Methanococcoides methylutens (DSM 2657, ATCC 33938, OCM 158)

Name: Methanococcoides methylutens (DSM 2657, ATCC 33938, OCM 158)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7058

Type strain

Strain Designation TMA-10

Culture col. no. DSM 2657 ATCC 33938 OCM 158 TMA-10

NCBI tax ID(s) 2226

Special Collections DSMZ

History DSMZ <- K.R. Sowers and J.G. Ferry, TMA-10

Links

Methanococcoides methylutens TMA-10 is an anaerobe archaeon that was isolated from marine sediment.

anaerobe genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 40773

ATCC 33938,DSM 2657,BCRC 16168,CCRC 16168

@ref 20215

Last LPSN update 2026-05-29 08:26:33

Domain Archaea

Phylum Methanobacteriota

Class Methanosarcinia

Order Methanosarcinales

Family Methanosarcinaceae

Genus Methanococcoides

Species Methanococcoides methylutens

Full scientific name Methanococcoides methylutens Sowers and Ferry 1985

BacDive ID	Other strains from **Methanococcoides methylutens** (1)	Type strain
24161	M. methylutens MM1, DSM 16625

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.872

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1191	METHANOCOCCOIDES MEDIUM (DSMZ Medium 141c)		Medium recipe at MediaDive	Name: METHANOCOCCOIDES MEDIUM (DSMZ Medium 141c) Composition: NaHCO3 4.89237 g/l Trimethylammonium chloride 4.89237 g/l MgCl2 x 6 H2O 3.91389 g/l Yeast extract 1.95695 g/l Trypticase peptone 1.95695 g/l Na-acetate 0.978474 g/l Na2S x 9 H2O 0.489237 g/l L-Cysteine HCl x H2O 0.489237 g/l KCl 0.332681 g/l NH4Cl 0.244618 g/l K2HPO4 0.136986 g/l MgSO4 x 7 H2O 0.0293542 g/l Nitrilotriacetic acid 0.0146771 g/l NaCl 0.00978474 g/l MnSO4 x H2O 0.00489237 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.00195695 g/l CoSO4 x 7 H2O 0.00176125 g/l ZnSO4 x 7 H2O 0.00176125 g/l CaCl2 x 2 H2O 0.000978474 g/l FeSO4 x 7 H2O 0.000978474 g/l Sodium resazurin 0.000489237 g/l NiCl2 x 6 H2O 0.000293542 g/l AlK(SO4)2 x 12 H2O 0.000195695 g/l CuSO4 x 5 H2O 9.78474e-05 g/l Pyridoxine hydrochloride 9.78474e-05 g/l H3BO3 9.78474e-05 g/l Na2MoO4 x 2 H2O 9.78474e-05 g/l (DL)-alpha-Lipoic acid 4.89237e-05 g/l Thiamine HCl 4.89237e-05 g/l Riboflavin 4.89237e-05 g/l Nicotinic acid 4.89237e-05 g/l Calcium D-(+)-pantothenate 4.89237e-05 g/l p-Aminobenzoic acid 4.89237e-05 g/l Biotin 1.95695e-05 g/l Folic acid 1.95695e-05 g/l Na2WO4 x 2 H2O 3.91389e-06 g/l Na2SeO3 x 5 H2O 2.93542e-06 g/l Vitamin B12 9.78474e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
1191	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
1191	anaerobe
125439	obligate anaerobe	97.238

Spore formation

@ref	Spore formation	Confidence
125439		99.9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
1191	marine sediment	California, Scripps Canyon near La Jolla	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence FR733669 (>99% sequence identity) for Methanococcoides from Microbeatlas

Aquatic Samples	53
Soil Samples	2
Animal Samples	0
Plant Samples	0
Total Samples	55

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1191	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Mmet_Version1 assembly for Methanococcoides methylutens DSM 2657	contig	GCA_000765475	2226.9	2630968972	2226	76.46
66792	Methanococcoides_methylutens_DSM2657 assembly for Methanococcoides methylutens	contig	GCA_900773915	2226.10		2226	72.05

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Methylcoccoides methylutans 16S ribosomal RNA	M59127	1477		2226
1191	Methanococcoides methylutens partial 16S rRNA gene, type strain DSM2657T	FR733669	1468		2226

GC content

1191

GC-content (mol%)42.0

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Mmet_Version1 assembly for Methanococcoides methylutens DSM 2657
NCBI: GCA_000765475

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	97.24	no
125439	gram_stain	BacteriaNetⓘ	negative	98.87	no
125439	motility	BacteriaNetⓘ	no	84.20	no
125439	spore_formation	BacteriaNetⓘ	no	99.90	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Draft Genome Sequence of an Obligately Methylotrophic Methanogen, Methanococcoides methylutens, Isolated from Marine Sediment.	Guan Y, Ngugi DK, Blom J, Ali S, Ferry JG, Stingl U.	Genome Announc	10.1128/genomea.01184-14	2014
Metabolism	Prokaryotic viperins produce diverse antiviral molecules.	Bernheim A, Millman A, Ofir G, Meitav G, Avraham C, Avraham C, Shomar H, Rosenberg MM, Tal N, Melamed S, Amitai G, Sorek R.	Nature	10.1038/s41586-020-2762-2	2021
	Methanogenic conversion of 3-s-methylmercaptopropionate to 3-mercaptopropionate.	van der Maarel M, Jansen M, Hansen TA.	Appl Environ Microbiol	10.1128/aem.61.1.48-51.1995	1995
Metabolism	Complex coupled metabolic and prokaryotic community responses to increasing temperatures in anaerobic marine sediments: critical temperatures and substrate changes.	Roussel EG, Cragg BA, Webster G, Sass H, Tang X, Williams AS, Gorra R, Weightman AJ, Parkes RJ.	FEMS Microbiol Ecol	10.1093/femsec/fiv084	2015
	Archaeal community diversity and abundance changes along a natural salinity gradient in estuarine sediments.	Webster G, O'Sullivan LA, Meng Y, Williams AS, Sass AM, Watkins AJ, Parkes RJ, Weightman AJ.	FEMS Microbiol Ecol	10.1093/femsec/fiu025	2015
	Plasmid DNA from the acetotrophic methanogen Methanosarcina acetivorans.	Sowers KR, Gunsalus RP.	J Bacteriol	10.1128/jb.170.10.4979-4982.1988	1988
	Compilation of 5S rRNA and 5S rRNA gene sequences.	Specht T, Wolters J, Erdmann VA.	Nucleic Acids Res	10.1093/nar/18.suppl.2215	1990
Metabolism	Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico.	Vigneron A, Alsop EB, Cruaud P, Philibert G, King B, Baksmaty L, Lavallee D, P Lomans B, Kyrpides NC, Head IM, Tsesmetzis N.	Sci Rep	10.1038/s41598-017-16375-5	2017
Metabolism	Mineralogical control on methylotrophic methanogenesis and implications for cryptic methane cycling in marine surface sediment.	Xiao KQ, Moore OW, Babakhani P, Curti L, Peacock CL	Nat Commun	10.1038/s41467-022-30422-4	2022
Phylogeny	Methanococcoides orientis sp. nov., a methylotrophic methanogen isolated from sediment of the East China Sea.	Liang L, Sun Y, Dong Y, Ahmad T, Chen Y, Wang J, Wang F	Int J Syst Evol Microbiol	10.1099/ijsem.0.005384	2022
Phylogeny	Methanococcoides vulcani sp. nov., a marine methylotrophic methanogen that uses betaine, choline and N,N-dimethylethanolamine for methanogenesis, isolated from a mud volcano, and emended description of the genus Methanococcoides.	L'Haridon S, Chalopin M, Colombo D, Toffin L	Int J Syst Evol Microbiol	10.1099/ijs.0.058289-0	2014
Phylogeny	Isolation and Characterization of a Methylotrophic Marine Methanogen, Methanococcoides methylutens gen. nov., sp. nov.	Sowers KR, Ferry JG	Appl Environ Microbiol	10.1128/aem.45.2.684-690.1983	1983

References

#1191	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2657
#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) .
#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 .
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Methanococcoides methylutens (DSM 2657, ATCC 33938, OCM 158)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000765475

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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