Experiment set1IT046 for Bosea sp. OAE506
D-Tagatose carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + D-(-)-tagatose (20 mM) + 0.1X 20AA_mix
Culturing: Bosea_OAE506_ML2, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 30 (C), shaken=700 rpm
By: Marta on 10-Apr-21
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)
20AA_mix 0.1x includes: 0.05 mM L-Arginine, 0.05 mM L-Histidine, 0.05 mM L-Lysine, 0.05 mM L-Aspartic Acid, 0.05 mM L-Glutamic acid monopotassium salt monohydrate, 0.05 mM L-Serine, 0.05 mM L-Threonine, 0.05 mM L-Asparagine, 0.05 mM L-Glutamine, 0.05 mM L-Cysteine hydrochloride monohydrate, 0.05 mM Glycine, 0.05 mM L-Proline, 0.05 mM L-Alanine, 0.05 mM L-Valine, 0.05 mM L-Isoleucine, 0.05 mM L-Leucine, 0.05 mM L-Methionine, 0.05 mM L-Phenylalanine, 0.05 mM L-tyrosine disodium salt, 0.05 mM L-Tryptophan (final concentrations)
Specific Phenotypes
For 3 genes in this experiment
For carbon source D-(-)-tagatose in Bosea sp. OAE506
For carbon source D-(-)-tagatose across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| ABC transporter dipeptide (TC 3.A.1.5.2) | 1 |
| ABC transporter oligopeptide (TC 3.A.1.5.1) | 1 |
| Auxin degradation | 1 |
| Oxidative stress | 1 |
| Photorespiration (oxidative C2 cycle) | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Methane metabolism
- Phenylalanine metabolism
- Tryptophan metabolism
- Phenylpropanoid biosynthesis
- Biosynthesis of phenylpropanoids
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| betanidin degradation | 1 | 1 | 1 |
| superoxide radicals degradation | 2 | 2 | 1 |
| baicalein degradation (hydrogen peroxide detoxification) | 2 | 1 | 1 |
| methanol oxidation to formaldehyde IV | 2 | 1 | 1 |
| ethanol degradation IV | 3 | 3 | 1 |
| reactive oxygen species degradation | 4 | 4 | 1 |
| xanthommatin biosynthesis | 4 | 1 | 1 |
| luteolin triglucuronide degradation | 4 | 1 | 1 |
| sesamin biosynthesis | 8 | 1 | 1 |
| matairesinol biosynthesis | 10 | 1 | 1 |
| justicidin B biosynthesis | 10 | 1 | 1 |