Experiment set10IT093 for Marinobacter adhaerens HP15

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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 34 genes in this experiment

For pro99_seawater Light intensity in Marinobacter adhaerens HP15

For pro99_seawater Light intensity across organisms

SEED Subsystems

Subsystem #Specific
Rhamnose containing glycans 3
Widespread colonization island 3
dTDP-rhamnose synthesis 3
linker unit-arabinogalactan synthesis 3
Colanic acid biosynthesis 2
Bacterial Chemotaxis 1
Capsular heptose biosynthesis 1
Cyanophycin Metabolism 1
Entner-Doudoroff Pathway 1
Flagellar motility 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Lipid A-Ara4N pathway ( Polymyxin resistance ) 1
Methicillin resistance in Staphylococci 1
Methylglyoxal Metabolism 1
N-linked Glycosylation in Bacteria 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 1
Respiratory dehydrogenases 1 1
SigmaB stress responce regulation 1
Teichoic and lipoteichoic acids biosynthesis 1
Teichuronic acid biosynthesis 1
Two-component regulatory systems in Campylobacter 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:

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
L-asparagine biosynthesis I 1 1 1
UDP-α-D-glucuronate biosynthesis (from UDP-glucose) 1 1 1
L-glutamine degradation 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
dTDP-β-L-rhamnose biosynthesis 5 5 3
dTDP-4-O-demethyl-β-L-noviose biosynthesis 5 3 3
L-threonine degradation IV 2 2 1
L-glutamate biosynthesis I 2 2 1
UDP-α-D-xylose biosynthesis 2 2 1
UDP-N-acetyl-α-D-galactosaminuronate biosynthesis 2 2 1
phytol degradation 4 3 2
dTDP-sibirosamine biosynthesis 6 3 3
dTDP-L-daunosamine biosynthesis 6 3 3
dTDP-N-acetylthomosamine biosynthesis 4 2 2
dTDP-β-D-fucofuranose biosynthesis 4 2 2
dTDP-N-acetylviosamine biosynthesis 4 2 2
dTDP-6-deoxy-α-D-allose biosynthesis 4 2 2
superpathway of L-asparagine biosynthesis 2 1 1
phenylethylamine degradation I 2 1 1
putrescine degradation V 2 1 1
ethylene glycol degradation 2 1 1
putrescine degradation I 2 1 1
pyruvate fermentation to ethanol II 2 1 1
phenylethylamine degradation II 2 1 1
phenylethanol degradation 2 1 1
ethanolamine utilization 5 5 2
acetylene degradation (anaerobic) 5 4 2
dTDP-3-acetamido-3,6-dideoxy-α-D-glucose biosynthesis 5 2 2
dTDP-3-acetamido-α-D-fucose biosynthesis 5 2 2
dTDP-α-D-mycaminose biosynthesis 5 2 2
ethanol degradation IV 3 3 1
2-hydroxypenta-2,4-dienoate degradation 3 3 1
ammonia assimilation cycle III 3 3 1
ethanol degradation III 3 2 1
L-phenylalanine degradation II (anaerobic) 3 2 1
putrescine degradation IV 3 2 1
L-leucine degradation III 3 2 1
L-valine degradation II 3 2 1
hypotaurine degradation 3 2 1
L-isoleucine degradation II 3 2 1
dTDP-D-desosamine biosynthesis 6 2 2
dTDP-α-D-ravidosamine and dTDP-4-acetyl-α-D-ravidosamine biosynthesis 6 2 2
histamine degradation 3 1 1
2-deoxy-D-ribose degradation I 3 1 1
L-methionine degradation III 3 1 1
2-deoxy-α-D-ribose 1-phosphate degradation 3 1 1
sulfoacetaldehyde degradation IV 3 1 1
2-aminoethylphosphonate degradation I 3 1 1
styrene degradation 3 1 1
noradrenaline and adrenaline degradation 13 4 4
superpathway of enterobacterial common antigen biosynthesis 10 4 3
serotonin degradation 7 3 2
dTDP-β-L-olivose biosynthesis 7 3 2
dTDP-β-L-digitoxose biosynthesis 7 3 2
dTDP-β-L-mycarose biosynthesis 7 2 2
O-antigen building blocks biosynthesis (E. coli) 11 10 3
glutaminyl-tRNAgln biosynthesis via transamidation 4 4 1
L-asparagine biosynthesis III (tRNA-dependent) 4 4 1
fatty acid α-oxidation I (plants) 4 2 1
L-tyrosine degradation III 4 2 1
L-phenylalanine degradation III 4 2 1
dTDP-β-L-megosamine biosynthesis 8 3 2
dTDP-β-L-4-epi-vancosamine biosynthesis 8 3 2
salidroside biosynthesis 4 1 1
putrescine degradation III 4 1 1
L-tryptophan degradation X (mammalian, via tryptamine) 4 1 1
D-arabinose degradation II 4 1 1
superpathway of fermentation (Chlamydomonas reinhardtii) 9 5 2
dTDP-α-D-olivose, dTDP-α-D-oliose and dTDP-α-D-mycarose biosynthesis 9 3 2
dTDP-α-D-forosamine biosynthesis 9 3 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
Salmonella enterica serotype O:54 O antigen biosynthesis 5 1 1
Escherichia coli serotype O:15 O antigen biosynthesis 5 1 1
enterobacterial common antigen biosynthesis 5 1 1
UDP-2,3-diacetamido-2,3-dideoxy-α-D-mannuronate biosynthesis 5 1 1
dopamine degradation 5 1 1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis 6 4 1
3-methyl-branched fatty acid α-oxidation 6 3 1
superpathway of pyrimidine deoxyribonucleosides degradation 6 2 1
Escherichia coli serotype O:56 O antigen biosynthesis 6 1 1
Salmonella enterica serotype O:13 O antigen biosynthesis 6 1 1
Escherichia coli serotype O:77/Salmonella enterica serotype O:6,14 O antigen biosynthesis 6 1 1
Escherichia coli serotype O:149/Shigella boydii serotype O1 O antigen biosynthesis 6 1 1
Escherichia coli serotype O:50 O antigen biosynthesis 6 1 1
triethylamine degradation 6 1 1
alkane oxidation 6 1 1
Escherichia coli serotype O:177 O antigen biosynthesis 6 1 1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis 19 5 3
superpathway of novobiocin biosynthesis 19 4 3
superpathway of Clostridium acetobutylicum solventogenic fermentation 13 6 2
L-glutamate and L-glutamine biosynthesis 7 6 1
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
Escherichia coli serotype O:71/Salmonella enterica serotype O:28ac O antigen biosynthesis 7 1 1
Escherichia coli serotype O:2 O antigen biosynthesis 7 1 1
Salmonella enterica serotype O:6,7 O antigen biosynthesis 7 1 1
superpathway of purine deoxyribonucleosides degradation 7 1 1
Escherichia coli serotype O:157/Salmonella enterica serotype O:30 O antigen biosynthesis 7 1 1
Escherichia coli serotype O:1B/Salmonella enterica serotype O:42 O antigen biosynthesis 7 1 1
Escherichia coli serotype O:7 O antigen biosynthesis 7 1 1
Escherichia coli serotype O:152 O antigen biosynthesis 7 1 1
Escherichia coli serotype O:85/Salmonella enterica serotype O:17 O antigen biosynthesis 7 1 1
limonene degradation IV (anaerobic) 7 1 1
Salmonella enterica serotype O:39 O antigen biosynthesis 7 1 1
Escherichia coli serotype O:111/Salmonella enterica serotype O:35 O antigen biosynthesis 7 1 1
Salmonella enterica serotype O:18 O antigen biosynthesis 7 1 1
L-citrulline biosynthesis 8 7 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
Escherichia coli serotype O:127 O antigen biosynthesis 8 1 1
aromatic biogenic amine degradation (bacteria) 8 1 1
Shigella boydii serotype 6 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:52 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:107 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:21/Salmonella enterica serotype O:38 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:117 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:55/Salmonella enterica serotype O:50 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:104 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:51/Salmonella enterica serotype O:57 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:128 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:86 O antigen biosynthesis 8 1 1
Escherichia coli serotype O:49 O antigen biosynthesis 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
UDP-sugars interconversion 9 3 1
teichuronic acid biosynthesis (B. subtilis 168) 9 2 1
Escherichia coli serotype O:183/Shigella boydii serotype O:10 O antigen biosynthesis 9 1 1
Escherichia coli serotype O:8 O antigen biosynthesis 9 1 1
Escherichia coli serotype O:169 O antigen biosynthesis 9 1 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 15 2
superpathway of erythromycin biosynthesis 19 2 2
meta cleavage pathway of aromatic compounds 10 9 1
Escherichia coli serotype O:9a O antigen biosynthesis 10 1 1
poly(3-O-β-D-glucopyranosyl-N-acetylgalactosamine 1-phosphate) wall teichoic acid biosynthesis 10 1 1
Escherichia coli serotype O:9 O antigen biosynthesis 10 1 1
superpathway of phenylethylamine degradation 11 10 1
colanic acid building blocks biosynthesis 11 8 1
superpathway of N-acetylneuraminate degradation 22 13 2
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 5 1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis 33 12 3
p-cymene degradation 11 3 1
poly(glycerol phosphate) wall teichoic acid biosynthesis 11 2 1
superpathway of megalomicin A biosynthesis 22 3 2
superpathway of dTDP-glucose-derived antibiotic building blocks biosynthesis 23 3 2
superpathway of L-citrulline metabolism 12 9 1
L-tryptophan degradation XII (Geobacillus) 12 6 1
L-tryptophan degradation IX 12 6 1
naphthalene degradation to acetyl-CoA 12 5 1
poly(ribitol phosphate) wall teichoic acid biosynthesis I (B. subtilis) 12 1 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
poly(ribitol phosphate) wall teichoic acid biosynthesis II (S. aureus) 14 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
H. pylori 26695 O-antigen biosynthesis 21 1 1
superpathway of UDP-N-acetylglucosamine-derived O-antigen building blocks biosynthesis 24 10 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