Experiment set2S176 for Fusobacterium nucleatum SB010

RCM carbon source

Group: carbon source complex media
Media: + RCM
Culturing: Fusobacterium_SB010_ML1
By: Anthony on 1/20/25

Specific Phenotypes

For 21 genes in this experiment

For carbon source complex media RCM in Fusobacterium nucleatum SB010

For carbon source complex media RCM across organisms

SEED Subsystems

Subsystem	#Specific
Ethanolamine utilization	2
Fermentations: Mixed acid	2
Aromatic amino acid degradation	1
Butanol Biosynthesis	1
Cobalt-zinc-cadmium resistance	1
DNA repair, UvrABC system	1
De Novo Pyrimidine Synthesis	1
Experimental tye	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Glycine and Serine Utilization	1
Heat shock dnaK gene cluster extended	1
Heme and Siroheme Biosynthesis	1
LMPTP YwlE cluster	1
Na(+) H(+) antiporter	1
Queuosine-Archaeosine Biosynthesis	1
Serine Biosynthesis	1
YcfH	1
tRNA processing	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Porphyrin and chlorophyll metabolism
• Glycolysis / Gluconeogenesis
• Glycine, serine and threonine metabolism
• Fructose and mannose metabolism
• Galactose metabolism
• Ascorbate and aldarate metabolism
• Fatty acid metabolism
• Pyrimidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Starch and sucrose metabolism
• Nucleotide sugars metabolism
• Aminosugars metabolism
• Lipopolysaccharide biosynthesis
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• Propanoate metabolism
• 3-Chloroacrylic acid degradation
• Butanoate metabolism
• Thiamine metabolism
• Folate biosynthesis
• Retinol metabolism
• Nitrogen metabolism
• Metabolism of xenobiotics by cytochrome P450
• Drug metabolism - cytochrome P450
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-tryptophan degradation II (via pyruvate)	3	3	3
pyrimidine nucleobases salvage I	1	1	1
acetaldehyde biosynthesis I	1	1	1
adenosylcobalamin salvage from cobalamin	5	5	4
adenosylcobinamide-GDP biosynthesis from cobyrinate a,c-diamide	6	6	4
L-serine degradation	3	3	2
D-serine degradation	3	3	2
pyruvate fermentation to ethanol I	3	3	2
L-cysteine degradation II	3	2	2
adenosylcobinamide-GDP salvage from cobinamide I	5	5	3
reductive monocarboxylic acid cycle	2	2	1
ethanol degradation I	2	2	1
adenosylcobinamide-GDP salvage from cobinamide II	6	5	3
cobalamin salvage (eukaryotic)	8	4	4
pyruvate fermentation to ethanol II	2	1	1
pyrimidine nucleobases salvage II	2	1	1
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis	5	2	2
superpathway of adenosylcobalamin salvage from cobinamide I	8	8	3
pyruvate fermentation to acetate IV	3	3	1
pyruvate fermentation to ethanol III	3	3	1
superpathway of adenosylcobalamin salvage from cobinamide II	9	8	3
L-serine biosynthesis I	3	2	1
L-methionine biosynthesis II	6	3	2
L-leucine degradation III	3	1	1
L-isoleucine degradation II	3	1	1
L-valine degradation II	3	1	1
ethanol degradation II	3	1	1
L-methionine degradation III	3	1	1
glycine betaine degradation III	7	3	2
UTP and CTP dephosphorylation I	7	2	2
superpathway of pyrimidine nucleobases salvage	4	3	1
glycine betaine degradation I	8	4	2
L-mimosine degradation	8	4	2
phytol degradation	4	2	1
queuosine biosynthesis I (de novo)	4	2	1
superpathway of L-serine and glycine biosynthesis I	4	2	1
cytidine-5'-diphosphate-glycerol biosynthesis	4	2	1
L-tyrosine degradation III	4	2	1
L-phenylalanine degradation III	4	2	1
glutathione-mediated detoxification I	8	2	2
salidroside biosynthesis	4	1	1
superpathway of fermentation (Chlamydomonas reinhardtii)	9	7	2
ethanolamine utilization	5	5	1
acetylene degradation (anaerobic)	5	4	1
(S)-propane-1,2-diol degradation	5	4	1
queuosine biosynthesis III (queuosine salvage)	5	3	1
tRNA processing	10	4	2
phenylethanol biosynthesis	5	1	1
pyruvate fermentation to isobutanol (engineered)	5	1	1
L-threonine degradation I	6	6	1
tetrapyrrole biosynthesis I (from glutamate)	6	6	1
noradrenaline and adrenaline degradation	13	2	2
adenosylcobalamin biosynthesis II (aerobic)	33	27	5
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
3-methylbutanol biosynthesis (engineered)	7	2	1
serotonin degradation	7	2	1
adenosylcobalamin biosynthesis I (anaerobic)	36	31	5
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	4	2
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	7	1
mixed acid fermentation	16	8	2
butanol and isobutanol biosynthesis (engineered)	8	1	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	8	1
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	7	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	3	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	17	2
superpathway of heme b biosynthesis from glutamate	10	6	1
superpathway of pyrimidine ribonucleosides salvage	10	5	1
superpathway of N-acetylneuraminate degradation	22	17	2
purine nucleobases degradation II (anaerobic)	24	10	2
superpathway of Clostridium acetobutylicum solventogenic fermentation	13	9	1
(S)-lactate fermentation to propanoate, acetate and hydrogen	13	7	1
L-tryptophan degradation V (side chain pathway)	13	1	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	10	1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	11	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	15	1
heterolactic fermentation	18	13	1
superpathway of L-threonine metabolism	18	10	1
superpathway of anaerobic sucrose degradation	19	15	1