Archive BacDiveID:10.13145/bacdive1659.20230509.8.1

Strain identifier

BacDive ID: 1659

Type strain:

Species: Methylocella tundrae

Strain Designation: T4

Strain history: <- S. N. Dedysh; T4

NCBI tax ID(s): 227605 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 6027

BacDive-ID: 1659

DSM-Number: 15673

keywords: 16S sequence, Bacteria, psychrophilic

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

NCBI tax id

NCBI tax id: 227605
Matching level: species

strain history

@ref: 6027
history: <- S. N. Dedysh; T4

doi: 10.13145/bacdive1659.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Alphaproteobacteria
order: Hyphomicrobiales
family: Beijerinckiaceae
genus: Methylocella
species: Methylocella tundrae
full scientific name: Methylocella tundrae Dedysh et al. 2004

@ref: 6027

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Beijerinckiaceae

genus: Methylocella

species: Methylocella tundrae

full scientific name: Methylocella tundrae Dedysh et al. 2004

strain designation: T4

type strain: yes

Culture and growth conditions

culture medium

@ref: 6027
name: MINERAL MEDIUM (DSMZ Medium 1007)
growth: yes
link: https://mediadive.dsmz.de/medium/1007
composition: 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	range
6027	positive	growth	20	psychrophilic
23150	positive	minimum	5	psychrophilic
23150	positive	optimum	15	psychrophilic

culture pH

@ref	ability	type	pH
23150	positive	optimum	5.5-6.0
23150	positive	minimum	4.2

Physiology and metabolism

halophily

@ref: 23150
salt: NaCl
growth: no
tested relation: growth
concentration: >0.8 %(w/v)

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
23150	15740	formate	+	carbon source
23150	16183	methane	+	carbon source
23150	17790	methanol	+	carbon source
23150	16830	methylamine	+	carbon source

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent
6027	sphagnum peat of tundra wetland	North Russia, Vorkuta region	Russia	RUS	Europe
23150	acidic Sphagnum tundra peatlands

isolation source categories

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

taxonmaps

@ref: 69479
File name: preview.99_78170.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_841;97_983;98_1161;99_78170&stattab=map
Last taxonomy: Methylocella tundrae
16S sequence: AJ555244
Sequence Identity:
Total samples: 613
soil counts: 319
aquatic counts: 192
animal counts: 46
plant counts: 56

Safety information

risk assessment

@ref: 6027
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 23150
description: 16S rRNA
accession: AJ555244
database: nuccore

GC content

@ref	GC-content	method
6027	63.3
23150	63.3	Thermal denaturation, fluorometry

External links

@ref: 6027

culture collection no.: DSM 15673, NCIMB 13949

straininfo link

@ref: 71306
straininfo: 130844

literature

topic: Phylogeny
Pubmed-ID: 14742473
title: Methylocella tundrae sp. nov., a novel methanotrophic bacterium from acidic tundra peatlands.
authors: Dedysh SN, Berestovskaya YY, Vasylieva LV, Belova SE, Khmelenina VN, Suzina NE, Trotsenko YA, Liesack W, Zavarzin GA
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijs.0.02805-0
year: 2004
mesh: Carbon/metabolism, Cold Climate, Enzymes/metabolism, Fatty Acids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, Phylogeny, Rhizobiaceae/*classification/cytology/genetics/isolation & purification, Russia, Serine/metabolism, *Soil Microbiology
topic2: Metabolism

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
6027	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15673)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-15673
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
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		10.1099/ijs.0.02805-0	Methylocella tundrae sp. nov., a novel methanotrophic bacterium from acidic tundra peatlands	IJSEM 54: 151-156 2004	14742473
66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg		10.1093/nar/gkaa1025	BRENDA, the ELIXIR core data resource in 2021: new developments and updates	Nucleic Acids Res. 49: D498-D508 2020	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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
71306	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID130844.1	StrainInfo: A central database for resolving microbial strain identifiers