Strain identifier

BacDive ID: 15475

Type strain: Yes

Species: Streptomyces rochei

Strain history: KCC S-0504 <-- IFO 13071 <-- SAJ <-- ISP 5319 <-- Parke, Davis & Co.; PD 04918.

NCBI tax ID(s): 1922 (species)

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General

@ref: 9457

BacDive-ID: 15475

DSM-Number: 40319

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

description: Streptomyces rochei DSM 40319 is a spore-forming, mesophilic, Gram-positive bacterium that produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 1922
  • Matching level: species

strain history

@refhistory
9457<- E.B. Shirling, ISP <- L. Anderson, PD
67770KCC S-0504 <-- IFO 13071 <-- SAJ <-- ISP 5319 <-- Parke, Davis & Co.; PD 04918.

doi: 10.13145/bacdive15475.20230509.8.1

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 rochei
  • full scientific name: Streptomyces rochei Berger et al. 1953 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Streptomyces plicatus
    20215Streptomyces enissocaesilis
    20215Streptomyces geysiriensis
    20215Streptomyces vinaceusdrappus

@ref: 9457

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces plicatus

full scientific name: Streptomyces plicatus Pridham et al. 1958

type strain: yes

Morphology

cell morphology

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

multimedia

  • @ref: 9457
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40319.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 9457
  • 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

@refgrowthtypetemperaturerange
9457positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9457amicetin
9457bamicetin
9457plicacetin

metabolite production

@refmetaboliteproduction
67770amicetinyes
67770bamicetinyes
67770plicacetinyes

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_3171.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_97;98_106;99_3171&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AB184291
  • Sequence Identity:
  • Total samples: 28
  • soil counts: 12
  • animal counts: 16

Safety information

risk assessment

  • @ref: 9457
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces plicatus partial 16S rRNA gene, strain DSM 40319TAJ291996869ena1922
20218Streptomyces plicatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4504D44194121ena1922
20218Streptomyces plicatus gene for 16S rRNA, partial sequence, strain: NBRC 13071AB1842911477ena1922
20218Streptomyces plicatus strain NRRL 2428 16S ribosomal RNA gene, partial sequenceAY9999221403ena1922

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces plicatus strain JCM 45041922.3wgspatric1922
67770Streptomyces plicatus JCM 4504GCA_014650135scaffoldncbi1922

GC content

  • @ref: 67770
  • GC-content: 72
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno94.437no
gram-positiveyes90.331no
anaerobicno99.203no
aerobicyes94.584no
halophileno90.288no
spore-formingyes96.637no
glucose-utilyes89.081no
flagellatedno97.92no
thermophileno98.822no
glucose-fermentno89.057no

External links

@ref: 9457

culture collection no.: DSM 40319, ATCC 25483, CBS 911.69, ETH 31505, IFO 13071, ISP 5319, JCM 4504, NBRC 13071, NRRL 2428, PD 04918, RIA 1263, BCRC 12279, CGMCC 4.1735, CGMCC 4.1755, KCTC 19064, NCAIM B.01841, VKM Ac-627

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23579766Endophytic actinomycetes from spontaneous plants of Algerian Sahara: indole-3-acetic acid production and tomato plants growth promoting activity.Goudjal Y, Toumatia O, Sabaou N, Barakate M, Mathieu F, Zitouni AWorld J Microbiol Biotechnol10.1007/s11274-013-1344-y2013Actinobacteria/classification/genetics/*isolation & purification/metabolism, Africa, Northern, Algeria, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Desert Climate, Endophytes/*isolation & purification/metabolism, Indoleacetic Acids/*metabolism, Lycopersicon esculentum/*growth & development/microbiology, Molecular Sequence Data, *Nerve Growth Factors, Phylogeny, Plants/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAMetabolism
Pathogenicity32361340Purification and characterization of salvianolic acid B from Streptomyces sp. M4 possessing antifungal activity against fungal phytopathogens.Sharma M, Manhas RKMicrobiol Res10.1016/j.micres.2020.1264782020Alternaria/drug effects, Antifungal Agents/chemistry/metabolism/pharmacology, *Benzofurans/chemistry/metabolism/pharmacology, Biological Control Agents, Botrytis/drug effects, Cladosporium/drug effects, Colletotrichum/drug effects, Fungi/*drug effects, Fusarium/drug effects, Genes, Bacterial, Phylogeny, Plant Diseases/microbiology, RNA, Ribosomal, 16S, *Streptomyces/classification/genetics/isolation & purification/metabolismPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9457Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40319)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40319
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