Methanococcoides sp. (DSM 26764, AM1)

Name: Methanococcoides sp. (DSM 26764, AM1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130395

Type strain

Strain Designation AM1

Culture col. no. DSM 26764 AM1

NCBI tax ID(s) 1966350

Special Collections DSMZ

History DSMZ <- A. Watkins, Cardiff Univ., School of Earth and Ocean Scs., United Kingdom; AM1 <- A. Watkins {2009}

Links

AM1 is an anaerobe archaeon that was isolated from marine sediment from gravity core.

anaerobe genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 396772

DSM 26764

@ref 20215

Last LPSN update 2026-05-29 08:37:22

Domain Archaea

Phylum Methanobacteriota

Class Methanosarcinia

Order Methanosarcinales

Family Methanosarcinaceae

Genus Methanococcoides

Full scientific name Methanococcoides Sowers and Ferry 1985

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	97.957

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21921	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)
21921	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
21921	anaerobe
125439	obligate anaerobe	98.138

Spore formation

@ref	Spore formation	Confidence
125439		99.865

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Core sample

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
21921	marine sediment from gravity core	Aarhus Bay	Denmark	DNK	Europe

Taxonmaps

69479

Global distribution of 16S sequence HE862406 (>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

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Methanococcoides_AM1 assembly for Methanococcoides sp. AM1	contig	GCA_900774055	1201011.4	3001170217	1201011	69.36

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21921	Methanococcoides sp. AM1 partial 16S rRNA gene, strain AM1	HE862406	1443		1201011

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Methanococcoides_AM1 assembly for Methanococcoides sp. AM1
NCBI: GCA_900774055

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	98.14	no
125439	gram_stain	BacteriaNetⓘ	negative	97.96	no
125439	motility	BacteriaNetⓘ	no	84.56	no
125439	spore_formation	BacteriaNetⓘ	no	99.87	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Methanococcoides sp. AM1
PATRIC: 1201011.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	61.79	no
125438	anaerobic	anaerobicⓘ	yes	84.02	yes
125438	spore-forming	spore-formingⓘ	no	89.58	no
125438	aerobic	aerobicⓘ	no	90.93	no
125438	thermophilic	thermophileⓘ	no	85.30	yes
125438	flagellated	motile2+ⓘ	no	81.50	no

Literature

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 )
#21921	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26764
#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 .
#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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