Name: Methanobacterium arcticum M2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6950

Type strain:

Species: Methanobacterium arcticum

Strain Designation: M2

Culture col. no.: DSM 19844, VKM B-2371

Strain history: <- V. Shcherbakova, Inst. Biochem. Physiol. Microorg., RAS, Pushchino, Russia; M2 <- V. A. Shcherbakova {2005}

NCBI tax ID(s): 386456 (species)

SI-ID 401709

DSM 19844

Section

Methanobacterium arcticum M2 is an anaerobe, mesophilic, Gram-negative archaeon that was isolated from Holocene permafrost sediments.

Gram-negative
rod-shaped
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	*Methanobacteria*
	Order	*Methanobacteriales*
	Family	*Methanobacteriaceae*
	Genus	*Methanobacterium*
	Species	**Methanobacterium arcticum**
	Full Scientific Name (LPSN)	Methanobacterium arcticum Shcherbakova et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #29798]	Gram stain	negative

[Ref.: #29798]	Cell length	4.5 µm

[Ref.: #29798]	Cell width	0.475 µm

[Ref.: #29798]	Cell shape	rod-shaped

[Ref.: #29798]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8345]

Culture medium

METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141)

[Ref.: #8345]

Culture medium growth

[Ref.: #8345]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8345]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8345]	growth	37 °C
[Ref.: #29798]	growth	15-45 °C
[Ref.: #29798]	optimum	37 °C

[Ref.: #8345]	Temperature range	mesophilic
[Ref.: #29798]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29798]			optimum	7
[Ref.: #29798]			growth	5.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8345]	Oxygen tolerance	anaerobe
[Ref.: #29798]	Oxygen tolerance	anaerobe

[Ref.: #29798]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29798]		NaCl		growth	0-1.74	%
[Ref.: #29798]		NaCl		optimum	0.58	%

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29798]		formate ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #29798]		methane ChEBI	yes

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

[Ref.: #8345]	Sample type/isolated from	Holocene permafrost sediments
[Ref.: #8345]	Geographic location (country and/or sea, region)	Kolyma Lowland, Russia (70° 06' N 154° 04' E)
[Ref.: #8345]	Country	Russia
[Ref.: #8345]	Country ISO 3 Code	RUS
[Ref.: #8345]	Continent	Asia
[Ref.: #8345]	Geographic location	70.1000°/154.0670°
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Permafrost
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ517520 (>99% sequence identity) for Methanobacterium from Microbeatlas

Aquatic Samples	94
Soil Samples	80
Animal Samples	15
Plant Samples	58
Total Samples	247

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

[Ref.: #8345]

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.: #8345]	Methanobacterium arcticum 16S ribosomal RNA gene, partial sequence	DQ517520	1434	ENA	386456 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methanobacterium arcticum M2	GCA_000746075	scaffold	GenBank	386456 tax ID	*
[Ref.: #66792]	Methanobacterium arcticum M2, DSM 19844	2574179771	draft	JGI IMG/M	386456 tax ID	*

[Ref.: #8345]	GC-content	38.1 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29798]	GC-content	38.1 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methanobacterium arcticum M2 NCBI: GCA_000746075.1
[Ref.: #69480]	motile	no	89.088	yes
[Ref.: #69480]	flagellated	no	96.963	yes
[Ref.: #69480]	gram-positive	no	96.769	yes
[Ref.: #69480]	anaerobic	yes	96.881	yes
[Ref.: #69480]	aerobic	no	93.6	yes
[Ref.: #69480]	halophile	no	88.84	yes
[Ref.: #69480]	spore-forming	no	94.558	no
[Ref.: #69480]	glucose-util	yes	65.009	no
[Ref.: #69480]	thermophile	no	96.117	yes
[Ref.: #69480]	glucose-ferment	no	67.087	no

Availability in culture collections External links

[Ref.: #8345]

Culture collection no.

DSM 19844, VKM B-2371

[Ref.: #76412]

SI-ID 401709

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methanobacterium arcticum sp. nov., a methanogenic archaeon from Holocene Arctic permafrost.	Shcherbakova V, Rivkina E, Pecheritsyna S, Laurinavichius K, Suzina N, Gilichinsky D	Int J Syst Evol Microbiol	10.1099/ijs.0.021311-0	2010	*

References

#8345

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19844

#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 )

#29798

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26176 (see below)

#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) .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#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) .

#76412

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-ID401709.1 )

#26176

IJSEM 144 2013 ( DOI 10.1099/ijs.0.021311-0 , PubMed 20173003 )

* These data were automatically processed and therefore are not curated

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