Strain identifier
BacDive ID: 140362
Type strain:
Species: Kribbella sindirgiensis
Strain Designation: FSN23
Strain history: <- Fadime Ozdemir Kocak,Seyh Edebali Univ.,Turkey
NCBI tax ID(s): 1124744 (species)
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
@ref | history |
---|---|
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
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 96.045 | |
69480 | 100 | positive |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
42969 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: 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 |
42969 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | 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
@ref | growth | type | temperature | range |
---|---|---|---|---|
42969 | positive | growth | 28 | mesophilic |
67771 | positive | growth | 28-30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 96.24 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
42969 | soil | Balikesir, Sindirgi dam lake (39° 14' 49.40'' N, 28° 12' 40.99'' E) | Turkey | TUR | Asia | 39.2471 | 28.2114 |
67771 | From soil sample which was collected from Caygoren Dam lakeside located in Sındırgı | Turkey | TUR | Asia |
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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Kribbella sindirgiensis DSM 27082 | GCA_004331435 | contig | ncbi | 1124744 |
66792 | Kribbella sindirgiensis strain DSM 27082 | 1124744.3 | wgs | patric | 1124744 |
66792 | Kribbella sindirgiensis DSM 27082 | 2894994769 | draft | img | 1124744 |
GC content
- @ref: 42969
- GC-content: 68.28
- method: fluorimetric
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | no | 93.313 | no |
flagellated | no | 97.975 | no |
gram-positive | yes | 83.766 | no |
anaerobic | no | 99.131 | yes |
aerobic | yes | 89.648 | no |
halophile | no | 96.441 | no |
spore-forming | yes | 85.707 | no |
thermophile | no | 97.658 | yes |
glucose-util | yes | 87.488 | no |
glucose-ferment | no | 87.765 | no |
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
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |
42969 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27082 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27082) | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||
69479 | João 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 beta | https://microbeatlas.org/ | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
96660 | Reimer, 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 identifiers | 10.60712/SI-ID400342.1 |