Strain identifier

BacDive ID: 16029

Type strain: Yes

Species: Streptomyces spiroverticillatus

Strain Designation: 508

Strain history: KCC S-0104 <-- R. Shinobu 508.

NCBI tax ID(s): 67366 (species)

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General

@ref: 9235

BacDive-ID: 16029

DSM-Number: 40036

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

description: Streptomyces spiroverticillatus 508 is a spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 67366
  • Matching level: species

strain history

@refhistory
9235<- E.B. Shirling, ISP <- R. Shinobu, OEU, 508
67770KCC S-0104 <-- R. Shinobu 508.

doi: 10.13145/bacdive16029.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces spiroverticillatus
  • full scientific name: Streptomyces spiroverticillatus Shinobu 1958 (Approved Lists 1980)

@ref: 9235

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces spiroverticillatus

full scientific name: Streptomyces spiroverticillatus Shinobu 1958

strain designation: 508

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.986
69480100positive

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9235GYM 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
9235ISP 5 MEDIUM (DSMZ Medium 993)yeshttps://mediadive.dsmz.de/medium/993Name: ISP 5 MEDIUM (DSMZ Medium 993) Composition: Agar 20.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l L-Asparagine 1.0 g/l FeSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
9235positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
20216Antibiotic agent
20216Antifungal agent

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
9235soilJapanJPNAsia
67770SoilJapanJPNAsiaHigashinoshiro, Akita Pref.

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_210.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_120;99_210&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AB184814
  • Sequence Identity:
  • Total samples: 112
  • soil counts: 103
  • aquatic counts: 1
  • animal counts: 6
  • plant counts: 2

Safety information

risk assessment

  • @ref: 9235
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces spiroverticillatus strain ISP 5036 16S ribosomal RNA gene, partial sequenceAY9997361448ena67366
20218Streptomyces spiroverticillatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4609D44263120ena67366
20218Streptomyces spiroverticillatus gene for 16S rRNA, partial sequence, strain: NBRC 12821AB2499211451ena67366
20218Streptomyces spiroverticillatus gene for 16S rRNA, partial sequence, strain: NBRC 3728AB1847961460ena67366
20218Streptomyces spiroverticillatus gene for 16S rRNA, partial sequence, strain: NBRC 3931AB1848141477ena67366

Genome sequences

  • @ref: 66792
  • description: Streptomyces spiroverticillatus strain JCM 4609
  • accession: 67366.4
  • assembly level: wgs
  • database: patric
  • NCBI tax ID: 67366

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes89.874no
anaerobicno99.204no
halophileno92.758no
spore-formingyes94.449no
glucose-utilyes88.508no
thermophileno99.614yes
flagellatedno97.504no
aerobicyes93.18no
glucose-fermentno86.005no
motileno92.826no

External links

@ref: 9235

culture collection no.: DSM 40036, ATCC 19811, CBS 564.68, IFO 12821, ISP 5036, NBRC 12821, RIA 1091, RIA 549, OEU 508, JCM 4104, BCRC 13648, CGMCC 4.1749, IFO 3845, IMET 42050, JCM 4609, NBRC 3845, NRRL B-2259, NRRL B-5483, VKM Ac-751

straininfo link

  • @ref: 85102
  • straininfo: 92670

literature

  • topic: Phylogeny
  • Pubmed-ID: 24091604
  • title: Streptomyces fukangensis sp. nov., a novel alkaliphilic actinomycete isolated from a saline-alkaline soil.
  • authors: Zhang YG, Wang HF, Liu Q, Hozzein WN, Wadaan MA, Cheng J, Chen YJ, Zhang YM, Li WJ
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-013-0045-8
  • year: 2013
  • mesh: Amino Acids/analysis, Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Desert Climate, Fatty Acids/analysis, Microscopy, Electron, Scanning, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification/physiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9235Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40036)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40036
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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
85102Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92670.1StrainInfo: A central database for resolving microbial strain identifiers