Strain identifier

BacDive ID: 1791

Type strain: Yes

Species: Bosea lathyri

Strain Designation: R-46060

Strain history: <- LMG <- A. Willems, Group Biochemistry and Microbiology, University of Ghent <- S. De Meyer, Group Biochemistry and Microbiology, University of Ghent

NCBI tax ID(s): 1036778 (species)

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General

@ref: 18268

BacDive-ID: 1791

DSM-Number: 26656

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Bosea lathyri R-46060 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from root nodules of Lathyrus latifolius.

NCBI tax id

  • NCBI tax id: 1036778
  • Matching level: species

strain history

  • @ref: 18268
  • history: <- LMG <- A. Willems, Group Biochemistry and Microbiology, University of Ghent <- S. De Meyer, Group Biochemistry and Microbiology, University of Ghent

doi: 10.13145/bacdive1791.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Boseaceae
  • genus: Bosea
  • species: Bosea lathyri
  • full scientific name: Bosea lathyri De Meyer and Willems 2012

@ref: 18268

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Boseaceae

genus: Bosea

species: Bosea lathyri

full scientific name: Bosea lathyri De Meyer and Willems 2012

strain designation: R-46060

type strain: yes

Morphology

cell morphology

  • @ref: 23325
  • gram stain: negative
  • cell length: 1.2-2.0 µm
  • cell width: 0.6-0.8 µm
  • cell shape: rod-shaped
  • motility: yes

colony morphology

@refcolony sizecolony colormedium used
233251.5-2.0 mmwhiteYMA
233251.0-1.5 mmwhiteYMA

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
23325YMAyes
18268REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
18268positivegrowth28mesophilic
23325positivegrowth25mesophilic
23325positivegrowth28mesophilic
23325positivegrowth33mesophilic
23325nogrowth42thermophilic
62588positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 62588
  • oxygen tolerance: aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2332517634D-glucose-assimilation
2332516899D-mannitol-assimilation
2332530849L-arabinose-assimilation
2332517306maltose-assimilation
23325506227N-acetylglucosamine-assimilation
2332518401phenylacetate-assimilation
2332525115malate+assimilation
2332532032potassium gluconate+assimilation
2332517632nitrate+reduction
2332517128adipate+/-assimilation
2332516947citrate+/-assimilation
2332516024D-mannose+/-assimilation
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

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantis sensitive
233252676amoxicillinyesyes
2332517334penicillinyesyes
2332550845doxycyclineyesyes

metabolite production

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

metabolite tests

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

enzymes

@refvalueactivityec
23325beta-glucosidase+3.2.1.21
23325catalase+1.11.1.6
23325cytochrome oxidase+1.9.3.1
23325urease+3.5.1.5
68369cytochrome 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_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
18268+---+---------+-++--+
18268+---+---------+-++--+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
23325root nodules of Lathyrus latifoliusFlandersBelgiumBELEurope
62588Root nodule,Lathyrus latifoliusFlanders,ZwalmBelgiumBELEurope2008-07-25
18268root nodules of Lupinus polyphyllusFlanders near river ZwalmBelgiumBELEurope

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_6239.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_1319;97_1566;98_1905;99_6239&stattab=map
  • Last taxonomy: Bosea
  • 16S sequence: FR774993
  • Sequence Identity:
  • Total samples: 2458
  • soil counts: 922
  • aquatic counts: 781
  • animal counts: 515
  • plant counts: 240

Safety information

risk assessment

  • @ref: 18268
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18268
  • description: Bosea lathyri partial 16S rRNA gene, type strain R-46060T
  • accession: FR774993
  • length: 1441
  • database: ena
  • NCBI tax ID: 1036778

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bosea lathyri DSM 26656GCA_900108245scaffoldncbi1036778
66792Bosea lathyri strain DSM 266561036778.3wgspatric1036778
66792Bosea lathyri DSM 266562622736433draftimg1036778

GC content

@refGC-contentmethod
1826866.9
2332566.4high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
glucose-fermentno92.215yes
motileyes90.184yes
flagellatedno55.677no
gram-positiveno98.357yes
anaerobicno95.694no
aerobicyes94.161no
halophileno95.68no
spore-formingno95.515no
thermophileno94.912no
glucose-utilyes93.776no

External links

@ref: 18268

culture collection no.: DSM 26656, CCUG 61247, LMG 26379

straininfo link

  • @ref: 71438
  • straininfo: 371088

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22155761Multilocus sequence analysis of Bosea species and description of Bosea lupini sp. nov., Bosea lathyri sp. nov. and Bosea robiniae sp. nov., isolated from legumes.De Meyer SE, Willems AInt J Syst Evol Microbiol10.1099/ijs.0.035477-02011Bacterial Typing Techniques, Bradyrhizobiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fabaceae/*microbiology, Fatty Acids/analysis, Genes, Bacterial, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/microbiology, Sequence Analysis, DNATranscriptome
Phylogeny25603982Bosea vaviloviae sp. nov., a new species of slow-growing rhizobia isolated from nodules of the relict species Vavilovia formosa (Stev.) Fed.Safronova VI, Kuznetsova IG, Sazanova AL, Kimeklis AK, Belimov AA, Andronov EE, Pinaev AG, Chizhevskaya EP, Pukhaev AR, Popov KP, Willems A, Tikhonovich IAAntonie Van Leeuwenhoek10.1007/s10482-015-0383-92015Bacterial Typing Techniques, Bradyrhizobiaceae/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA, Ribosomal Spacer/chemistry/genetics, Fabaceae/*microbiology, Fatty Acids/analysis, Genes, Essential, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant, Russia, Sequence Analysis, DNAGenetics
Phylogeny30882299Bosea psychrotolerans sp. nov., a psychrotrophic alphaproteobacterium isolated from Lake Michigan water.Albert RA, McGuine M, Pavlons SC, Roecker J, Bruess J, Mossman S, Sun S, King M, Hong S, Farrance CE, Danner J, Joung Y, Shapiro N, Whitman WB, Busse HJInt J Syst Evol Microbiol10.1099/ijsem.0.0033192019Bacterial Typing Techniques, Base Composition, Bradyrhizobiaceae/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lakes/*microbiology, Michigan, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/analogs & derivatives/chemistry, Ubiquinone/chemistryTranscriptome
Phylogeny31166161Bosea caraganae sp. nov. a new species of slow-growing bacteria isolated from root nodules of the relict species Caragana jubata (Pall.) Poir. originating from Mongolia.Sazanova AL, Safronova VI, Kuznetsova IG, Karlov DS, Belimov AA, Andronov EE, Chirak ER, Popova JP, Verkhozina AV, Willems A, Tikhonovich IAInt J Syst Evol Microbiol10.1099/ijsem.0.0035092019Bacterial Typing Techniques, Base Composition, Bradyrhizobiaceae/*classification/isolation & purification, Caragana/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Mongolia, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, SymbiosisTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
18268Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26656)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26656
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23325Sofie E. De Meyer, Anne Willems10.1099/ijs.0.035477-0Multilocus sequence analysis of Bosea species and description of Bosea lupini sp. nov., Bosea lathyri sp. nov. and Bosea robiniae sp. nov., isolated from legumesIJSEM 62: 2505-2510 201222155761
62588Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 61247)https://www.ccug.se/strain?id=61247
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
71438Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID371088.1StrainInfo: A central database for resolving microbial strain identifiers