Experiment set3S515 for Rhodopseudomonas palustris CGA009

OAcsForEtOH carbon source; monoculture

Group: monoculture
Media: MDC + OAcsForEtOH + Light intensity (12 µmol photons/m2/s from a 60-W incandescent light bulb)
Culturing: RPal_CGA009_ML8, tube, Anaerobic, at 30 (C)
By: Rpal_McKinlay on 9/8/24
Media components: 42.5 mM Disodium phosphate, 22 mM Potassium phosphate monobasic, 0.1 mM Sodium thiosulfate, 0.0146 mM 4-Aminobenzoic acid, 1 mM Magnesium sulfate, 0.1 mM Calcium chloride, UW concentrated base (0.02 g/L Nitrilotriacetic acid, 0.0289 g/L Magnesium sulfate, 0.00667 g/L Calcium chloride dihydrate, 1.85e-05 g/L ammonium molybdate tetrahydrate, 0.000698 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L EDTA, 0.001095 g/L Zinc sulfate heptahydrate, 0.000154 g/L Manganese (II) sulfate monohydrate, 3.92e-05 g/L Copper (II) sulfate pentahydrate, 2.5e-05 g/L Cobalt(II) nitrate hexahydrate, 1.77e-05 g/L sodium tetraborate decahydrate)

Specific Phenotypes

For 18 genes in this experiment

For monoculture OAcsForEtOH in Rhodopseudomonas palustris CGA009

For monoculture OAcsForEtOH across organisms

SEED Subsystems

Subsystem	#Specific
Murein hydrolase regulation and cell death	2
N-linked Glycosylation in Bacteria	2
Lacto-N-Biose I and Galacto-N-Biose Metabolic Pathway	1
Lactose and Galactose Uptake and Utilization	1
Rhamnose containing glycans	1
linker unit-arabinogalactan synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Galactose metabolism
• Fatty acid biosynthesis
• Tyrosine metabolism
• Benzoate degradation via hydroxylation
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Aminophosphonate metabolism
• High-mannose type N-glycan biosynthesis
• Glycerophospholipid metabolism
• Sphingolipid metabolism
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• Porphyrin and chlorophyll metabolism
• Limonene and pinene degradation
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
UDP-N-acetyl-D-galactosamine biosynthesis I	1	1	1
UDP-α-D-galactose biosynthesis	1	1	1
UDP-β-L-arabinose biosynthesis I (from UDP-α-D-xylose)	1	1	1
UDP-α-D-galactofuranose biosynthesis	2	1	1
D-galactose detoxification	3	1	1
UDP-sugars interconversion	9	5	2
D-galactose degradation I (Leloir pathway)	5	2	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	5	1
stachyose degradation	7	4	1
UDP-N-acetyl-D-galactosamine biosynthesis II	7	3	1
teichuronic acid biosynthesis (B. subtilis 168)	9	2	1
colanic acid building blocks biosynthesis	11	9	1
mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	18	1	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	1