Experiment set10IT090 for Marinobacter adhaerens HP15

Control growth in Pro99_seawater

Group: pro99_seawater
Media: Pro99_seawater + Light intensity (20 μE)
Culturing: Marino_ML2_MIT, bottle_100mL, Aerobic, at 24 (C), shaken=0 rpm
By: Sean Kearney on 1-Mar-20
Media components: 50 uM Sodium phosphate monobasic monohydrate, 800 uM Ammonium chloride, 1.17 uM EDTA (disodium salt), 1.18 uM Ferric chloride, 0.008 uM Zinc sulfate heptahydrate, 0.005 uM Cobalt chloride hexahydrate, 0.09 uM Manganese (II) chloride tetrahydrate, 0.003 uM Sodium Molybdate Dihydrate, 0.01 uM Sodium selenite pentahydrate, 0.01 uM Nickel (II) chloride hexahydrate, 1 X Filtered Seawater

Specific Phenotypes

For 8 genes in this experiment

For pro99_seawater Light intensity in Marinobacter adhaerens HP15

For pro99_seawater Light intensity across organisms

SEED Subsystems

Subsystem	#Specific
Cysteine Biosynthesis	1
Entner-Doudoroff Pathway	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Methylglyoxal Metabolism	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	1
Respiratory dehydrogenases 1	1
Type IV pilus	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glycolysis / Gluconeogenesis
• Fatty acid metabolism
• Pyruvate metabolism
• 3-Chloroacrylic acid degradation
• Butanoate metabolism
• Ascorbate and aldarate metabolism
• Urea cycle and metabolism of amino groups
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Lysine degradation
• Arginine and proline metabolism
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• beta-Alanine metabolism
• Glycerolipid metabolism
• 1- and 2-Methylnaphthalene degradation
• 1,2-Dichloroethane degradation
• Propanoate metabolism
• Retinol metabolism
• Limonene and pinene degradation
• Metabolism of xenobiotics by cytochrome P450
• Drug metabolism - cytochrome P450

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
ethanol degradation I	2	2	2
acetaldehyde biosynthesis I	1	1	1
pyruvate fermentation to ethanol III	3	3	2
ethanol degradation II	3	3	2
pyruvate fermentation to ethanol I	3	2	2
L-threonine degradation IV	2	2	1
phytol degradation	4	3	2
phenylethylamine degradation II	2	1	1
phenylethylamine degradation I	2	1	1
putrescine degradation V	2	1	1
phenylethanol degradation	2	1	1
putrescine degradation I	2	1	1
ethylene glycol degradation	2	1	1
pyruvate fermentation to ethanol II	2	1	1
ethanolamine utilization	5	5	2
acetylene degradation (anaerobic)	5	4	2
2-hydroxypenta-2,4-dienoate degradation	3	3	1
ethanol degradation IV	3	3	1
L-isoleucine degradation II	3	2	1
putrescine degradation IV	3	2	1
hypotaurine degradation	3	2	1
L-valine degradation II	3	2	1
L-leucine degradation III	3	2	1
L-phenylalanine degradation II (anaerobic)	3	2	1
ethanol degradation III	3	2	1
2-deoxy-D-ribose degradation I	3	1	1
histamine degradation	3	1	1
2-aminoethylphosphonate degradation I	3	1	1
styrene degradation	3	1	1
sulfoacetaldehyde degradation IV	3	1	1
2-deoxy-α-D-ribose 1-phosphate degradation	3	1	1
L-methionine degradation III	3	1	1
noradrenaline and adrenaline degradation	13	4	4
serotonin degradation	7	3	2
L-phenylalanine degradation III	4	2	1
fatty acid α-oxidation I (plants)	4	2	1
L-tyrosine degradation III	4	2	1
L-tryptophan degradation X (mammalian, via tryptamine)	4	1	1
salidroside biosynthesis	4	1	1
D-arabinose degradation II	4	1	1
putrescine degradation III	4	1	1
superpathway of fermentation (Chlamydomonas reinhardtii)	9	5	2
catechol degradation I (meta-cleavage pathway)	5	5	1
octane oxidation	5	5	1
pyruvate fermentation to isobutanol (engineered)	5	4	1
(S)-propane-1,2-diol degradation	5	3	1
sphingosine and sphingosine-1-phosphate metabolism	10	4	2
mitochondrial NADPH production (yeast)	5	2	1
phenylethanol biosynthesis	5	1	1
dopamine degradation	5	1	1
3-methyl-branched fatty acid α-oxidation	6	3	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	2	1
triethylamine degradation	6	1	1
alkane oxidation	6	1	1
superpathway of Clostridium acetobutylicum solventogenic fermentation	13	6	2
catechol degradation II (meta-cleavage pathway)	7	6	1
3-methylbutanol biosynthesis (engineered)	7	6	1
toluene degradation V (aerobic) (via toluene-cis-diol)	7	5	1
toluene degradation I (aerobic) (via o-cresol)	7	5	1
superpathway of glycol metabolism and degradation	7	4	1
ceramide degradation by α-oxidation	7	2	1
superpathway of purine deoxyribonucleosides degradation	7	1	1
limonene degradation IV (anaerobic)	7	1	1
mixed acid fermentation	16	11	2
superpathway of ornithine degradation	8	5	1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast)	8	4	1
3-phenylpropanoate and 3-(3-hydroxyphenyl)propanoate degradation	8	3	1
p-cumate degradation	8	3	1
ceramide and sphingolipid recycling and degradation (yeast)	16	4	2
butanol and isobutanol biosynthesis (engineered)	8	2	1
aromatic biogenic amine degradation (bacteria)	8	1	1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	8	2
heterolactic fermentation	18	14	2
Entner-Doudoroff pathway II (non-phosphorylative)	9	5	1
L-phenylalanine degradation IV (mammalian, via side chain)	9	3	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	15	2
meta cleavage pathway of aromatic compounds	10	9	1
superpathway of phenylethylamine degradation	11	10	1
superpathway of N-acetylneuraminate degradation	22	13	2
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	5	1
p-cymene degradation	11	3	1
L-tryptophan degradation IX	12	6	1
L-tryptophan degradation XII (Geobacillus)	12	6	1
naphthalene degradation to acetyl-CoA	12	5	1
toluene degradation IV (aerobic) (via catechol)	13	9	1
superpathway of L-arginine and L-ornithine degradation	13	7	1
L-tryptophan degradation V (side chain pathway)	13	1	1
superpathway of L-threonine metabolism	18	12	1
mandelate degradation to acetyl-CoA	18	9	1
superpathway of anaerobic sucrose degradation	19	14	1
anaerobic aromatic compound degradation (Thauera aromatica)	27	4	1
superpathway of aerobic toluene degradation	30	13	1
superpathway of aromatic compound degradation via 3-oxoadipate	35	10	1
superpathway of aromatic compound degradation via 2-hydroxypentadienoate	42	13	1
superpathway of pentose and pentitol degradation	42	4	1