Strain identifier

BacDive ID: 7191

Type strain: Yes

Species: Methylobacterium persicinum

Strain Designation: 002-165

Strain history: <- Y. Kato, Microbiol. and Analytical Group, Food Res. Lab., Mitsui Norin Co. Ltd., Shizuoka, Japan; 002-165

NCBI tax ID(s): 374426 (species)

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General

@ref: 8177

BacDive-ID: 7191

DSM-Number: 19562

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, ovoid-shaped

description: Methylobacterium persicinum 002-165 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water sample from a food factory.

NCBI tax id

  • NCBI tax id: 374426
  • Matching level: species

strain history

  • @ref: 8177
  • history: <- Y. Kato, Microbiol. and Analytical Group, Food Res. Lab., Mitsui Norin Co. Ltd., Shizuoka, Japan; 002-165

doi: 10.13145/bacdive7191.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Methylobacteriaceae
  • genus: Methylobacterium
  • species: Methylobacterium persicinum
  • full scientific name: Methylobacterium persicinum Kato et al. 2008

@ref: 8177

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Methylobacteriaceae

genus: Methylobacterium

species: Methylobacterium persicinum

full scientific name: Methylobacterium persicinum Kato et al. 2008

strain designation: 002-165

type strain: yes

Morphology

cell morphology

  • @ref: 32496
  • gram stain: negative
  • cell length: 3.3 µm
  • cell width: 1.25 µm
  • cell shape: ovoid-shaped
  • motility: yes

pigmentation

  • @ref: 32496
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 8177
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
8177positivegrowth28mesophilic
32496positivegrowth10-35
32496positiveoptimum27.5mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 32496
  • oxygen tolerance: aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3249630089acetate+carbon source
3249622599arabinose+carbon source
3249618222xylose+carbon source

enzymes

@refvalueactivityec
32496catalase+1.11.1.6
32496cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 8177
  • sample type: water sample from a food factory
  • country: Japan
  • origin.country: JPN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Food
#Engineered#Industrial#Plant (Factory)
#Environmental#Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_93270.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15368;96_285;97_11230;98_13804;99_93270&stattab=map
  • Last taxonomy: Methylobacterium persicinum
  • 16S sequence: AB252202
  • Sequence Identity:
  • Total samples: 689
  • soil counts: 116
  • aquatic counts: 217
  • animal counts: 272
  • plant counts: 84

Safety information

risk assessment

  • @ref: 8177
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 8177
  • description: Methylobacterium persicinum gene for 16S rRNA, partial sequence, strain: 002-165
  • accession: AB252202
  • length: 1437
  • database: ena
  • NCBI tax ID: 374426

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Methylobacterium persicinum DSM 195622928273650draftimg374426
66792Methylobacterium persicinum NBRC 103628GCA_022179525contigncbi374426

GC content

@refGC-contentmethod
817767.1high performance liquid chromatography (HPLC)
3249667.1

External links

@ref: 8177

culture collection no.: DSM 19562, NBRC 103628, NCIMB 14378

straininfo link

  • @ref: 76644
  • straininfo: 399550

literature

  • topic: Phylogeny
  • Pubmed-ID: 18450702
  • title: Methylobacterium persicinum sp. nov., Methylobacterium komagatae sp. nov., Methylobacterium brachiatum sp. nov., Methylobacterium tardum sp. nov. and Methylobacterium gregans sp. nov., isolated from freshwater.
  • authors: Kato Y, Asahara M, Goto K, Kasai H, Yokota A
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65583-0
  • year: 2008
  • mesh: Bacterial Typing Techniques, Base Composition, DNA Gyrase/genetics, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Food Industry, Fresh Water/*microbiology, Genes, rRNA, Japan, Methylobacterium/chemistry/*classification/genetics/*isolation & purification, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8177Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19562)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19562
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
32496Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2871628776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
76644Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399550.1StrainInfo: A central database for resolving microbial strain identifiers