By: Mark on 3/10/2016
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: Herbie_SP2 A2
Specific Phenotypes
For 11 genes in this experiment
For stress Nickel (II) chloride hexahydrate in Herbaspirillum seropedicae SmR1
For stress Nickel (II) chloride hexahydrate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Copper homeostasis: copper tolerance | 2 |
| Phosphate metabolism | 2 |
| Bacterial Cell Division | 1 |
| Campylobacter Iron Metabolism | 1 |
| DNA repair, UvrABC system | 1 |
| ZZ gjo need homes | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Ubiquinone and menaquinone biosynthesis
- Histidine metabolism
- Tyrosine metabolism
- Benzoate degradation via hydroxylation
- Fluorobenzoate degradation
- Tryptophan metabolism
- Benzoxazinone biosynthesis
- Naphthalene and anthracene degradation
- Benzoate degradation via CoA ligation
- Porphyrin and chlorophyll metabolism
- Carotenoid biosynthesis - General
- 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 |
|---|---|---|---|
| benzoate degradation I (aerobic) | 2 | 2 | 1 |
| Ac/N-end rule pathway | 21 | 6 | 6 |
| alcaligin biosynthesis | 5 | 1 | 1 |
| meta cleavage pathway of aromatic compounds | 10 | 4 | 1 |
| toluene degradation IV (aerobic) (via catechol) | 13 | 5 | 1 |
| Arg/N-end rule pathway (eukaryotic) | 14 | 8 | 1 |
| mandelate degradation to acetyl-CoA | 18 | 13 | 1 |
| superpathway of aerobic toluene degradation | 30 | 12 | 1 |
| superpathway of aromatic compound degradation via 3-oxoadipate | 35 | 21 | 1 |
| superpathway of aromatic compound degradation via 2-hydroxypentadienoate | 42 | 14 | 1 |