Methanobacterium lacus (DSM 24406, JCM 17760, 17A1)

Name: Methanobacterium lacus (DSM 24406, JCM 17760, 17A1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6956

Type strain

Strain Designation 17A1

Culture col. no. DSM 24406 JCM 17760 17A1

NCBI tax ID(s) 877455

Special Collections DSMZ JCM Literature strains

History <- G. Borrel, Clermont Université, Clermont-Ferrand, France; 17A1 <- G. Borrel; {2008} G. Borrel 17A1.

Links

Methanobacterium lacus 17A1 is an anaerobe, Gram-negative, rod-shaped archaeon that was isolated from deep cold sediment of meromictic lake.

Gram-negative rod-shaped anaerobe 16S sequence Archaea

Name and taxonomic classification

SI-ID 398368

JCM 17760,DSM 24406

@ref 20215

Last LPSN update 2026-02-09 11:19:21

Domain Archaea

Phylum Methanobacteriota

Class Methanobacteria

Order Methanobacteriales

Family Methanobacteriaceae

Genus Methanobacterium

Species Methanobacterium lacus

Full scientific name Methanobacterium lacus Borrel et al. 2012

BacDive ID	Other strains from **Methanobacterium lacus** (1)	Type strain
140044	M. lacus AL21, DSM 25616

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell shape	Motility
30371	negative	8.5 µm	rod-shaped

Colony morphology

17659

Incubation period8-14 days

Pigmentation

30371

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
17659	METHANOBACTERIUM II MEDIUM (DSMZ Medium 825)		Medium recipe at MediaDive	Name: METHANOBACTERIUM II MEDIUM (DSMZ Medium 825) Composition: NaHCO3 3.95648 g/l NH4Cl 0.98912 g/l Yeast extract 0.98912 g/l Na2S x 9 H2O 0.49456 g/l Na-acetate 0.49456 g/l L-Cysteine HCl x H2O 0.49456 g/l K2HPO4 0.296736 g/l KH2PO4 0.296736 g/l MgCl2 x 6 H2O 0.197824 g/l KCl 0.098912 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l CoSO4 x 7 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.00178042 g/l FeSO4 x 7 H2O 0.00098912 g/l CaCl2 x 2 H2O 0.00098912 g/l Sodium resazurin 0.00049456 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l CuSO4 x 5 H2O 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
17659	positive	growth	30
30371	positive	growth	14-40
30371	positive	optimum	30
67770	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
30371	positive	optimum	6.5
30371	positive	growth	5-8.6	alkaliphile

Physiology and metabolism

Oxygen tolerance

17659

Oxygen toleranceanaerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30371	NaCl	positive	optimum	0.58 %

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	coenzyme A metabolism	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	hydrogen production	100	5 of 5
66794	ribulose monophosphate pathway	100	2 of 2
66794	ethanol fermentation	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	acetate fermentation	100	4 of 4
66794	ubiquinone biosynthesis	100	7 of 7
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	flavin biosynthesis	93.33	14 of 15
66794	coenzyme M biosynthesis	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	phenylalanine metabolism	84.62	11 of 13
66794	methanofuran biosynthesis	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	valine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	palmitate biosynthesis	77.27	17 of 22
66794	methanogenesis from CO2	75	9 of 12
66794	NAD metabolism	72.22	13 of 18
66794	pyrimidine metabolism	71.11	32 of 45
66794	vitamin B12 metabolism	70.59	24 of 34
66794	threonine metabolism	70	7 of 10
66794	vitamin B1 metabolism	69.23	9 of 13
66794	purine metabolism	67.02	63 of 94
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	nitrate assimilation	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	photosynthesis	64.29	9 of 14
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	gluconeogenesis	62.5	5 of 8
66794	methylglyoxal degradation	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	cellulose degradation	60	3 of 5
66794	glycolysis	58.82	10 of 17
66794	non-pathway related	57.89	22 of 38
66794	reductive acetyl coenzyme A pathway	57.14	4 of 7
66794	heme metabolism	57.14	8 of 14
66794	tyrosine metabolism	57.14	8 of 14
66794	citric acid cycle	57.14	8 of 14
66794	serine metabolism	55.56	5 of 9
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	alanine metabolism	55.17	16 of 29
66794	proline metabolism	54.55	6 of 11
66794	methionine metabolism	53.85	14 of 26
66794	leucine metabolism	53.85	7 of 13
66794	glutamate and glutamine metabolism	53.57	15 of 28
66794	peptidoglycan biosynthesis	53.33	8 of 15
66794	lysine metabolism	52.38	22 of 42
66794	CMP-KDO biosynthesis	50	2 of 4
66794	biotin biosynthesis	50	2 of 4
66794	pantothenate biosynthesis	50	3 of 6
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	myo-inositol biosynthesis	50	5 of 10
66794	vitamin E metabolism	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	C4 and CAM-carbon fixation	50	4 of 8
66794	cysteine metabolism	50	9 of 18
66794	glycogen biosynthesis	50	2 of 4
66794	histidine metabolism	48.28	14 of 29
66794	tryptophan metabolism	47.37	18 of 38
66794	oxidative phosphorylation	46.15	42 of 91
66794	urea cycle	46.15	6 of 13
66794	arginine metabolism	45.83	11 of 24
66794	lipid metabolism	45.16	14 of 31
66794	lipid A biosynthesis	44.44	4 of 9
66794	propanol degradation	42.86	3 of 7
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	glutathione metabolism	42.86	6 of 14
66794	tetrahydrofolate metabolism	42.86	6 of 14
66794	glycogen metabolism	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	ketogluconate metabolism	37.5	3 of 8
66794	pentose phosphate pathway	36.36	4 of 11
66794	vitamin B6 metabolism	36.36	4 of 11
66794	isoprenoid biosynthesis	34.62	9 of 26
66794	methane metabolism	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	Entner Doudoroff pathway	30	3 of 10
66794	mevalonate metabolism	28.57	2 of 7
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	metabolism of disaccharids	27.27	3 of 11
66794	3-phenylpropionate degradation	26.67	4 of 15
66794	phenol degradation	25	5 of 20
66794	lactate fermentation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	degradation of pentoses	25	7 of 28
66794	sulfopterin metabolism	25	1 of 4
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	polyamine pathway	21.74	5 of 23

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment
#Condition	#Psychrophilic (<10°C)	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
17659	deep cold sediment of meromictic lake	Lake Pavin, Auvergne	France	FRA	Europe
67770	Deep sediment of the meromictic Lake Pavin		France	FRA	Europe

Taxonmaps

69479

Global distribution of 16S sequence HQ110085 (>99% sequence identity) for Methanobacterium lacus subclade from Microbeatlas

Aquatic Samples	319
Soil Samples	375
Animal Samples	6
Plant Samples	20
Total Samples	720

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17659	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17659	Methanobacterium lacus strain 17A1 16S ribosomal RNA gene, partial sequence	HQ110085	1351		877455

GC content

@ref	GC-content (mol%)	Method
17659	37	high performance liquid chromatography (HPLC)
30371	37

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methanobacterium lacus sp. nov., isolated from the profundal sediment of a freshwater meromictic lake.	Borrel G, Joblin K, Guedon A, Colombet J, Tardy V, Lehours AC, Fonty G	Int J Syst Evol Microbiol	10.1099/ijs.0.034538-0	2011

References

#17659	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24406
#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 )
#26711	IJSEM 1625 2012 ( DOI 10.1099/ijs.0.034538-0 , PubMed 21890730 )
#30371	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 #26711
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#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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Methanobacterium lacus (DSM 24406, JCM 17760, 17A1)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

BacDive

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