Name: Methanothrix soehngenii GP6
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23083

Type strain:

Species: Methanothrix soehngenii

Strain Designation: GP6

Culture col. no.: DSM 3671, JCM 10134, NBRC 103675, OCM 69, ATCC 35969, NRC 2989

Strain history: DSM 3671 <-- G. B. Patel GP6.

NCBI tax ID(s): 990316 (strain), 2223 (species)

SI-ID 47744

DSM 3671, ATCC 35969, JCM 10134, NBRC 103675

Other strains from Methanothrix soehngenii

M. soehngenii Opfikon, DSM 2139 (type strain)
M. soehngenii FE, DSM 3013
M. soehngenii MTKO, DSM 6752

Section

Methanothrix soehngenii GP6 is an anaerobe, mesophilic archaeon that was isolated from acetic acid enrichment from pear waste digester inoculated with sewage sludge.

anaerobe
mesophilic
16S sequence
Archaea
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Methanobacteriota*
	Class	"Methanomicrobia"
	Order	*Methanosarcinales*
	Family	*Methanotrichaceae*
	Genus	*Methanothrix*
	Species	**Methanothrix soehngenii**
	Full Scientific Name (LPSN)	Methanothrix soehngenii Huser et al. 1983

	Synonym	Methanosaeta concilii
	Synonym	Methanothrix concilii

Information on morphological and physiological properties Morphology

[Ref.: #18852]

Incubation period

>14 days

Multimedia content

[Ref.: #18852]

Caption:

Medium 334a, 35°C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	37 °C

[Ref.: #67770]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #18852]

Oxygen tolerance

anaerobe

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

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #18852]	Sample type/isolated from	acetic acid enrichment from pear waste digester inoculated with sewage sludge
[Ref.: #18852]	Geographic location (country and/or sea, region)	Ottawa
[Ref.: #18852]	Country	Canada
[Ref.: #18852]	Country ISO 3 Code	CAN
[Ref.: #18852]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Sewage sludge
[Ref.: #67770]	Geographic location (country and/or sea, region)	Ottawa
[Ref.: #67770]	Country	Canada
[Ref.: #67770]	Country ISO 3 Code	CAN
[Ref.: #67770]	Continent	North America
* marker position based on {}

Isolation sources categories

#Engineered	#Waste	#Sewage sludge
#Host	#Plants	#Decomposing plant
#Condition	#Acidic	-

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #18852]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #20218]	Methanosaeta concilii gene for 16S rRNA, partial sequence, strain: NBRC 103675	AB679168	1407	ENA	2223 tax ID	*
[Ref.: #20218]	16S rRNA [Methanothrix soehngenii, GP6, DSM 3671, rRNA Partial, 159 nt, segment 1 of 3]	S42679	159	ENA	2223 tax ID	*
[Ref.: #20218]	16S rRNA [Methanothrix soehngenii, GP6, DSM 3671, rRNA Partial, 194 nt, segment 2 of 3]	S42680	194	ENA	2223 tax ID	*
[Ref.: #20218]	16S rRNA [Methanothrix soehngenii, GP6, DSM 3671, rRNA Partial, 186 nt, segment 3 of 3]	S42681	186	ENA	2223 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methanothrix soehngenii GP6	GCA_000204415	complete	GenBank	990316 tax ID	*

[Ref.: #18852]	GC-content	61.0 mol%
[Ref.: #18852]	GC-content	50.2 mol%
[Ref.: #67770]	GC-content	61 mol%	fluorimetric

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methanothrix soehngenii GP6 GP6 NCBI: GCA_000204415.1
[Ref.: #69480]	motile	no	93.624	no
[Ref.: #69480]	flagellated	no	98.066	no
[Ref.: #69480]	gram-positive	no	96.458	no
[Ref.: #69480]	anaerobic	yes	98	yes
[Ref.: #69480]	aerobic	no	94.155	yes
[Ref.: #69480]	halophile	no	85.451	no
[Ref.: #69480]	spore-forming	no	94.426	no
[Ref.: #69480]	glucose-util	yes	69.435	no
[Ref.: #69480]	thermophile	no	90.638	no
[Ref.: #69480]	glucose-ferment	no	70.444	no

Availability in culture collections External links

[Ref.: #18852]

Culture collection no.

DSM 3671, JCM 10134, NBRC 103675, OCM 69, ATCC 35969, NRC 2989

[Ref.: #87321]

SI-ID 47744

Literature:

Topic	Title	Authors	Journal	DOI	Year
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	*

References

#18852

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3671

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#87321

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID47744.1 )

* These data were automatically processed and therefore are not curated

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Methanothrix soehngenii GP6 GP6

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