Strain identifier

BacDive ID: 11448

Type strain: Yes

Species: Cohnella laeviribosi

Strain Designation: RI-39

Strain history: <- EA Cho, Yonsei Univ.

NCBI tax ID(s): 1121346 (strain), 380174 (species)

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General

@ref: 15622

BacDive-ID: 11448

DSM-Number: 21336

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, thermophilic, Gram-positive, rod-shaped

description: Cohnella laeviribosi RI-39 is an aerobe, spore-forming, thermophilic bacterium that was isolated from soil, volcanic area.

NCBI tax id

NCBI tax idMatching level
1121346strain
380174species

strain history

@refhistory
15622<- CCUG <- J.-S. Lee <- E.A. Cho; RI-39
67771<- EA Cho, Yonsei Univ.

doi: 10.13145/bacdive11448.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Paenibacillaceae
  • genus: Cohnella
  • species: Cohnella laeviribosi
  • full scientific name: Cohnella laeviribosi Cho et al. 2007

@ref: 15622

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Cohnella

species: Cohnella laeviribosi

full scientific name: Cohnella laeviribosi Cho et al. 2007

strain designation: RI-39

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32035positive4.5 µm0.6 µmrod-shapedno
67771positive
69480yes96.848
69480positive100

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_21336_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21336_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21336_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21336_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21336_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15622CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
15622PLATE COUNT AGAR (DSMZ Medium 464)yeshttps://mediadive.dsmz.de/medium/464Name: PLATE COUNT AGAR (DSMZ Medium 464) Composition: Agar 15.0 g/l Tryptone 5.0 g/l Yeast extract 2.5 g/l Dextrose 1.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15622positivegrowth40thermophilic
32035positivegrowth30-60
32035positiveoptimum45thermophilic
59469positivegrowth37-42
67771positivegrowth50thermophilic

culture pH

@refabilitytypepH
32035positivegrowth5.5-8.0
32035positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32035aerobe
59469aerobe
67771aerobe

spore formation

@refspore formationconfidence
32035yes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
32035NaClpositivegrowth0.2-0.5 %
32035NaClpositiveoptimum0.35 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3203515963ribitol+carbon source
3203522599arabinose+carbon source
3203518403L-arabitol+carbon source
3203528757fructose+carbon source
3203533984fucose+carbon source
3203517234glucose+carbon source
3203517754glycerol+carbon source
3203528087glycogen+carbon source
3203517306maltose+carbon source
3203529864mannitol+carbon source
3203537684mannose+carbon source
3203528053melibiose+carbon source
3203516634raffinose+carbon source
3203526546rhamnose+carbon source
3203533942ribose+carbon source
3203517992sucrose+carbon source
3203527082trehalose+carbon source
3203517151xylitol+carbon source
3203518222xylose+carbon source
320354853esculin+hydrolysis

enzymes

  • @ref: 32035
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15622soil, volcanic areaLikupangIndonesiaIDNAsia
59469Soil,volcanic areaLikupangIndonesiaIDNAsia
67771From soilRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Environmental#Terrestrial#Volcanic

taxonmaps

  • @ref: 69479
  • File name: preview.99_20798.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_2723;97_12778;98_15717;99_20798&stattab=map
  • Last taxonomy: Cohnella laeviribosi subclade
  • 16S sequence: DQ459874
  • Sequence Identity:
  • Total samples: 512
  • soil counts: 233
  • aquatic counts: 104
  • animal counts: 50
  • plant counts: 125

Safety information

risk assessment

  • @ref: 15622
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
15622Cohnella laeviribosi strain RI-39 16S ribosomal RNA gene, partial sequenceDQ4598741435ena380174
67771Acinetobacter antiviralis strain KNF2022 16S ribosomal RNA gene, partial sequenceDQ3147401445ena363192

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cohnella laeviribosi DSM 21336GCA_000378425scaffoldncbi1121346
66792Cohnella laeviribosi DSM 213361121346.3wgspatric1121346
66792Cohnella laeviribosi DSM 213362519899681draftimg1121346

GC content

  • @ref: 15622
  • GC-content: 51

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes82.117yes
flagellatedyes76.688yes
gram-positiveyes87.135yes
anaerobicno98.625yes
aerobicyes88.797yes
halophileno92.737yes
spore-formingyes95.737yes
thermophileyes54.458yes
glucose-utilyes85.928yes
glucose-fermentno88.321no

External links

@ref: 15622

culture collection no.: DSM 21336, CCUG 52217, KCCM 10653P, KCTC 3987

straininfo link

  • @ref: 80686
  • straininfo: 403125

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18048746Cohnella laeviribosi sp. nov., isolated from a volcanic pond.Cho EA, Lee JS, Lee KC, Jung HC, Pan JG, Pyun YRInt J Syst Evol Microbiol10.1099/ijs.0.64844-02007Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Gram-Positive Endospore-Forming Bacteria/chemistry/*classification/genetics/*isolation & purification, Hydrogen-Ion Concentration, Indonesia, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Ribose/metabolism, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Temperature, Vitamin K 2/analysis, *Water MicrobiologyGenetics
Phylogeny19654349Cohnella yongneupensis sp. nov. and Cohnella ginsengisoli sp. nov., isolated from two different soils.Kim SJ, Weon HY, Kim YS, Anandham R, Jeon YA, Hong SB, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.013581-02009Bacillales/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Panax/microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, WetlandsMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
15622Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21336)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21336
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
32035Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2828528776041
59469Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52217)https://www.ccug.se/strain?id=52217
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
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
80686Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403125.1StrainInfo: A central database for resolving microbial strain identifiers