Strain identifier

BacDive ID: 2319

Type strain: Yes

Species: Brevundimonas lenta

Strain Designation: DS-18

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 424796 (species)

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General

@ref: 17453

BacDive-ID: 2319

DSM-Number: 23960

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

description: Brevundimonas lenta DS-18 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 424796
  • Matching level: species

strain history

@refhistory
17453<- KCTC <- J. H. Joon, Korea Res. Inst. Biosci. & Biotechnol. (KRIBB), Taejon, South Korea
67770J.-H. Yoon DS-18.
67771<- JH Yoon, KRIBB

doi: 10.13145/bacdive2319.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Caulobacterales
  • family: Caulobacteraceae
  • genus: Brevundimonas
  • species: Brevundimonas lenta
  • full scientific name: Brevundimonas lenta Yoon et al. 2007

@ref: 17453

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Caulobacteraceae

genus: Brevundimonas

species: Brevundimonas lenta

full scientific name: Brevundimonas lenta Yoon et al. 2007

strain designation: DS-18

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32178negative2.05 µm0.4 µmrod-shapedyes
67771negative
69480negative99.995

Culture and growth conditions

culture medium

  • @ref: 17453
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
17453positivegrowth25mesophilic
32178positivegrowth04-34
32178positiveoptimum25mesophilic
67770positivegrowth25mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
32178positivegrowth6.0-9.5alkaliphile
32178positiveoptimum6.75

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no99
69480no99.998

halophily

  • @ref: 32178
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-1 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3217853424tween 20+carbon source
3217853423tween 40+carbon source
3217853425tween 60+carbon source

enzymes

@refvalueactivityec
32178acid phosphatase+3.1.3.2
32178alkaline phosphatase+3.1.3.1
32178catalase+1.11.1.6
32178gelatinase+
32178cytochrome oxidase+1.9.3.1
32178urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17453soilDokdoRepublic of KoreaKORAsia
67770Soil
67771From soilDokdoRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 17453
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17453
  • description: Brevundimonas lenta strain DS-18 16S ribosomal RNA gene, partial sequence
  • accession: EF363713
  • length: 1418
  • database: ena
  • NCBI tax ID: 424796

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brevundimonas lenta DSM 23960GCA_014196335contigncbi424796
66792Brevundimonas lenta strain DSM 23960424796.3wgspatric424796
66792Brevundimonas lenta DSM 239602829867983draftimg424796

GC content

@refGC-contentmethod
1745368.7high performance liquid chromatography (HPLC)
3217868.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
gram-positiveno98.145no
anaerobicno97.683yes
halophileno96.305yes
spore-formingno95.335no
glucose-utilyes71.87no
aerobicyes84.903no
flagellatedno79.16no
thermophileno98.31no
motileyes91.613yes
glucose-fermentno90.964no

External links

@ref: 17453

culture collection no.: DSM 23960, JCM 14602, KCTC 12871

straininfo link

  • @ref: 71876
  • straininfo: 310988

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17911289Brevundimonas lenta sp. nov., isolated from soil.Yoon JH, Kang SJ, Lee JS, Oh HW, Oh TKInt J Syst Evol Microbiol10.1099/ijs.0.65080-02007Bacterial Typing Techniques, Base Composition, Brucellaceae/genetics, Caulobacteraceae/*classification/genetics/*isolation & purification/physiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Hydrogen-Ion Concentration, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, *Soil Microbiology, Temperature, Ubiquinone/analysisGenetics
Phylogeny19671711Brevundimonas basaltis sp. nov., isolated from black sand.Choi JH, Kim MS, Roh SW, Bae JWInt J Syst Evol Microbiol10.1099/ijs.0.013557-02009Base Sequence, Caulobacteraceae/*classification/genetics/isolation & purification/physiology, Fatty Acids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil MicrobiologyGenetics
Phylogeny25106926Brevundimonas denitrificans sp. nov., a denitrifying bacterium isolated from deep subseafloor sediment.Tsubouchi T, Koyama S, Mori K, Shimane Y, Usui K, Tokuda M, Tame A, Uematsu K, Maruyama T, Hatada YInt J Syst Evol Microbiol10.1099/ijs.0.067199-02014Bacterial Typing Techniques, Base Composition, Caulobacteraceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, *Denitrification, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryGenetics
Phylogeny34721332Pyomelanin-Producing Brevundimonas vitisensis sp. nov., Isolated From Grape (Vitis vinifera L.).Jiang L, Jeon D, Kim J, Lee CW, Peng Y, Seo J, Lee JH, Paik JH, Kim CY, Lee JFront Microbiol10.3389/fmicb.2021.7336122021

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17453Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23960)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23960
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
32178Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2842028776041
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71876Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID310988.1StrainInfo: A central database for resolving microbial strain identifiers