Strain identifier

BacDive ID: 130600

Type strain: Yes

Species: Rhizobium laguerreae

Strain Designation: FB206

Strain history: <- CECT <- R Mhamdi <- S. Saidi, Centre of Biotechnology of Borj-Cédria; FB206

NCBI tax ID(s): 1076926 (species)

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General

@ref: 21932

BacDive-ID: 130600

DSM-Number: 29977

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

description: Rhizobium laguerreae FB206 is a Gram-negative bacterium that was isolated from effective nodules of Vicia faba.

NCBI tax id

  • NCBI tax id: 1076926
  • Matching level: species

strain history

  • @ref: 21932
  • history: <- CECT <- R Mhamdi <- S. Saidi, Centre of Biotechnology of Borj-Cédria; FB206

doi: 10.13145/bacdive130600.20240916.9.1

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 laguerreae
  • full scientific name: Rhizobium laguerreae Saïdi et al. 2014

@ref: 21932

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Rhizobiaceae

genus: Rhizobium

species: Rhizobium laguerreae

full scientific name: Rhizobium laguerreae Saïdi et al. 2014

strain designation: FB206

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 97.833

colony morphology

  • @ref: 21932
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 21932
  • 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: 21932
  • growth: positive
  • type: growth
  • temperature: 30

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea+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
21932catalase+1.11.1.6
21932cytochrome-c oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
21932----++-+------------

Isolation, sampling and environmental information

isolation

  • @ref: 21932
  • sample type: effective nodules of Vicia faba
  • host species: Vicia faba
  • geographic location: Tahent
  • country: Tunisia
  • origin.country: TUN
  • continent: Africa

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root nodule

taxonmaps

  • @ref: 69479
  • File name: preview.99_1406.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_62;97_65;98_70;99_1406&stattab=map
  • Last taxonomy: Rhizobium
  • 16S sequence: JN558651
  • Sequence Identity:
  • Total samples: 7647
  • soil counts: 4296
  • aquatic counts: 531
  • animal counts: 942
  • plant counts: 1878

Safety information

risk assessment

  • @ref: 21932
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21932
  • description: Rhizobium laguerreae strain FB206 16S ribosomal RNA gene, partial sequence
  • accession: JN558651
  • length: 1475
  • database: nuccore
  • NCBI tax ID: 1076926

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rhizobium laguerreae FB206GCA_002008165contigncbi1076926
66792Rhizobium laguerreae CECT 8280GCA_014192445scaffoldncbi1076926
66792Rhizobium laguerreae strain CECT 82801076926.34wgspatric1076926
66792Rhizobium laguerreae CECT 82802824455559draftimg1076926
66792Rhizobium laguerreae FB2062791355258draftimg1076926
66792Rhizobium laguerreae DSM 299772928387578draftimg1076926

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingno97.833no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.832no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes85.691no
69480spore-formingspore-formingAbility to form endo- or exosporesno85.219no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno99.75yes
69480flagellatedmotile2+Ability to perform flagellated movementyes73.405no

External links

@ref: 21932

culture collection no.: DSM 29977, CECT 8280, LMG 27434

straininfo link

  • @ref: 89115
  • straininfo: 387428

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24067731Rhizobium laguerreae sp. nov. nodulates Vicia faba on several continents.Saidi S, Ramirez-Bahena MH, Santillana N, Zuniga D, Alvarez-Martinez E, Peix A, Mhamdi R, Velazquez EInt J Syst Evol Microbiol10.1099/ijs.0.052191-02013Base Composition, DNA, Bacterial/genetics, Genes, Bacterial, Molecular Sequence Data, Nucleic Acid Hybridization, Peru, Phenotype, *Phylogeny, *Plant Root Nodulation, RNA, Ribosomal, 16S/genetics, Random Amplified Polymorphic DNA Technique, Rhizobium/*classification/genetics/physiology, Spain, Symbiosis, Tunisia, Vicia faba/*microbiologyGenetics
Phylogeny29881978A new Rhizobium species isolated from the water of a crater lake, description of Rhizobium aquaticum sp. nov.Mathe I, Toth E, Mentes A, Szabo A, Marialigeti K, Schumann P, Felfoldi TAntonie Van Leeuwenhoek10.1007/s10482-018-1110-02018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Lakes/*microbiology, Phylogeny, Rhizobium/classification/genetics/*isolation & purification/metabolismMetabolism

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
21932Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29977Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29977)
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
89115Reimer, 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-ID387428.1