Strain identifier
BacDive ID: 162241
Type strain:
Species: Bradyrhizobium sp.
Strain history: K. Satsuma 17-4.
NCBI tax ID(s): 1215384 (species)
version 8.1 (current version)
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
@ref | spore formation | confidence |
---|---|---|
69480 | no | 99.992 |
69481 | no | 100 |
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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Bradyrhizobium sp. 17-4 JCM 18382 | GCA_001312945 | contig | ncbi | 1215384 |
66792 | Bradyrhizobium sp. 17-4 strain JCM 18382 | 1215384.3 | wgs | patric | 1215384 |
66792 | Bradyrhizobium sp. JCM 18382 | 2734481923 | draft | img | 1215384 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 87.534 | no |
gram-positive | no | 97.37 | no |
anaerobic | no | 96.466 | no |
aerobic | yes | 90.25 | no |
halophile | no | 97.011 | no |
spore-forming | no | 93.465 | no |
thermophile | no | 98.802 | yes |
glucose-util | yes | 83.644 | no |
flagellated | no | 65.044 | no |
glucose-ferment | no | 91.722 | no |
External links
@ref: 67770
culture collection no.: JCM 18382
Reference
@id | authors | title | doi/url |
---|---|---|---|
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 | 10.1099/ijsem.0.004332 |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
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 | https://microbeatlas.org/ |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |