Methanococcoides methylutens (DSM 16625, MM1)

Name: Methanococcoides methylutens (DSM 16625, MM1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24161

Type strain

Strain Designation MM1

Culture col. no. DSM 16625 MM1

NCBI tax ID(s) 2226

Special Collections DSMZ

Links

Methanococcoides methylutens MM1 is an anaerobe, mesophilic prokaryote that was isolated from mangrove sediment.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 402046

DSM 16625

@ref 20215

Last LPSN update 2025-12-16 09:52:47

Domain Methanobacteriati

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
7058	M. methylutens TMA-10, DSM 2657, ATCC 33938, OCM 158 (type strain)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21014	METHANOCOCCOIDES MEDIUM (DSMZ Medium 141c)		Medium recipe at MediaDive	Name: METHANOCOCCOIDES MEDIUM (DSMZ Medium 141c; with strain-specific modifications) Composition: Trimethylammonium chloride 4.89237 g/l NaHCO3 4.89237 g/l MgCl2 x 6 H2O 3.91389 g/l Na2S2O3 2.93542 g/l Trypticase peptone 1.95695 g/l Yeast extract 1.95695 g/l Na-acetate 0.978474 g/l L-Cysteine HCl x H2O 0.489237 g/l Na2S x 9 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 ZnSO4 x 7 H2O 0.00176125 g/l CoSO4 x 7 H2O 0.00176125 g/l FeSO4 x 7 H2O 0.000978474 g/l CaCl2 x 2 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 Pyridoxine hydrochloride 9.78474e-05 g/l Na2MoO4 x 2 H2O 9.78474e-05 g/l CuSO4 x 5 H2O 9.78474e-05 g/l H3BO3 9.78474e-05 g/l Calcium D-(+)-pantothenate 4.89237e-05 g/l p-Aminobenzoic acid 4.89237e-05 g/l Riboflavin 4.89237e-05 g/l Thiamine HCl 4.89237e-05 g/l (DL)-alpha-Lipoic acid 4.89237e-05 g/l Nicotinic acid 4.89237e-05 g/l Folic acid 1.95695e-05 g/l Biotin 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)	Range
21014	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
21014	anaerobe
125439	obligate anaerobe	97.6

Spore formation

@ref	Spore formation	Confidence
125439		99.4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Mangrove
#Environmental	#Aquatic	#Sediment
#Host	#Plants	#Tree

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
21014	mangrove sediment	Dar es Salaam	Tanzania	TZA	Africa

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21014	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM97032v1 assembly for Methanococcoides methylutens MM1	complete	GCA_000970325	1434104.11	2639762999	1434104	98.89

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21014	Methanococcoides methylutens strain MM1 16S ribosomal RNA gene, partial sequence	FJ477324	1326		2226

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Methanococcoides methylutens MM1
NCBI: GCA_000970325

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.40	no
125439	motility	BacteriaNetⓘ	no	72.70	no
125439	gram_stain	BacteriaNetⓘ	negative	99.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	97.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Methanococcoides methylutens MM1 MM1
NCBI: GCA_000970325.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	63.12	no
125438	anaerobic	anaerobicⓘ	yes	86.05	yes
125438	aerobic	aerobicⓘ	no	93.21	no
125438	spore-forming	spore-formingⓘ	no	89.56	no
125438	thermophilic	thermophileⓘ	no	83.08	yes
125438	flagellated	motile2+ⓘ	no	86.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Optimizing the hybridization chain reaction-fluorescence in situ hybridization (HCR-FISH) protocol for detection of microbes in sediments.	Jia Z, Dong Y, Xu H, Wang F.	Mar Life Sci Technol	10.1007/s42995-021-00098-8	2021
Metabolism	CO₂ conversion to methane and biomass in obligate methylotrophic methanogens in marine sediments.	Yin X, Wu W, Maeke M, Richter-Heitmann T, Kulkarni AC, Oni OE, Wendt J, Elvert M, Friedrich MW.	ISME J	10.1038/s41396-019-0425-9	2019

References

#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 )
#21014	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16625
#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) .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#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 16625, MM1)

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

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000970325

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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