Strain identifier
BacDive ID: 15328
Type strain: 
Species: Kitasatospora indigofera
Strain history: KCC S-0646 <-- IFO 12878 <-- SAJ <-- ISP 5124 <-- R. Shinobu 709.
NCBI tax ID(s): 67307 (species)
version 8.1 (current version)
General
@ref: 9328
BacDive-ID: 15328
DSM-Number: 40124
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Kitasatospora indigofera DSM 40124 is a mesophilic bacterium that was isolated from Soil.
NCBI tax id
- NCBI tax id: 67307
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9328 | <- E.B. Shirling, ISP <- R. Shinobu, OEU, 709 |
| 67770 | KCC S-0646 <-- IFO 12878 <-- SAJ <-- ISP 5124 <-- R. Shinobu 709. |
doi: 10.13145/bacdive15328.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Kitasatosporales
- family: Streptomycetaceae
- genus: Kitasatospora
- species: Kitasatospora indigofera
- full scientific name: Kitasatospora indigofera (Shinobu and Kawato 1960) Nouioui et al. 2018
synonyms
- @ref: 20215
- synonym: Streptomyces indigoferus
@ref: 9328
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Kitasatospora
species: Kitasatospora indigofera
full scientific name: Kitasatospora indigofera (Shinobu and Kawato 1960) Nouioui et al. 2018
type strain: yes
Culture and growth conditions
culture medium
- @ref: 9328
- name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
- growth: yes
- link: https://mediadive.dsmz.de/medium/65
- composition: 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 9328 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Soil
- geographic location: Sendai City, Miyagi Pref.
- country: Japan
- origin.country: JPN
- continent: Asia
taxonmaps
- @ref: 69479
- File name: preview.99_208.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_148;97_159;98_177;99_208&stattab=map
- Last taxonomy: Streptomycetaceae
- 16S sequence: AB184809
- Sequence Identity:
- Total samples: 2039
- soil counts: 1733
- aquatic counts: 54
- animal counts: 127
- plant counts: 125
Safety information
risk assessment
- @ref: 9328
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces indigoferus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4646 | D44285 | 120 | ena | 67307 |
| 20218 | Streptomyces indigoferus gene for 16S rRNA, partial sequence, strain: NBRC 12878 | AB184214 | 1453 | ena | 67307 |
| 20218 | Streptomyces indigoferus gene for 16S rRNA, partial sequence, strain: NBRC 3868 | AB184809 | 1439 | ena | 67307 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Kitasatospora indigofera JCM 4646 | GCA_014655955 | scaffold | ncbi | 67307 |
| 66792 | Streptomyces indigoferus strain JCM 4646 | 67307.3 | wgs | patric | 67307 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 93.678 | no |
| flagellated | no | 97.747 | no |
| gram-positive | yes | 89.984 | no |
| anaerobic | no | 99.365 | no |
| aerobic | yes | 92.602 | no |
| halophile | no | 92.008 | no |
| spore-forming | yes | 94.031 | no |
| glucose-util | yes | 90.962 | no |
| thermophile | no | 98.589 | no |
| glucose-ferment | no | 88.573 | no |
External links
@ref: 9328
culture collection no.: DSM 40124, AS 4.1848, ATCC 23924, CBS 908.68, IFO 12878, ISP 5124, NBRC 12878, RIA 1127, OEU 709, JCM 4646, BCRC 13773, CGMCC 4.1848, CGMCC 4.1888, IFO 3868, IMET 42938, NBRC 3868, NCIMB 9718, NRRL B-3301
straininfo link
- @ref: 84421
- straininfo: 38290
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9328 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40124) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40124 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 84421 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID38290.1 | StrainInfo: A central database for resolving microbial strain identifiers |