Strain identifier

BacDive ID: 132243

Type strain: Yes

Species: Rhizobium lentis

Strain Designation: BLR27

Strain history: <- Md. Harun-or Rashid, Bangladesh Institute of Nuclear agriculture, Mymensingh; BLR27

NCBI tax ID(s): 1138194 (species)

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General

@ref: 24032

BacDive-ID: 132243

DSM-Number: 29286

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile

description: Rhizobium lentis BLR27 is a mesophilic, motile bacterium that was isolated from effective root nodules of lentil .

NCBI tax id

  • NCBI tax id: 1138194
  • Matching level: species

strain history

  • @ref: 24032
  • history: <- Md. Harun-or Rashid, Bangladesh Institute of Nuclear agriculture, Mymensingh; BLR27

doi: 10.13145/bacdive132243.20230509.8.1

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 lentis
  • full scientific name: Rhizobium lentis Rashid et al. 2015

@ref: 24032

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Rhizobiaceae

genus: Rhizobium

species: Rhizobium lentis

full scientific name: Rhizobium lentis Rashid et al. 2015

strain designation: BLR27

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes91.573
6948099.846negative

Culture and growth conditions

culture medium

  • @ref: 24032
  • 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: 24032
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.99

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
24032----++-+------+-----+
24032-------+------------

Isolation, sampling and environmental information

isolation

  • @ref: 24032
  • sample type: effective root nodules of lentil (Lens culinaris)
  • host species: Lens culinaris
  • geographic location: Natore district, Bagatipara
  • country: Bangladesh
  • origin.country: BGD
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#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: JN648905
  • Sequence Identity:
  • Total samples: 333
  • soil counts: 50
  • aquatic counts: 32
  • animal counts: 28
  • plant counts: 223

Safety information

risk assessment

  • @ref: 24032
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24032
  • description: Rhizobium lentis strain BLR27 16S ribosomal RNA gene, partial sequence
  • accession: JN648905
  • length: 1469
  • database: ena
  • NCBI tax ID: 1138194

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rhizobium lentis BLR27GCA_017352135completencbi1138194
66792Rhizobium lentis BLR27GCA_019684715scaffoldncbi1138194
66792Rhizobium lentis DSM 292862928373995draftimg1138194

GC content

  • @ref: 24032
  • GC-content: 61.1
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno79.634no
gram-positiveno98.101no
anaerobicno98.634no
aerobicyes91.638no
halophileno94.863no
spore-formingno93.971no
thermophileno99.022no
glucose-utilyes83.814yes
motileyes86.03no
glucose-fermentno88.535yes

External links

@ref: 24032

culture collection no.: DSM 29286, LMG 28441

straininfo link

  • @ref: 90593
  • straininfo: 396475

literature

  • topic: Phylogeny
  • Pubmed-ID: 26060217
  • title: 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.
  • authors: Rashid MH, Young JPW, Everall I, Clercx P, Willems A, Santhosh Braun M, Wink M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.000373
  • year: 2015
  • mesh: 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
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
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
24032Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29286Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29286)
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
68369Automatically annotated from API 20NE
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
90593Reimer, 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 identifiers10.60712/SI-ID396475.1