Strain identifier
BacDive ID: 132244
Type strain: 
Species: Rhizobium bangladeshense
Strain Designation: BLR175
Strain history: <- Md. Harun-or Rashid, Bangladesh Institute of Nuclear agriculture, Mymensingh; BLR175
NCBI tax ID(s): 1138189 (species)
version 8.1 (current version)
General
@ref: 24033
BacDive-ID: 132244
DSM-Number: 29287
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Rhizobium bangladeshense BLR175 is a mesophilic, Gram-negative bacterium that was isolated from effective root nodules of lentil .
NCBI tax id
- NCBI tax id: 1138189
- Matching level: species
strain history
- @ref: 24033
- history: <- Md. Harun-or Rashid, Bangladesh Institute of Nuclear agriculture, Mymensingh; BLR175
doi: 10.13145/bacdive132244.20230509.8.1
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 bangladeshense
- full scientific name: Rhizobium bangladeshense Rashid et al. 2015
@ref: 24033
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Rhizobiaceae
genus: Rhizobium
species: Rhizobium bangladeshense
full scientific name: Rhizobium bangladeshense Rashid et al. 2015
strain designation: BLR175
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.996
Culture and growth conditions
culture medium
- @ref: 24033
- 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: 24033
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.998 |
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 | 4853 | esculin | + | hydrolysis |
| 68369 | 16199 | urea | + | hydrolysis |
| 68369 | 29016 | arginine | - | hydrolysis |
| 68369 | 17634 | D-glucose | - | fermentation |
| 68369 | 27897 | tryptophan | - | energy source |
| 68369 | 17632 | nitrate | - | reduction |
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 | beta-glucosidase | + | 3.2.1.21 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 24033 | - | - | - | - | + | + | - | + | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 24033
- sample type: effective root nodules of lentil (Lens culinaris )
- host species: Lens culinaris
- geographic location: Khulna district, Mohammadpur
- 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: JN648931
- Sequence Identity:
- Total samples: 333
- soil counts: 50
- aquatic counts: 32
- animal counts: 28
- plant counts: 223
Safety information
risk assessment
- @ref: 24033
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24033
- description: Rhizobium bangladeshense strain BLR175 16S ribosomal RNA gene, partial sequence
- accession: JN648931
- length: 1469
- database: ena
- NCBI tax ID: 1138189
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhizobium bangladeshense BLR175 | GCA_017357245 | complete | ncbi | 1138189 |
| 66792 | Rhizobium bangladeshense BLR175 | GCA_019684215 | contig | ncbi | 1138189 |
| 66792 | Rhizobium bangladeshense DSM 29287 | 2928359186 | draft | img | 1138189 |
GC content
- @ref: 24033
- GC-content: 61.0
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 83.647 | no |
| gram-positive | no | 97.887 | no |
| anaerobic | no | 98.498 | no |
| aerobic | yes | 90.974 | no |
| halophile | no | 94.189 | no |
| spore-forming | no | 93.827 | no |
| thermophile | no | 98.797 | yes |
| glucose-util | yes | 82.18 | yes |
| motile | yes | 84.207 | no |
| glucose-ferment | no | 89.253 | yes |
External links
@ref: 24033
culture collection no.: DSM 29287, LMG 28442
straininfo link
- @ref: 90594
- straininfo: 396481
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 |
| Genetics | 28163823 | Draft genome sequence of type strain HBR26(T) and description of Rhizobium aethiopicum sp. nov. | Aserse AA, Woyke T, Kyrpides NC, Whitman WB, Lindstrom K | Stand Genomic Sci | 10.1186/s40793-017-0220-z | 2017 | Phylogeny |
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 | |
| 24033 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29287 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29287) | |
| 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/ | |
| 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 | |
| 90594 | 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-ID396481.1 |