Name: Methanonatronarchaeum thermophilum AMET1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 158342

Type strain:

Species: Methanonatronarchaeum thermophilum

Strain Designation: AMET1

Culture col. no.: DSM 28684, NBRC 110805, UNIQEM U982

Strain history: <- D. Sorokin, Dept. Biotechnol., Delft Univ. Technol., Netherlands; AMET1 <- D. Y. Sorokin {2014}

NCBI tax ID(s): 1927129 (species)

SI-ID 407686

DSM 28684

Special Collections

Section

Methanonatronarchaeum thermophilum AMET1 is an obligate anaerobe, extremely halophilic, heterotroph archaeon that forms oval colonies and was isolated from sediments from a hypersaline soda lake.

coccus-shaped
colony-forming
motile
extremely halophilic
heterotroph
obligate anaerobe
16S sequence
Archaea
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Methanobacteriota*
	Class	*Methanonatronarchaeia*
	Order	*Methanonatronarchaeales*
	Family	*Methanonatronarchaeaceae*
	Genus	*Methanonatronarchaeum*
	Species	**Methanonatronarchaeum thermophilum**
	Full Scientific Name (LPSN)	Methanonatronarchaeum thermophilum Sorokin et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66576]	Cell length	0.4-0.5 µm

[Ref.: #66576]	Cell shape	coccus-shaped

[Ref.: #66576]	Motility	yes

[Ref.: #66576]	Colony size	1 mm
[Ref.: #66576]	Colony color	yellowish
[Ref.: #66576]	Colony shape	oval

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65018]

Culture medium

METHANONATRONARCHAEUM MEDIUM (DSMZ Medium 1597a)

[Ref.: #65018]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #65018]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #65018]	growth	50 °C
[Ref.: #66576]	optimum	50 °C
[Ref.: #66576]	growth	30-60 °C

	pH	Kind of pH		pH
[Ref.: #66576]			optimum	9.5-9.7
[Ref.: #66576]			growth	8.2-10.2

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66576]

Oxygen tolerance

obligate anaerobe

[Ref.: #66576]

Nutrition type

heterotroph

[Ref.: #66576]

Halophily / tolerance level

extremely halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66576]		NaCl		growth	3-4.8	M
[Ref.: #66576]		NaCl		optimum	4	M

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66576]	acetic acid ChEBI	+	carbon source
[Ref.: #66576]	acetic acid ChEBI	-	growth
[Ref.: #66576]	dihydrogen ChEBI	+	electron donor
[Ref.: #66576]	dimethyl sulfide ChEBI	+	electron acceptor
[Ref.: #66576]	formate ChEBI	+	electron donor
[Ref.: #66576]	methanol ChEBI	+	electron acceptor
[Ref.: #66576]	methylamine ChEBI	+	electron acceptor
[Ref.: #66576]	yeast extract	+	carbon source

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	flavin biosynthesis	86.67	13 of 15
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	coenzyme M biosynthesis	70	7 of 10
[Ref.: #66794]	vitamin B1 metabolism	69.23	9 of 13
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	methanogenesis from CO2	66.67	8 of 12
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	NAD metabolism	66.67	12 of 18
[Ref.: #66794]	pyrimidine metabolism	64.44	29 of 45
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	vitamin B12 metabolism	61.76	21 of 34
[Ref.: #66794]	purine metabolism	60.64	57 of 94
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	arginine metabolism	54.17	13 of 24
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	glutamate and glutamine metabolism	53.57	15 of 28
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	acetate fermentation	50	2 of 4
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	50	1 of 2
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	alanine metabolism	48.28	14 of 29
[Ref.: #66794]	non-pathway related	47.37	18 of 38
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	46.15	6 of 13
[Ref.: #66794]	histidine metabolism	44.83	13 of 29
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	tryptophan metabolism	42.11	16 of 38
[Ref.: #66794]	lipid metabolism	41.94	13 of 31
[Ref.: #66794]	lysine metabolism	40.48	17 of 42
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	Entner Doudoroff pathway	40	4 of 10
[Ref.: #66794]	cysteine metabolism	38.89	7 of 18
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	acetoin degradation	33.33	1 of 3
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	formaldehyde oxidation	33.33	1 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	L-lactaldehyde degradation	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	isoprenoid biosynthesis	30.77	8 of 26
[Ref.: #66794]	urea cycle	30.77	4 of 13
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	tetrahydrofolate metabolism	28.57	4 of 14
[Ref.: #66794]	propanol degradation	28.57	2 of 7
[Ref.: #66794]	citric acid cycle	28.57	4 of 14
[Ref.: #66794]	oxidative phosphorylation	28.57	26 of 91
[Ref.: #66794]	degradation of pentoses	28.57	8 of 28
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	glutathione metabolism	28.57	4 of 14
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	ppGpp biosynthesis	25	1 of 4
[Ref.: #66794]	sulfopterin metabolism	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	butanoate fermentation	25	1 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #65018]	Sample type/isolated from	sediments from a hypersaline soda lake
[Ref.: #65018]	Geographic location (country and/or sea, region)	Southeast Siberia, Altai
[Ref.: #65018]	Country	Russia
[Ref.: #65018]	Country ISO 3 Code	RUS
[Ref.: #65018]	Continent	Europe

[Ref.: #66576]	Sample type/isolated from	anaerobic sediments of hypersaline chloride-sulfate and soda lakes
[Ref.: #66576]	Sampling date	2013 - 2015
[Ref.: #66576]	Geographic location (country and/or sea, region)	Kulunda Steppe, Altai
[Ref.: #66576]	Country	Russia
[Ref.: #66576]	Country ISO 3 Code	RUS
[Ref.: #66576]	Continent	Asia
[Ref.: #66576]	Enrichment culture	mineral base medium
[Ref.: #66576]	Enrichment culture composition	containing 4 M total Na+ (2 M Na+ as sodium carbonates + 2 M NaCl), 5 g/l KCl and and 1 g/l K2HPO4 at pH 9.5 (4 mM NH4Cl was added after sterilization), MeOH+formate
[Ref.: #66576]	Enrichment culture temperature	48 ̊C
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment
#Condition	#Saline	-
#Condition	#Alkaline	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KY449317 (>99% sequence identity) for Methanonatronarchaeum thermophilum subclade from Microbeatlas

Aquatic Samples	3
Soil Samples
Animal Samples
Plant Samples
Total Samples	3

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #65018]	Methanonatronarchaeum thermophilum from Russia 16S ribosomal RNA gene, partial sequence	KY449317	1472	GenBank ENA	1927129 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methanonatronarchaeum thermophilum AMET1	GCA_002153915	contig	GenBank ENA	1927129 tax ID	*
[Ref.: #66792]	Methanonatronarchaeum thermophilum AMET1	2786546529	draft	JGI IMG/M	1927129 tax ID	*

[Ref.: #66576]

GC-content

38.00 mol%

genome sequence analysis

Availability in culture collections External links

[Ref.: #65018]

Culture collection no.

DSM 28684, NBRC 110805, UNIQEM U982

[Ref.: #111147]

SI-ID 407686

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methanonatronarchaeum thermophilum gen. nov., sp. nov. and 'Candidatus Methanohalarchaeum thermophilum', extremely halo(natrono)philic methyl-reducing methanogens from hypersaline lakes comprising a new euryarchaeal class Methanonatronarchaeia classis nov.	Sorokin DY, Merkel AY, Abbas B, Makarova KS, Rijpstra WIC, Koenen M, Sinninghe Damste JS, Galinski EA, Koonin EV, van Loosdrecht MCM	Int J Syst Evol Microbiol	10.1099/ijsem.0.002810	2018	*
	Proteomic Analysis of Methanonatronarchaeum thermophilum AMET1, a Representative of a Putative New Class of Euryarchaeota, "Methanonatronarchaeia".	Ferrer M, Sorokin DY, Wolf YI, Ciordia S, Mena MC, Bargiela R, Koonin EV, Makarova KS	Genes (Basel)	10.3390/genes9020028	2018	*

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 )

#65018

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28684

#66576

Dimitry Y. Sorokin, Alexander Y. Merkel, Ben Abbas, Kira S. Makarova, W. Irene C. Rijpstra, M. Koenen, Jaap S. Sinninghe Damsté, Erwin A. Galinski, Eugene V. Koonin and Mark C. M. van Loosdrecht: Methanonatronarchaeum thermophilum gen. nov., sp. nov. and 'Candidatus Methanohalarchaeum thermophilum', extremely halo(natrono)philic methyl-reducing methanogens from hypersaline lakes comprising a new euryarchaeal class Methanonatronarchaeia classis nov.. IJSEM 68: 2199 - 2208 2018 ( DOI 10.1099/ijsem.0.002810 , PubMed 29781801 )

#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) .

#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 )

#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 .

#111147

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID407686.1 )

* These data were automatically processed and therefore are not curated

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