Methanothrix soehngenii (DSM 3671, JCM 10134, NBRC 103675)

Colony morphology

Multimedia

• @ref:	18852
  multimedia content:	DSM_3671.jpg
  multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_3671.jpg
  caption:	Medium 334a, 35°C
  intellectual property rights:	© Leibniz-Institut DSMZ
  manual_annotation:	1

Culture temp

Oxygen tolerance

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions	external links
66794	coenzyme A metabolism	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	ribulose monophosphate pathway	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ubiquinone biosynthesis	100	7 of 7
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	methanofuran biosynthesis	100	5 of 5
66794	ethanol fermentation	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	palmitate biosynthesis	81.82	18 of 22
66794	flavin biosynthesis	80	12 of 15
66794	photosynthesis	78.57	11 of 14
66794	chorismate metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	NAD metabolism	72.22	13 of 18
66794	vitamin B12 metabolism	70.59	24 of 34
66794	starch degradation	70	7 of 10
66794	coenzyme M biosynthesis	70	7 of 10
66794	threonine metabolism	70	7 of 10
66794	purine metabolism	67.02	63 of 94
66794	valine metabolism	66.67	6 of 9
66794	d-mannose degradation	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	methanogenesis from CO2	66.67	8 of 12
66794	pyrimidine metabolism	64.44	29 of 45
66794	heme metabolism	64.29	9 of 14
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	phenylalanine metabolism	61.54	8 of 13
66794	factor 420 biosynthesis	60	3 of 5
66794	cellulose degradation	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	glycolysis	58.82	10 of 17
66794	lipid metabolism	58.06	18 of 31
66794	propanol degradation	57.14	4 of 7
66794	pentose phosphate pathway	54.55	6 of 11
66794	sulfate reduction	53.85	7 of 13
66794	methionine metabolism	53.85	14 of 26
66794	leucine metabolism	53.85	7 of 13
66794	glutamate and glutamine metabolism	53.57	15 of 28
66794	histidine metabolism	51.72	15 of 29
66794	oxidative phosphorylation	50.55	46 of 91
66794	phenylmercury acetate degradation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	biotin biosynthesis	50	2 of 4
66794	lysine metabolism	50	21 of 42
66794	acetate fermentation	50	2 of 4
66794	tryptophan metabolism	50	19 of 38
66794	lactate fermentation	50	2 of 4
66794	ketogluconate metabolism	50	4 of 8
66794	selenocysteine biosynthesis	50	3 of 6
66794	myo-inositol biosynthesis	50	5 of 10
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	non-pathway related	50	19 of 38
66794	pantothenate biosynthesis	50	3 of 6
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	degradation of hexoses	44.44	8 of 18
66794	lipid A biosynthesis	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	degradation of sugar alcohols	43.75	7 of 16
66794	tyrosine metabolism	42.86	6 of 14
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	tetrahydrofolate metabolism	42.86	6 of 14
66794	citric acid cycle	42.86	6 of 14
66794	glycine betaine biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	Entner Doudoroff pathway	40	4 of 10
66794	glycogen metabolism	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	urea cycle	38.46	5 of 13
66794	alanine metabolism	37.93	11 of 29
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	isoprenoid biosynthesis	34.62	9 of 26
66794	formaldehyde oxidation	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	cyanate degradation	33.33	1 of 3
66794	peptidoglycan biosynthesis	33.33	5 of 15
66794	sphingosine metabolism	33.33	2 of 6
66794	arginine metabolism	33.33	8 of 24
66794	ascorbate metabolism	31.82	7 of 22
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	propionate fermentation	30	3 of 10
66794	glutathione metabolism	28.57	4 of 14
66794	mevalonate metabolism	28.57	2 of 7
66794	cysteine metabolism	27.78	5 of 18
66794	proline metabolism	27.27	3 of 11
66794	vitamin B6 metabolism	27.27	3 of 11
66794	toluene degradation	25	1 of 4
66794	butanoate fermentation	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	polyamine pathway	21.74	5 of 23
66794	degradation of pentoses	21.43	6 of 28

Isolation source categories

Isolation

Risk assessment

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM20441v1 assembly for Methanothrix soehngenii GP6	complete	GCA_000204415	990316.16	650716054	990316	98.48

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Methanosaeta concilii gene for 16S rRNA, partial sequence, strain: NBRC 103675	AB679168	1407		2223
20218	Methanothrix soehngenii 16S (16S rRNA), complete sequence	AH003992	159		2223

GC content

Predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
	A unified and simple medium for growing model methanogens.	Dzofou Ngoumelah D, Harnisch F, Sulheim S, Heggeset TMB, Aune IH, Wentzel A, Kretzschmar J.	Front Microbiol	10.3389/fmicb.2022.1046260	2022
	Effect of model methanogens on the electrochemical activity, stability, and microbial community structure of Geobacter spp. dominated biofilm anodes.	Dzofou Ngoumelah D, Heggeset TMB, Haugen T, Sulheim S, Wentzel A, Harnisch F, Kretzschmar J.	NPJ Biofilms Microbiomes	10.1038/s41522-024-00490-z	2024
Enzymology	Bacteriological composition and structure of granular sludge adapted to different substrates.	Grotenhuis JT, Smit M, Plugge CM, Xu YS, van Lammeren AA, Stams AJ, Zehnder AJ.	Appl Environ Microbiol	10.1128/aem.57.7.1942-1949.1991	1991
Metabolism	Immobilization patterns and dynamics of acetate-utilizing methanogens immobilized in sterile granular sludge in upflow anaerobic sludge blanket reactors.	Schmidt JE, Ahring BK.	Appl Environ Microbiol	10.1128/aem.65.3.1050-1054.1999	1999
Phylogeny	Estimation of methanogen biomass by quantitation of coenzyme M.	Elias DA, Krumholz LR, Tanner RS, Suflita JM.	Appl Environ Microbiol	10.1128/aem.65.12.5541-5545.1999	1999
Lipids	Freeze-fracture planes of methanogen membranes correlate with the content of tetraether lipids.	Beveridge TJ, Choquet CG, Patel GB, Sprott GD.	J Bacteriol	10.1128/jb.175.4.1191-1197.1993	1993
	Inhibition of pure cultures of methanogens by benzene ring compounds.	Patel GB, Agnew BJ, Dicaire CJ.	Appl Environ Microbiol	10.1128/aem.57.10.2969-2974.1991	1991
Metabolism	Acetate and CO2 assimilation by Methanothrix concilii.	Ekiel I, Sprott GD, Patel GB.	J Bacteriol	10.1128/jb.162.3.905-908.1985	1985
Phylogeny	Characterization of three thermophilic strains of Methanothrix ("Methanosaeta") thermophila sp. nov. and rejection of Methanothrix ("Methanosaeta") thermoacetophila.	Kamagata Y, Kawasaki H, Oyaizu H, Nakamura K, Mikami E, Endo G, Koga Y, Yamasato K.	Int J Syst Bacteriol	10.1099/00207713-42-3-463	1992
Phylogeny	Methanosaeta harundinacea sp. nov., a novel acetate-scavenging methanogen isolated from a UASB reactor.	Ma K, Liu X, Dong X	Int J Syst Evol Microbiol	10.1099/ijs.0.63887-0	2006