Strain identifier
BacDive ID: 132245
Type strain:
Species: Rhizobium binae
Strain Designation: BLR195
Strain history: <- Md. Harun-or Rashid, Bangladesh Institute of Nuclear agriculture, Mymensingh; BLR195
NCBI tax ID(s): 1138190 (species)
General
@ref: 24034
BacDive-ID: 132245
DSM-Number: 29288
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Rhizobium binae BLR195 is a mesophilic bacterium that was isolated from effective root nodules of lentil .
NCBI tax id
- NCBI tax id: 1138190
- Matching level: species
strain history
- @ref: 24034
- history: <- Md. Harun-or Rashid, Bangladesh Institute of Nuclear agriculture, Mymensingh; BLR195
doi: 10.13145/bacdive132245.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Rhizobiaceae
- genus: Rhizobium
- species: Rhizobium binae
- full scientific name: Rhizobium binae Rashid et al. 2015
@ref: 24034
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Rhizobiaceae
genus: Rhizobium
species: Rhizobium binae
full scientific name: Rhizobium binae Rashid et al. 2015
strain designation: BLR195
type strain: yes
Culture and growth conditions
culture medium
- @ref: 24034
- name: RHIZOBIUM MEDIUM (DSMZ Medium 98)
- growth: yes
- link: https://mediadive.dsmz.de/medium/98
- composition: Name: RHIZOBIUM MEDIUM (DSMZ Medium 98) Composition: air-dried garden soil 80.0 g/l Agar 15.0 g/l Mannitol 10.0 g/l Yeast extract 1.0 g/l Na2CO3 0.2 g/l Distilled water
culture temp
- @ref: 24034
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | - | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 27689 | decanoate | - | assimilation |
68369 | 24265 | gluconate | - | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16899 | D-mannitol | - | assimilation |
68369 | 16024 | D-mannose | - | assimilation |
68369 | 30849 | L-arabinose | - | assimilation |
68369 | 17634 | D-glucose | - | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 16199 | urea | + | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68369 | gelatinase | - | |
68369 | urease | + | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
24034 | +/- | - | - | - | + | +/- | - | + | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 24034
- sample type: effective root nodules of lentil (Lens culinaris)
- host species: Lens culinaris
- geographic location: Feni district, Sarishadi
- country: Bangladesh
- origin.country: BGD
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Herbaceous plants (Grass,Crops) |
#Host Body-Site | #Plant | #Root nodule |
taxonmaps
- @ref: 69479
- File name: preview.99_77.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_62;97_65;98_70;99_77&stattab=map
- Last taxonomy: Rhizobium
- 16S sequence: JN648932
- Sequence Identity:
- Total samples: 333
- soil counts: 50
- aquatic counts: 32
- animal counts: 28
- plant counts: 223
Safety information
risk assessment
- @ref: 24034
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24034
- description: Rhizobium binae strain BLR195 16S ribosomal RNA gene, partial sequence
- accession: JN648932
- length: 1469
- database: ena
- NCBI tax ID: 1138190
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Rhizobium binae BLR195 | GCA_017357225 | complete | ncbi | 1138190 |
66792 | Rhizobium binae BLR195 | GCA_019684455 | contig | ncbi | 1138190 |
66792 | Rhizobium binae DSM 29288 | 2928991799 | draft | img | 1138190 |
GC content
- @ref: 24034
- GC-content: 61.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 85.089 | no |
gram-positive | no | 97.833 | no |
anaerobic | no | 98.296 | no |
aerobic | yes | 92.28 | no |
halophile | no | 93.62 | no |
spore-forming | no | 93.852 | no |
thermophile | no | 99.286 | yes |
glucose-util | yes | 85.783 | no |
motile | yes | 82.905 | no |
glucose-ferment | no | 89.175 | yes |
External links
@ref: 24034
culture collection no.: DSM 29288, LMG 28443
straininfo link
- @ref: 90595
- straininfo: 396482
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 26060217 | Average nucleotide identity of genome sequences supports the description of Rhizobium lentis sp. nov., Rhizobium bangladeshense sp. nov. and Rhizobium binae sp. nov. from lentil (Lens culinaris) nodules. | Rashid MH, Young JPW, Everall I, Clercx P, Willems A, Santhosh Braun M, Wink M | Int J Syst Evol Microbiol | 10.1099/ijs.0.000373 | 2015 | Base Sequence, DNA Fingerprinting, DNA, Bacterial/genetics, Fabaceae, Fatty Acids/chemistry, Lens Plant, Molecular Sequence Data, Nucleic Acid Hybridization/genetics, Nucleotides, Phylogeny, Plant Roots, RNA, Ribosomal, 16S/genetics, Rhizobium/classification/*genetics, Sequence Analysis, DNA, Symbiosis/genetics | Genetics |
Phylogeny | 27236564 | The symbiovar trifolii of Rhizobium bangladeshense and Rhizobium aegyptiacum sp. nov. nodulate Trifolium alexandrinum in Egypt. | Shamseldin A, Carro L, Peix A, Velazquez E, Moawad H, Sadowsky MJ | Syst Appl Microbiol | 10.1016/j.syapm.2016.05.002 | 2016 | Base Composition, Base Sequence, DNA, Bacterial/genetics, Egypt, Genes, Essential/genetics, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Rhizobium/*classification/*genetics/isolation & purification, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, Symbiosis, Transcription Factors/genetics, Trifolium/*microbiology | Phenotype |
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
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 | |
24034 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29288 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29288) | |
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 | |
68369 | Automatically annotated from API 20NE | |||
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/ | |
90595 | Reimer, 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 identifiers | 10.60712/SI-ID396482.1 |