Methylocella tundrae (DSM 15673, NCIMB 13949, T4)

Name: Methylocella tundrae (DSM 15673, NCIMB 13949, T4)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1659

Type strain

Strain Designation T4

Culture col. no. DSM 15673 NCIMB 13949 T4

NCBI tax ID(s) 227605

Special Collections DSMZ Literature strains

History <- S. N. Dedysh; T4

Links

Methylocella tundrae T4 is a psychrophilic prokaryote that was isolated from sphagnum peat of tundra wetland.

psychrophilic 16S sequence

Name and taxonomic classification

SI-ID 130844

DSM 15673,NCIMB 13949,LMG 27838

@ref 20215

Last LPSN update 2026-02-09 11:18:09

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Beijerinckiaceae

Genus Methylocella

Species Methylocella tundrae

Full scientific name Methylocella tundrae Dedysh et al. 2004

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6027	MINERAL MEDIUM (DSMZ Medium 1007)		Medium recipe at MediaDive	Name: MINERAL MEDIUM (DSMZ Medium 1007) Composition: KNO3 0.25 g/l KH2PO4 0.1 g/l MgSO4 x 7 H2O 0.05 g/l CaCl2 x 2 H2O 0.01 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l CoCl2 x 6 H2O 0.0002 g/l CuCl2 x 5 H2O 0.0001 g/l ZnSO4 x 7 H2O 0.0001 g/l Na2MoO4 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6027	positive	growth	20	psychrophilic
23150	positive	minimum	5	psychrophilic
23150	positive	optimum	15	psychrophilic

Culture pH

@ref	Ability	Type	PH
23150	positive	minimum	4.2
23150	positive	optimum	5.5-6.0

Physiology and metabolism

Halophily

@ref	Salt	Growth	Tested relation	Concentration
23150	NaCl		growth	>0.8 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23150	15740 ChEBI	formate	+	carbon source
23150	16183 ChEBI	methane	+	carbon source
23150	17790 ChEBI	methanol	+	carbon source
23150	16830 ChEBI	methylamine	+	carbon source

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	photosynthesis	100	14 of 14
66794	cyanate degradation	100	3 of 3
66794	glycogen metabolism	100	5 of 5
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	gluconeogenesis	100	8 of 8
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	butanoate fermentation	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	cardiolipin biosynthesis	100	7 of 7
66794	starch degradation	90	9 of 10
66794	threonine metabolism	90	9 of 10
66794	valine metabolism	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	citric acid cycle	85.71	12 of 14
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B12 metabolism	82.35	28 of 34
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	phenol degradation	80	16 of 20
66794	propionate fermentation	80	8 of 10
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glutathione metabolism	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	glycogen biosynthesis	75	3 of 4
66794	3-phenylpropionate degradation	73.33	11 of 15
66794	pentose phosphate pathway	72.73	8 of 11
66794	vitamin B6 metabolism	72.73	8 of 11
66794	proline metabolism	72.73	8 of 11
66794	alanine metabolism	72.41	21 of 29
66794	oxidative phosphorylation	71.43	65 of 91
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	non-pathway related	71.05	27 of 38
66794	lipid metabolism	70.97	22 of 31
66794	glycolysis	70.59	12 of 17
66794	purine metabolism	70.21	66 of 94
66794	vitamin B1 metabolism	69.23	9 of 13
66794	phosphatidylethanolamine bioynthesis	69.23	9 of 13
66794	pyrimidine metabolism	68.89	31 of 45
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	lipid A biosynthesis	66.67	6 of 9
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	4-hydroxymandelate degradation	66.67	6 of 9
66794	flavin biosynthesis	66.67	10 of 15
66794	acetoin degradation	66.67	2 of 3
66794	methionine metabolism	65.38	17 of 26
66794	metabolism of disaccharids	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	tryptophan metabolism	60.53	23 of 38
66794	factor 420 biosynthesis	60	3 of 5
66794	methanofuran biosynthesis	60	3 of 5
66794	methanogenesis from CO2	58.33	7 of 12
66794	cysteine metabolism	55.56	10 of 18
66794	nitrate assimilation	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	cholesterol biosynthesis	54.55	6 of 11
66794	arginine metabolism	54.17	13 of 24
66794	ketogluconate metabolism	50	4 of 8
66794	pantothenate biosynthesis	50	3 of 6
66794	ribulose monophosphate pathway	50	1 of 2
66794	lysine metabolism	50	21 of 42
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	phenylmercury acetate degradation	50	1 of 2
66794	tyrosine metabolism	50	7 of 14
66794	glycine metabolism	50	5 of 10
66794	ethanol fermentation	50	1 of 2
66794	sulfate reduction	46.15	6 of 13
66794	d-xylose degradation	45.45	5 of 11
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	polyamine pathway	43.48	10 of 23
66794	glycine betaine biosynthesis	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	lipoate biosynthesis	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	gallate degradation	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	bile acid biosynthesis, neutral pathway	35.29	6 of 17
66794	sphingosine metabolism	33.33	2 of 6
66794	methane metabolism	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	allantoin degradation	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	degradation of pentoses	32.14	9 of 28
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	ascorbate metabolism	27.27	6 of 22
66794	toluene degradation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	degradation of sugar alcohols	25	4 of 16
66794	vitamin E metabolism	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Condition	#Acidic	-
#Condition	#Psychrophilic (<10°C)	-
#Environmental	#Terrestrial	#Wetland (Swamp)
#Host	#Plants	#Peat moss
#Climate	#Cold	#Tundra

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6027	sphagnum peat of tundra wetland	North Russia, Vorkuta region	Russia	RUS	Europe
23150	acidic Sphagnum tundra peatlands

Taxonmaps

69479

Global distribution of 16S sequence AJ555244 (>99% sequence identity) for Methylocella tundrae from Microbeatlas

Aquatic Samples	192
Soil Samples	319
Animal Samples	46
Plant Samples	56
Total Samples	613

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6027	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Database
23150	Methylocella tundrae partial 16S rRNA gene, type strain T4	AJ555244

GC content

@ref	GC-content (mol%)	Method
6027	63.3
23150	63.3	Thermal denaturation, fluorometry

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Diversity and Habitat Preferences of Cultivated and Uncultivated Aerobic Methanotrophic Bacteria Evaluated Based on pmoA as Molecular Marker.	Knief C.	Front Microbiol	10.3389/fmicb.2015.01346	2015
	Nitrous oxide respiration in acidophilic methanotrophs.	Awala SI, Gwak JH, Kim Y, Jung MY, Dunfield PF, Wagner M, Rhee SK.	Nat Commun	10.1038/s41467-024-48161-z	2024
	Synthetic design of methanotroph co-cultures and their immobilization within polymers containing magnetic nanoparticles to enhance methanol production from wheat straw-based biogas.	Patel SKS, Gupta RK, Kalia VC, Lee JK.	Bioresour Technol	10.1016/j.biortech.2022.128032	2022
	Integrating anaerobic digestion of potato peels to methanol production by methanotrophs immobilized on banana leaves.	Patel SKS, Gupta RK, Kalia VC, Lee JK.	Bioresour Technol	10.1016/j.biortech.2020.124550	2021
	Methanol production from simulated biogas mixtures by co-immobilized Methylomonas methanica and Methylocella tundrae.	Patel SKS, Kumar V, Mardina P, Li J, Lestari R, Kalia VC, Lee JK.	Bioresour Technol	10.1016/j.biortech.2018.04.096	2018
Metabolism	Hierarchical Macroporous Particles for Efficient Whole-Cell Immobilization: Application in Bioconversion of Greenhouse Gases to Methanol.	Patel SKS, Jeon MS, Gupta RK, Jeon Y, Kalia VC, Kim SC, Cho BK, Kim DR, Lee JK.	ACS Appl Mater Interfaces	10.1021/acsami.9b03420	2019
Phylogeny	From genome to evolution: investigating type II methylotrophs using a pangenomic analysis.	Samanta D, Rauniyar S, Saxena P, Sani RK.	mSystems	10.1128/msystems.00248-24	2024
	Acidophilic methanotrophs: Occurrence, diversity, and possible bioremediation applications.	Hwangbo M, Shao Y, Hatzinger PB, Chu KH.	Environ Microbiol Rep	10.1111/1758-2229.13156	2023
	Biological methanol production by immobilized Methylocella tundrae using simulated biohythane as a feed.	Patel SKS, Singh RK, Kumar A, Jeong JH, Jeong SH, Kalia VC, Kim IW, Lee JK.	Bioresour Technol	10.1016/j.biortech.2017.05.160	2017
Metabolism	Facultative methanotrophs - diversity, genetics, molecular ecology and biotechnological potential: a mini-review.	Farhan Ul Haque M, Xu HJ, Murrell JC, Crombie A.	Microbiology (Reading)	10.1099/mic.0.000977	2020
Metabolism	Potential of Immobilized Whole-Cell Methylocella tundrae as a Biocatalyst for Methanol Production from Methane.	Mardina P, Li J, Patel SK, Kim IW, Lee JK, Selvaraj C.	J Microbiol Biotechnol	10.4014/jmb.1602.02074	2016
Genetics	Targeted metagenomics using probe capture detect a larger diversity of nitrogen and methane cycling genes in complex microbial communities than traditional metagenomics.	Siljanen HMP, Manoharan L, Hilts AS, Bagnoud A, Alves RJE, Jones CM, Kerou M, Sousa FL, Hallin S, Biasi C, Schleper C.	ISME Commun	10.1093/ismeco/ycaf183	2025
	Biomethanol Production from Methane by Immobilized Co-cultures of Methanotrophs.	Patel SKS, Gupta RK, Kumar V, Kondaveeti S, Kumar A, Das D, Kalia VC, Lee JK.	Indian J Microbiol	10.1007/s12088-020-00883-6	2020
	Biosynthesis of Lactobionic Acid in Whey-Containing Medium by Microencapsulated and Free Bacteria of Pseudomonas taetrolens.	Goderska K.	Indian J Microbiol	10.1007/s12088-021-00944-4	2021
	Universal activity-based labeling method for ammonia- and alkane-oxidizing bacteria.	Sakoula D, Smith GJ, Frank J, Mesman RJ, Kop LFM, Blom P, Jetten MSM, van Kessel MAHJ, Lucker S.	ISME J	10.1038/s41396-021-01144-0	2022
Metabolism	Novel facultative Methylocella strains are active methane consumers at terrestrial natural gas seeps.	Farhan Ul Haque M, Crombie AT, Murrell JC.	Microbiome	10.1186/s40168-019-0741-3	2019
Phylogeny	Facultative methanotrophs are abundant at terrestrial natural gas seeps.	Farhan Ul Haque M, Crombie AT, Ensminger SA, Baciu C, Murrell JC.	Microbiome	10.1186/s40168-018-0500-x	2018
Metabolism	Development and Optimization of the Biological Conversion of Ethane to Ethanol Using Whole-Cell Methanotrophs Possessing Methane Monooxygenase.	Oh SH, Hwang IY, Lee OK, Won W, Lee EY.	Molecules	10.3390/molecules24030591	2019
Metabolism	Aerobic methanotrophic bacteria of cold ecosystems.	Trotsenko YA, Khmelenina VN.	FEMS Microbiol Ecol	10.1016/j.femsec.2005.02.010	2005
Metabolism	[The processes of methane formation and oxidation in the soils of the Russian arctic tundra].	Berestovskaia IuIu, Rusanov II, Vasil'eva LV, Pimenov NV.	Mikrobiologiia	10.1007/s11021-005-0055-2	2005
	Biotransformation of Methane and Carbon Dioxide Into High-Value Products by Methanotrophs: Current State of Art and Future Prospects.	Sahoo KK, Goswami G, Das D.	Front Microbiol	10.3389/fmicb.2021.636486	2021
	Sulfur and methane oxidation by a single microorganism.	Gwak JH, Awala SI, Nguyen NL, Yu WJ, Yang HY, von Bergen M, Jehmlich N, Kits KD, Loy A, Dunfield PF, Dahl C, Hyun JH, Rhee SK.	Proc Natl Acad Sci U S A	10.1073/pnas.2114799119	2022
Metabolism	Practical application of methanol-mediated mutualistic symbiosis between Methylobacterium species and a roof greening moss, Racomitrium japonicum.	Tani A, Takai Y, Suzukawa I, Akita M, Murase H, Kimbara K.	PLoS One	10.1371/journal.pone.0033800	2012
Metabolism	Lanthanide-Dependent Methylotrophs of the Family Beijerinckiaceae: Physiological and Genomic Insights.	Wegner CE, Gorniak L, Riedel S, Westermann M, Kusel K.	Appl Environ Microbiol	10.1128/aem.01830-19	2019
Metabolism	The hunt for the most-wanted chemolithoautotrophic spookmicrobes.	In 't Zandt MH, de Jong AE, Slomp CP, Jetten MS.	FEMS Microbiol Ecol	10.1093/femsec/fiy064	2018
Phylogeny	Profiling bacterial diversity in a limestone cave of the western Loess Plateau of China.	Wu Y, Tan L, Liu W, Wang B, Wang J, Cai Y, Lin X.	Front Microbiol	10.3389/fmicb.2015.00244	2015
Genetics	The genomic landscape of the verrucomicrobial methanotroph Methylacidiphilum fumariolicum SolV.	Anvar SY, Frank J, Pol A, Schmitz A, Kraaijeveld K, den Dunnen JT, Op den Camp HJ.	BMC Genomics	10.1186/1471-2164-15-914	2014
Metabolism	Gammaproteobacterial methanotrophs dominate cold methane seeps in floodplains of West Siberian rivers.	Oshkin IY, Wegner CE, Luke C, Glagolev MV, Filippov IV, Pimenov NV, Liesack W, Dedysh SN.	Appl Environ Microbiol	10.1128/aem.01539-14	2014
Phylogeny	The methanol dehydrogenase gene, mxaF, as a functional and phylogenetic marker for proteobacterial methanotrophs in natural environments.	Lau E, Fisher MC, Steudler PA, Cavanaugh CM.	PLoS One	10.1371/journal.pone.0056993	2013
Phylogeny	Diversity and functional analysis of bacterial communities associated with natural hydrocarbon seeps in acidic soils at Rainbow Springs, Yellowstone National Park.	Hamamura N, Olson SH, Ward DM, Inskeep WP.	Appl Environ Microbiol	10.1128/aem.71.10.5943-5950.2005	2005
Phylogeny	Methylocella tundrae sp. nov., a novel methanotrophic bacterium from acidic tundra peatlands.	Dedysh SN, Berestovskaya YY, Vasylieva LV, Belova SE, Khmelenina VN, Suzina NE, Trotsenko YA, Liesack W, Zavarzin GA	Int J Syst Evol Microbiol	10.1099/ijs.0.02805-0	2004

References

#6027	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15673
#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 )
#23150	Svetlana N. Dedysh, Yulia Y. Berestovskaya, Lina V. Vasylieva, Svetlana E. Belova, Valentina N. Khmelenina, Natalia E. Suzina, Yuri A. Trotsenko, Werner Liesack, George A. Zavarzin: Methylocella tundrae sp. nov., a novel methanotrophic bacterium from acidic tundra peatlands. IJSEM 54: 151 - 156 2004 ( DOI 10.1099/ijs.0.02805-0 , PubMed 14742473 )
#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 .
#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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Methylocella tundrae (DSM 15673, NCIMB 13949, T4)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Halophily

Metabolite utilization

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

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