Strain identifier

BacDive ID: 162241

Type strain: No

Species: Bradyrhizobium sp.

Strain history: K. Satsuma 17-4.

NCBI tax ID(s): 1215384 (species)

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

@ref: 67770

BacDive-ID: 162241

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Bradyrhizobium sp. JCM 18382 is a mesophilic, Gram-negative bacterium that was isolated from Riverbed sediment of Tonegawa River.

NCBI tax id

  • NCBI tax id: 1215384
  • Matching level: species

strain history

  • @ref: 67770
  • history: K. Satsuma 17-4.

doi: 10.13145/bacdive162241.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Nitrobacteraceae
  • genus: Bradyrhizobium
  • species: Bradyrhizobium sp.
  • full scientific name: Bradyrhizobium Jordan 1982
  • synonyms

    • @ref: 20215
    • synonym: Agromonas

@ref: 67770

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Nitrobacteraceae

genus: Bradyrhizobium

species: Bradyrhizobium sp.

full scientific name: Bradyrhizobium sp.

type strain: no

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.982

Culture and growth conditions

culture temp

  • @ref: 67770
  • growth: positive
  • type: growth
  • temperature: 25
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69480no99.992
69481no100

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Riverbed sediment of Tonegawa River
  • geographic location: Ibaraki Pref.
  • country: Japan
  • origin.country: JPN
  • continent: Asia

taxonmaps

  • @ref: 69479
  • File name: preview.99_843.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_297;97_582;98_669;99_843&stattab=map
  • Last taxonomy: Bradyrhizobium
  • 16S sequence: AB672634
  • Sequence Identity:
  • Total samples: 29181
  • soil counts: 14338
  • aquatic counts: 4833
  • animal counts: 6732
  • plant counts: 3278

Sequence information

16S sequences

  • @ref: 67770
  • description: Bradyrhizobium sp. 17-4 gene for 16S ribosomal RNA, partial sequence
  • accession: AB672634
  • length: 1376
  • database: ena
  • NCBI tax ID: 1215384

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bradyrhizobium sp. 17-4 JCM 18382GCA_001312945contigncbi1215384
66792Bradyrhizobium sp. 17-4 strain JCM 183821215384.3wgspatric1215384
66792Bradyrhizobium sp. JCM 183822734481923draftimg1215384

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes87.534no
gram-positiveno97.37no
anaerobicno96.466no
aerobicyes90.25no
halophileno97.011no
spore-formingno93.465no
thermophileno98.802yes
glucose-utilyes83.644no
flagellatedno65.044no
glucose-fermentno91.722no

External links

@ref: 67770

culture collection no.: JCM 18382

Reference

@idauthorstitledoi/url
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
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1