Strain identifier

BacDive ID: 14140

Type strain: Yes

Species: Solitalea koreensis

Strain Designation: R2A36-4

Strain history: <- S.-W. Kwon, KACC; R2A36-4 <- H.-Y. Weon

NCBI tax ID(s): 543615 (species)

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General

@ref: 15628

BacDive-ID: 14140

DSM-Number: 21342

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

description: Solitalea koreensis R2A36-4 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from greenhouse soil.

NCBI tax id

  • NCBI tax id: 543615
  • Matching level: species

strain history

  • @ref: 15628
  • history: <- S.-W. Kwon, KACC; R2A36-4 <- H.-Y. Weon

doi: 10.13145/bacdive14140.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Sphingobacteriia
  • order: Sphingobacteriales
  • family: Sphingobacteriaceae
  • genus: Solitalea
  • species: Solitalea koreensis
  • full scientific name: Solitalea koreensis Weon et al. 2009

@ref: 15628

domain: Bacteria

phylum: Bacteroidetes

class: Sphingobacteriia

order: Sphingobacteriales

family: Sphingobacteriaceae

genus: Solitalea

species: Solitalea koreensis

full scientific name: Solitalea koreensis Weon et al. 2009

strain designation: R2A36-4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
29145negative15.65 µm0.55 µmrod-shapedyesgliding
69480negative99.987

pigmentation

  • @ref: 29145
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15628
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15628positivegrowth28mesophilic
29145positivegrowth10-35
29145positiveoptimum29mesophilic

culture pH

@refabilitytypepH
29145positivegrowth05-08
29145positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 29145
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29145no
69481no100
69480no99.988

halophily

@refsaltgrowthtested relationconcentration
29145NaClpositivegrowth0-1 %
29145NaClpositiveoptimum0.5 %

observation

  • @ref: 29145
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
291455291gelatin+carbon source
2914517234glucose+carbon source
2914517306maltose+carbon source
2914537684mannose+carbon source
29145506227N-acetylglucosamine+carbon source
2914517814salicin+carbon source
291454853esculin+hydrolysis

enzymes

@refvalueactivityec
29145acid phosphatase+3.1.3.2
29145alkaline phosphatase+3.1.3.1
29145alpha-galactosidase+3.2.1.22
29145catalase+1.11.1.6
29145gelatinase+
29145cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 15628
  • sample type: greenhouse soil
  • geographic location: Yongin region
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Greenhouse
#Environmental#Terrestrial#Soil

Safety information

risk assessment

  • @ref: 15628
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15628
  • description: Solitalea koreensis strain R2A36-4 16S ribosomal RNA gene, partial sequence
  • accession: EU787448
  • length: 1432
  • database: ena
  • NCBI tax ID: 543615

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Solitalea koreensis DSM 21342GCA_900182575scaffoldncbi543615
66792Solitalea koreensis strain DSM 21342543615.3wgspatric543615
66792Solitalea koreensis DSM 213422724679707draftimg543615

GC content

@refGC-contentmethod
1562838.1high performance liquid chromatography (HPLC)
2914538.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno94.389no
flagellatedno98.388yes
gram-positiveno97.56no
anaerobicno98.118yes
aerobicyes81.042yes
halophileno93.98yes
spore-formingno93.062yes
thermophileno94.54no
glucose-utilyes86.823yes
glucose-fermentno86.499no

External links

@ref: 15628

culture collection no.: DSM 21342, KACC 12953

straininfo link

  • @ref: 83305
  • straininfo: 405119

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19567567Solitalea koreensis gen. nov., sp. nov. and the reclassification of [Flexibacter] canadensis as Solitalea canadensis comb. nov.Weon HY, Kim BY, Lee CM, Hong SB, Jeon YA, Koo BS, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.007278-02009Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/*isolation & purification, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flexibacter/*classification/genetics, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny30016230Solitalea longa sp. nov., isolated from freshwater and emended description of the genus Solitalea.Lee Y, Jeon COInt J Syst Evol Microbiol10.1099/ijsem.0.0029032018Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
15628Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21342)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21342
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
29145Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2556928776041
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
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
83305Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405119.1StrainInfo: A central database for resolving microbial strain identifiers