Methanobrevibacter smithii (DSM 2374, F1)

Name: Methanobrevibacter smithii (DSM 2374, F1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6964

Type strain

Strain Designation F1

Culture col. no. DSM 2374 F1

NCBI tax ID(s) 521002 2173

Special Collections DSMZ

History DSMZ <- T. L. Miller, New York State Department of Health, Albany, New York, USA; F1 <- T. L. Miller {1980}

Links

Methanobrevibacter smithii F1 is an anaerobe archaeon that was isolated from human faeces.

anaerobe genome sequence Archaea

Name and taxonomic classification

SI-ID 47600

DSM 2374

@ref 20215

Last LPSN update 2026-05-29 08:26:32

Domain Archaea

Phylum Methanobacteriota

Class Methanobacteria

Order Methanobacteriales

Family Methanobacteriaceae

Genus Methanobrevibacter

Species Methanobrevibacter smithii

Full scientific name Methanobrevibacter smithii Balch and Wolfe 1981

Synonyms (1)

"Methanocatella smithii"

BacDive ID	Other strains from **Methanobrevibacter smithii** (3)	Type strain
6963	M. smithii PS, DSM 861, ATCC 35061, JCM 30028, OCM 144 (type strain)
6965	M. smithii ALI, DSM 2375
6966	M. smithii B181, DSM 11975

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	97.793

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1056	MODIFIED METHANOBACTERIUM MEDIUM (DSMZ Medium 1523)		Medium recipe at MediaDive	Name: MODIFIED METHANOBACTERIUM MEDIUM (DSMZ Medium 1523) Composition: Brain heart infusion 5.98802 g/l Proteose peptone 5.98802 g/l NaHCO3 3.99202 g/l Yeast extract 1.99601 g/l Na-formate 1.99601 g/l Na-acetate 0.998004 g/l Na2S x 9 H2O 0.499002 g/l KH2PO4 0.499002 g/l L-Cysteine HCl x H2O 0.499002 g/l MgSO4 x 7 H2O 0.399202 g/l NH4Cl 0.399202 g/l NaCl 0.399202 g/l CaCl2 x 2 H2O 0.0499002 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l Sodium resazurin 0.000499002 g/l Pyridoxine hydrochloride 0.000299401 g/l Thiamine-HCl x 2 H2O 0.000199601 g/l Nicotinic acid 0.000199601 g/l CoCl2 x 6 H2O 0.000189621 g/l Calcium pantothenate 9.98004e-05 g/l Vitamin B12 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l p-Aminobenzoic acid 7.98403e-05 g/l ZnCl2 6.98603e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l D-(+)-biotin 1.99601e-05 g/l H3BO3 5.98802e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Distilled water
1056	METHANOBACTERIUM MEDIUM (DSMZ Medium 119)		Medium recipe at MediaDive	Name: METHANOBACTERIUM MEDIUM (DSMZ Medium 119) Composition: NaHCO3 3.98804 g/l Na-formate 1.99402 g/l Na-acetate 0.997009 g/l Na2S x 9 H2O 0.498504 g/l L-Cysteine HCl x H2O 0.498504 g/l KH2PO4 0.498504 g/l NH4Cl 0.398804 g/l NaCl 0.398804 g/l MgSO4 x 7 H2O 0.398804 g/l Yeast extract 0.199402 g/l CaCl2 x 2 H2O 0.0498504 g/l HCl 0.00249252 g/l FeSO4 x 7 H2O 0.00199402 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l H3BO3 5.98205e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Isobutyric acid DL-2-Methylbutyric acid Valeric acid Isovaleric acid H2SO4 Sludge Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
1056	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
1056	anaerobe
125439	facultative anaerobe	90.832

Spore formation

@ref	Spore formation	Confidence
125438		92.703
125439		99.79

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
1056	human faeces	Homo sapiens	Albany NY	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1056	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	ASM15122v1 assembly for Methanobrevibacter smithii DSM 2374	scaffold	GCA_000151225	521002.11	643886215	521002	73.34

GC content

@ref	GC-content (mol%)	Method
1056	31	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM15122v1 assembly for Methanobrevibacter smithii DSM 2374
BV-BRC: 521002.11

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	90.83	no
125439	gram_stain	BacteriaNetⓘ	negative	97.79	no
125439	motility	BacteriaNetⓘ	no	64.10	no
125439	spore_formation	BacteriaNetⓘ	no	99.79	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Methanobrevibacter smithii DSM 2374 DSM 2374
NCBI: GCA_000151225.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	55.63	no
125438	anaerobic	anaerobicⓘ	yes	89.92	yes
125438	aerobic	aerobicⓘ	no	91.63	yes
125438	spore-forming	spore-formingⓘ	no	92.70	no
125438	thermophilic	thermophileⓘ	no	81.99	no
125438	flagellated	motile2+ⓘ	no	82.71	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Substrate-dependent strategies to mitigate sulfate inhibition on microbial reductive dechlorination of polychlorinated biphenyls.	Chen C, Xu G, He J.	Chemosphere	10.1016/j.chemosphere.2023.140063	2023
	Methanobrevibacter smithii cell variants in human physiology and pathology: A review.	Malat I, Drancourt M, Grine G.	Heliyon	10.1016/j.heliyon.2024.e36742	2024
Enzymology	H₂ generated by fermentation in the human gut microbiome influences metabolism and competitive fitness of gut butyrate producers.	Campbell A, Gdanetz K, Schmidt AW, Schmidt TM.	Microbiome	10.1186/s40168-023-01565-3	2023
	Fermented foods affect the seasonal stability of gut bacteria in an Indian rural population.	Jeyaram K, Lahti L, Tims S, Heilig HGHJ, van Gelder AH, de Vos WM, Smidt H, Zoetendal EG.	Nat Commun	10.1038/s41467-025-56014-6	2025
	Evolving understanding of rumen methanogen ecophysiology.	Khairunisa BH, Heryakusuma C, Ike K, Mukhopadhyay B, Susanti D.	Front Microbiol	10.3389/fmicb.2023.1296008	2023
Enzymology	Diverse non-canonical electron bifurcating [FeFe]-hydrogenases of separate evolutionary origins in Hydrogenedentota.	Zheng X, Huang L.	mSystems	10.1128/msystems.00999-24	2024
	A toolbox for genetic manipulation in intestinal Clostridium symbiosum.	Yang P, Tian J, Zhang L, Zhang H, Yang G, Ren Y, Fang J, Gu Y, Jiang W.	Synth Syst Biotechnol	10.1016/j.synbio.2023.12.005	2024
	Influence of Dissolved Oxygen Level on Chitin-Glucan Complex and Mannans Production by the Yeast Pichia pastoris.	Farinha I, Baptista S, Reis MAM, Freitas F.	Life (Basel)	10.3390/life12020161	2022
Genetics	Acute appendicitis manifests as two microbiome state types with oral pathogens influencing severity.	Blohs M, Mahnert A, Brunnader K, Flucher C, Castellani C, Till H, Singer G, Moissl-Eichinger C.	Gut Microbes	10.1080/19490976.2022.2145845	2023
Enzymology	Human methanogen diversity and incidence in healthy and diseased colonic groups using mcrA gene analysis.	Scanlan PD, Shanahan F, Marchesi JR.	BMC Microbiol	10.1186/1471-2180-8-79	2008
	Phylogenomic networks reveal limited phylogenetic range of lateral gene transfer by transduction.	Popa O, Landan G, Dagan T.	ISME J	10.1038/ismej.2016.116	2017
	Safety and efficacy of a feed additive consisting of endo-1,4-beta-xylanase produced by Komagataella phaffii DSM 33574 (Xylamax) for chickens and turkeys for fattening, chickens reared for laying/breeding, turkeys reared for breeding and minor poultry species for fattening or raised to the point of lay (BioResource international, Inc.).	EFSA Panel on Additives and Products or Substances used in Animal Feed (FEEDAP), Bampidis V, Azimonti G, Bastos ML, Christensen H, Dusemund B, Fasmon Durjava M, Kouba M, Lopez-Alonso M, Lopez Puente S, Marcon F, Mayo B, Pechova A, Petkova M, Ramos F, Sanz Y, Villa RE, Woutersen R, Glandorf B, Svensson K, Zeljezic D, Anguita M, Brozzi R, Galobart J, Ortuno J, Revez J, Tarres-Call J, Pettenati E.	EFSA J	10.2903/j.efsa.2022.7428	2022
	Safety and efficacy of a feed additive consisting of endo-1,4-beta-xylanase produced by Komagataella phaffiiDSM 33574, and viable spores of Bacillus velezensisDSM 21836 and Bacillus licheniformisATCC 53757 (EnzaPro) for chickens for fattening, chickens reared for laying/breeding, turkeys for fattening, turkeys reared for breeding and growing minor poultry species (BioResource International (BRI), Inc.).	EFSA Panel on Additives and Products or Substances used in Animal Feed (FEEDAP), Bampidis V, Azimonti G, Bastos ML, Christensen H, Dusemund B, Fasmon Durjava M, Kouba M, Lopez-Alonso M, Lopez Puente S, Marcon F, Mayo B, Pechova A, Petkova M, Ramos F, Sanz Y, Villa RE, Woutersen R, Dierick N, Glandorf B, Martelli G, Anguita M, Brozzi R, Galobart J, Ortuno J, Pettenati E.	EFSA J	10.2903/j.efsa.2022.7606	2022
Enzymology	Birth of Archaeal Cells: Molecular Phylogenetic Analyses of G1P Dehydrogenase, G3P Dehydrogenases, and Glycerol Kinase Suggest Derived Features of Archaeal Membranes Having G1P Polar Lipids.	Yokobori SI, Nakajima Y, Akanuma S, Yamagishi A.	Archaea	10.1155/2016/1802675	2016
Metabolism	Archaea and the human gut: new beginning of an old story.	Gaci N, Borrel G, Tottey W, O'Toole PW, Brugere JF.	World J Gastroenterol	10.3748/wjg.v20.i43.16062	2014
Phylogeny	A 'universal' type II chaperonin PCR detection system for the investigation of Archaea in complex microbial communities.	Chaban B, Hill JE.	ISME J	10.1038/ismej.2011.96	2012
Enzymology	Properties of the cyanobacterial coupling factor ATPase from Spirulina platensis. I. Electrophoretic characterization and reconstitution of photophosphorylation.	Hicks DB, Yocum CF.	Arch Biochem Biophys	10.1016/0003-9861(86)90208-0	1986
Enzymology	Properties of the cyanobacterial coupling factor ATPase from Spirulina platensis. II. Activity of the purified and membrane-bound enzymes.	Hicks DB, Yocum CF.	Arch Biochem Biophys	10.1016/0003-9861(86)90209-2	1986
Phylogeny	Expanding the cultivable human archaeome: Methanobrevibacter intestini sp. nov. and strain Methanobrevibacter smithii 'GRAZ-2' from human faeces.	Weinberger V, Mohammadzadeh R, Blohs M, Kalt K, Mahnert A, Moser S, Cecovini M, Mertelj P, Zurabishvili T, Arora B, Wolf J, Shinde T, Madl T, Habisch H, Kolb D, Pernitsch D, Hingerl K, Metcalf W, Moissl-Eichinger C.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006751	2025
Phylogeny	Sphingomonas montana sp. nov., isolated from a soil sample from the Tanggula Mountain in the Qinghai Tibetan Plateau.	Manandhar P, Zhang G, Lama A, Liu F, Hu Y.	Antonie Van Leeuwenhoek	10.1007/s10482-017-0915-6	2017
Phylogeny	Oceanisphaera litoralis gen. nov., sp. nov., a novel halophilic bacterium from marine bottom sediments.	Romanenko LA, Schumann P, Zhukova NV, Rohde M, Mikhailov VV, Stackebrandt E.	Int J Syst Evol Microbiol	10.1099/ijs.0.02774-0	2003

References

#1056	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2374
#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 )
#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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Methanobrevibacter smithii (DSM 2374, F1)

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_000151225

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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