Strain identifier

BacDive ID: 15070

Type strain: Yes

Species: Streptomyces catenulae

Strain Designation: 6563

Strain history: KCC S-0353 <-- IFO 12848 <-- SAJ <-- ISP 5258 <-- Chas. Pfizer & Co.; 6563.

NCBI tax ID(s): 66875 (species)

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General

@ref: 9412

BacDive-ID: 15070

DSM-Number: 40258

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

description: Streptomyces catenulae 6563 is a spore-forming, Gram-positive bacterium that produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 66875
  • Matching level: species

strain history

@refhistory
9412<- E.B. Shirling, ISP <- J. Routien, 6563
67770KCC S-0353 <-- IFO 12848 <-- SAJ <-- ISP 5258 <-- Chas. Pfizer & Co.; 6563.

doi: 10.13145/bacdive15070.20240916.9.1

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 catenulae
  • full scientific name: Streptomyces catenulae Davisson and Finlay 1961 (Approved Lists 1980)

@ref: 9412

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces catenulae

full scientific name: Streptomyces catenulae Davisson and Finlay 1961 emend. Nouioui et al. 2018

strain designation: 6563

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 90.014

multimedia

  • @ref: 9412
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40258.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 9412
  • 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

@refgrowthtypetemperature
18571positiveoptimum28
9412positivegrowth28
67770positivegrowth28

Physiology and metabolism

tolerance

  • @ref: 18571
  • compound: Lysozyme
  • percentage: 1

oxygen tolerance

  • @ref: 69480
  • oxygen tolerance: aerobe
  • confidence: 91.786

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 90.341

compound production

@refcompound
9412pepsinostreptin
9412catenulin
9412paramomycin
20216Neomycin E
20216Neomycin F
20216pepsinostreptin complex

halophily

  • @ref: 18571
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 5 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1857117234glucose+
1857122599arabinose-
1857117992sucrose-
1857118222xylose-
1857117268myo-inositol-
1857129864mannitol-
1857128757fructose+/-
1857126546rhamnose-
1857116634raffinose-
1857162968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
677707934paromomycinyes
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase+
68368tryptophan deaminase+4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18571------++-++

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
94121Risk group (German classification)
185711German classification

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces catenulae 16S rRNA gene, type strain DSM 40258TAJ6216131498nuccore66875
20218Streptomyces catenulae gene for 16S rRNA, partial sequenceAB122748565nuccore66875
20218Streptomyces catenulae strain ISP 5258 16S ribosomal RNA gene, partial sequenceAY9997781497nuccore66875
20218Streptomyces catenulae gene for 16S ribosomal RNA, partial sequence, strain: JCM 4353D44071121nuccore66875
20218Streptomyces catenulae gene for 16S rRNA, partial sequence, strain: NBRC 12848AB1841911480nuccore66875

Genome sequences

  • @ref: 67770
  • description: Streptomyces catenulae NRRL B-2342
  • accession: GCA_000718015
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 66875

GC content

  • @ref: 67770
  • GC-content: 73
  • method: genome sequence analysis

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes90.014no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.505no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes91.786no
69480spore-formingspore-formingAbility to form endo- or exosporesyes90.341no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95yes
69480flagellatedmotile2+Ability to perform flagellated movementno89.488no

External links

@ref: 9412

culture collection no.: DSM 40258, ATCC 12476, ATCC 23893, CBS 679.68, IFO 12848, ISP 5258, NBRC 12848, RIA 1183, JCM 4353, BCRC 12092, CGMCC 4.1701, HAMBI 986, IMET 42944, KCTC 9223, NRRL B-2342, VKM Ac-758

straininfo link

  • @ref: 84176
  • straininfo: 45520

literature

  • topic: Phylogeny
  • Pubmed-ID: 35651486
  • title: Streptomyces benahoarensis sp. nov. Isolated From a Lava Tube of La Palma, Canary Islands, Spain.
  • authors: Gonzalez-Pimentel JL, Hermosin B, Saiz-Jimenez C, Jurado V
  • journal: Front Microbiol
  • DOI: 10.3389/fmicb.2022.907816
  • year: 2022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9412Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40258)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40258
18571Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40258.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
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)
84176Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45520.1StrainInfo: A central database for resolving microbial strain identifiers