Strain identifier

BacDive ID: 140362

Type strain: Yes

Species: Kribbella sindirgiensis

Strain Designation: FSN23

Strain history: <- Fadime Ozdemir Kocak,Seyh Edebali Univ.,Turkey

NCBI tax ID(s): 1124744 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 42969

BacDive-ID: 140362

DSM-Number: 27082

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic

description: Kribbella sindirgiensis FSN23 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1124744
  • Matching level: species

strain history

@refhistory
42969<- F. Ozdemir Kocak, Bilecik Seyh Edebali Univ., Turkey; FSN23 <- F. Ozdemir Kocak, Ondokuz Mayis Univ., Turkey
67771<- Fadime Ozdemir Kocak,Seyh Edebali Univ.,Turkey

doi: 10.13145/bacdive140362.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Kribbellaceae
  • genus: Kribbella
  • species: Kribbella sindirgiensis
  • full scientific name: Kribbella sindirgiensis Ozdemir-Kocak et al. 2018

@ref: 42969

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Kribbellaceae

genus: Kribbella

species: Kribbella sindirgiensis

full scientific name: Kribbella sindirgiensis Ozdemir-Kocak et al. 2018

strain designation: FSN23

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no96.045
69480100positive

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
42969GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
42969R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: 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
42969positivegrowth28mesophilic
67771positivegrowth28-30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes96.24

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
42969soilBalikesir, Sindirgi dam lake (39° 14' 49.40'' N, 28° 12' 40.99'' E)TurkeyTURAsia39.247128.2114
67771From soil sample which was collected from Caygoren Dam lakeside located in SındırgıTurkeyTURAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_65863.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_142;96_440;97_503;98_16379;99_65863&stattab=map
  • Last taxonomy: Kribbella
  • 16S sequence: JN896614
  • Sequence Identity:
  • Total samples: 148
  • soil counts: 122
  • aquatic counts: 10
  • animal counts: 1
  • plant counts: 15

Sequence information

16S sequences

  • @ref: 42969
  • description: Kribbella sindirgiensis strain FSN23 16S ribosomal RNA gene, partial sequence
  • accession: JN896614
  • length: 1452
  • database: ena
  • NCBI tax ID: 1124744

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Kribbella sindirgiensis DSM 27082GCA_004331435contigncbi1124744
66792Kribbella sindirgiensis strain DSM 270821124744.3wgspatric1124744
66792Kribbella sindirgiensis DSM 270822894994769draftimg1124744

GC content

  • @ref: 42969
  • GC-content: 68.28
  • method: fluorimetric

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno93.313no
flagellatedno97.975no
gram-positiveyes83.766no
anaerobicno99.131yes
aerobicyes89.648no
halophileno96.441no
spore-formingyes85.707no
thermophileno97.658yes
glucose-utilyes87.488no
glucose-fermentno87.765no

External links

@ref: 42969

culture collection no.: DSM 27082, KCTC 29220

straininfo link

  • @ref: 96660
  • straininfo: 400342

literature

  • topic: Phylogeny
  • Pubmed-ID: 28748277
  • title: Kribbella sindirgiensis sp. nov. isolated from soil.
  • authors: Ozdemir-Kocak F, Isik K, Saricaoglu S, Saygin H, Inan-Bektas K, Cetin D, Guven K, Sahin N
  • journal: Arch Microbiol
  • DOI: 10.1007/s00203-017-1414-x
  • year: 2017
  • mesh: Bacterial Typing Techniques, Cardiolipins/analysis, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Nucleic Acid Hybridization, Phosphatidylglycerols/analysis, Phylogeny, *Propionibacteriaceae/classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, *Soil Microbiology
  • topic2: Transcriptome

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
42969Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-27082Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27082)
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
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.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
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
96660Reimer, 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-ID400342.1