Strain identifier

BacDive ID: 134145

Type strain: Yes

Species: Methylobacter tundripaludum

Strain Designation: SV96

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

@ref: 31518

BacDive-ID: 134145

DSM-Number: 17260

keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, rod-shaped

description: Methylobacter tundripaludum SV96 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
697282strain
173365species

doi: 10.13145/bacdive134145.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Methylococcales
  • family: Methylococcaceae
  • genus: Methylobacter
  • species: Methylobacter tundripaludum
  • full scientific name: Methylobacter tundripaludum Wartiainen et al. 2006

@ref: 31518

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Methylococcales

family: Methylococcaceae

genus: Methylobacter

species: Methylobacter tundripaludum

strain designation: SV96

type strain: yes

Morphology

cell morphology

  • @ref: 31518
  • gram stain: negative
  • cell length: 1.9-2.5 µm
  • cell width: 0.8-1.3 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 31518
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
31518positivegrowth10-23psychrophilic
31518positiveoptimum23psychrophilic

culture pH

@refabilitytypepH
31518positivegrowth5.5-7.9
31518positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31518
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31518
  • spore formation: no

observation

  • @ref: 31518
  • observation: aggregates in chains

enzymes

@refvalueactivityec
31518catalase+1.11.1.6
31518cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 31518
  • sample type: soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_2572.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_194;96_1381;97_1641;98_1994;99_2572&stattab=map
  • Last taxonomy: Methylobacter tundripaludum
  • 16S sequence: AJ414655
  • Sequence Identity:
  • Total samples: 1424
  • soil counts: 179
  • aquatic counts: 1216
  • animal counts: 18
  • plant counts: 11

Sequence information

16S sequences

  • @ref: 31518
  • description: Methylobacter tundripaludum 16S ribosomal RNA, type strain SV96T
  • accession: AJ414655
  • length: 1487
  • database: nuccore
  • NCBI tax ID: 697282

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Methylobacter tundripaludum SV96GCA_000190755scaffoldncbi697282
66792Methylobacter tundripaludum SV96697282.3wgspatric697282
66792Methylobacter tundripaludum SV96648276688draftimg697282

GC content

  • @ref: 31518
  • GC-content: 47

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes65.422yes
flagellatedno62.117no
gram-positiveno98.729yes
anaerobicno93.715no
aerobicyes75.556no
halophileno95.398no
spore-formingno87.769no
glucose-utilyes72.363no
thermophileno98.726yes
glucose-fermentno84.203no

External links

@ref: 31518

culture collection no.: ATCC BAA 1195, DSM 17260

straininfo link

  • @ref: 91743
  • straininfo: 289868

literature

  • topic: Phylogeny
  • Pubmed-ID: 16403874
  • title: Methylobacter tundripaludum sp. nov., a methane-oxidizing bacterium from Arctic wetland soil on the Svalbard islands, Norway (78 degrees N).
  • authors: Wartiainen I, Hestnes AG, McDonald IR, Svenning MM
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63728-0
  • year: 2006
  • mesh: Arctic Regions, Fatty Acids, Methylococcaceae/chemistry/*classification/isolation & purification/physiology, Molecular Sequence Data, Norway, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, *Soil Microbiology, Species Specificity
  • topic2: Genetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournal
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
31518Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172781328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
69479João 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 betahttps://microbeatlas.org/
91743Reimer, 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 identifiers10.60712/SI-ID289868.1