Strain identifier

BacDive ID: 7867

Type strain: Yes

Species: Couchioplanes caeruleus

Strain history: KCC A-0195 <-- NRRL 5325 <-- Schering Corp.; SCC 1014.

NCBI tax ID(s): 56438 (species)

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General

@ref: 11200

BacDive-ID: 7867

DSM-Number: 43634

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive, antibiotic compound production

description: Couchioplanes caeruleus DSM 43634 is a spore-forming, mesophilic, Gram-positive bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

  • NCBI tax id: 56438
  • Matching level: species

strain history

@refhistory
11200<- NRRL <- A.C. Horan, SCC 1014
67770KCC A-0195 <-- NRRL 5325 <-- Schering Corp.; SCC 1014.

doi: 10.13145/bacdive7867.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Couchioplanes
  • species: Couchioplanes caeruleus
  • full scientific name: Couchioplanes caeruleus (Horan and Brodsky 1986) Tamura et al. 1994

  • synonyms

    • @ref: 20215
    • synonym: Actinoplanes caeruleus

@ref: 11200

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Couchioplanes

species: Couchioplanes caeruleus subsp. caeruleus

full scientific name: Couchioplanes caeruleus subsp. caeruleus (Horan and Brodsky 1986) Tamura et al. 1994

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11200GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf
11200GPHF-MEDIUM (DSMZ Medium 553)yeshttps://mediadive.dsmz.de/medium/553Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
11200positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes95
69480yes99.545

compound production

@refcompound
11200antifungal antibiotics Sch 16656 and 67-121 complex
67770Antibiotic Sch 16656

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H6)

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11200soil
67770SoilBristol Cone Park, CAUSAUSANorth America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7590.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_404;97_1769;98_2783;99_7590&stattab=map
  • Last taxonomy: Couchioplanes caeruleus
  • 16S sequence: D85479
  • Sequence Identity:
  • Total samples: 4
  • soil counts: 4

Safety information

risk assessment

  • @ref: 11200
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Catenuloplanes caeruleus IFO13939 gene for 16S rRNA, partial sequenceD146451265ena56427
20218Couchioplanes caeruleus gene for 16S ribosomal RNA, partial sequenceD854791409ena56438

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Couchioplanes caeruleus strain DSM 4363456438.3wgspatric56438
66792Couchioplanes caeruleus subsp. caeruleus strain DSM 4363456427.3wgspatric56427
66792Couchioplanes caeruleus DSM 436342784132177draftimg56438
66792Couchioplanes caeruleus DSM 436342856602953draftimg56438
67770Couchioplanes caeruleus subsp. caeruleus DSM 43634GCA_001884705contigncbi56427
67770Couchioplanes caeruleus DSM 43634GCA_003751945contigncbi56438

GC content

  • @ref: 67770
  • GC-content: 69.9
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes95no
gram-positiveyes89.786no
anaerobicno98.948no
halophileno96.517no
spore-formingyes92.622no
glucose-utilyes92.222no
thermophileno97.716yes
flagellatedno89.035no
motileyes60.316no
aerobicyes92.606no
glucose-fermentno91.544no

External links

@ref: 11200

culture collection no.: DSM 43634, ATCC 33937, DSM 1037, IFO 13939, IMET 9248, JCM 3195, KCC A-0195, NRRL 5325, SCC 1014, BCRC 13339, IMSNU 20023, IMSNU 22159, KCCM 12131, KCTC 9531, NBRC 13939, NCIMB 12727, VKM Ac-1257

straininfo link

  • @ref: 77303
  • straininfo: 125572

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny8186084A new genus of the order Actinomycetales, Couchioplanes gen. nov., with descriptions of Couchioplanes caeruleus (Horan and Brodsky 1986) comb. nov. and Couchioplanes caeruleus subsp. azureus subsp. nov.Tamura T, Nakagaito Y, Nishii T, Hasegawa T, Stackebrandt E, Yokota AInt J Syst Bacteriol10.1099/00207713-44-2-1931994Actinomycetales/*classification/genetics/ultrastructure, Amino Acids/analysis, Bacterial Typing Techniques, Base Sequence, Cell Division, DNA, Ribosomal/genetics, Fatty Acids/analysis, Molecular Sequence Data, Monosaccharides/analysis, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Genetics28383583New insights into polyene macrolide biosynthesis in Couchioplanes caeruleus.Sheehan J, Murphy CD, Caffrey PMol Biosyst10.1039/c7mb00112f2017Actinobacteria/*chemistry, Bacterial Proteins/chemistry/genetics, Biosynthetic Pathways, Computational Biology/methods, Genome, Bacterial, Macrolides/*metabolism, Methyltransferases/chemistry/*genetics, Molecular Conformation, Polyenes/*metabolism, Protein Conformation, Protein Domains, Sequence Analysis, DNA, Substrate SpecificityMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11200Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43634)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43634
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
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
77303Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID125572.1StrainInfo: A central database for resolving microbial strain identifiers