Strain identifier

BacDive ID: 15400

Type strain: Yes

Species: Streptomyces xanthochromogenes

Strain history: KCC S-0594 <-- IFO 12797 <-- SAJ <-- ISP 5015 <-- ETH 9001.

NCBI tax ID(s): 67384 (species)

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General

@ref: 9216

BacDive-ID: 15400

DSM-Number: 40015

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

description: Streptomyces xanthochromogenes DSM 40015 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

  • NCBI tax id: 67384
  • Matching level: species

strain history

@refhistory
9216<- E.B. Shirling, ISP <- R. Hütter, ETH, 14411
67770KCC S-0594 <-- IFO 12797 <-- SAJ <-- ISP 5015 <-- ETH 9001.

doi: 10.13145/bacdive15400.20230509.8.1

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 xanthochromogenes
  • full scientific name: Streptomyces xanthochromogenes Arishima et al. 1956 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Streptomyces michiganensis

@ref: 9216

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces michiganensis

full scientific name: Streptomyces michiganensis Corbaz et al. 1957

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.913
69480100positive

multimedia

  • @ref: 9216
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40015.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9216GYM 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
9216ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
9216positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9216actinomycin X
9216actinomycin D
9216dactinomycin
20216Actinomycin X complex

metabolite production

  • @ref: 67770
  • metabolite: actinomycin X
  • production: yes

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
9216soilUSAUSANorth America
67770SoilUSAUSANorth AmericaWilderness Park, MI

isolation source categories

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

Safety information

risk assessment

  • @ref: 9216
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces michiganensis strain ISP 5015 16S ribosomal RNA gene, partial sequenceAY9997351448ena67328
20218Streptomyces michiganensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4594D44254120ena67328
20218Streptomyces michiganensis gene for 16S rRNA, partial sequence, strain: NBRC 12797AB1841531476ena67328
9216Streptomyces michiganensis strain JCM 4594 16S ribosomal RNA gene, partial sequenceMT7605791397ena67328

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces xanthochromogenes JCM 4594GCA_014650355scaffoldncbi67384
66792Streptomyces michiganensis strain JCM 459467328.3wgspatric67328

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno97.564no
gram-positiveyes87.838no
anaerobicno99.057no
aerobicyes88.701no
halophileno93.27no
spore-formingyes94.833no
glucose-utilyes89.037no
thermophileno99.176no
motileno90.892no
glucose-fermentno87.765no

External links

@ref: 9216

culture collection no.: DSM 40015, ATCC 14970, ATCC 19786, CBS 538.68, IFO 12797, ISP 5015, KCC S-0594, NBRC 12797, RIA 1065, ETH 14411, ETH 9001, JCM 4594, BCRC 11613, CGMCC 4.1736, ICMP 131, NRRL B-1940, VKM Ac-862

straininfo link

  • @ref: 84489
  • straininfo: 36219

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23340665Streptomyces hundungensis sp. nov., a novel actinomycete with antifungal activity and plant growth promoting traits.Nimaichand S, Tamrihao K, Yang LL, Zhu WY, Zhang YG, Li L, Tang SK, Ningthoujam DS, Li WJJ Antibiot (Tokyo)10.1038/ja.2012.1192013Amino Acids/analysis, Antifungal Agents/metabolism/pharmacology, DNA, Bacterial/genetics, Microscopy, Electron, Scanning, Phenotype, Plant Growth Regulators/metabolism/pharmacology, RNA, Ribosomal, 16S/genetics, Streptomyces/chemistry/genetics/isolation & purification/*metabolism/ultrastructureMetabolism
Phylogeny34382928Streptomyces genisteinicus sp. nov., a novel genistein-producing actinomycete isolated from a Chinese medicinal plant and proposal of Streptomyces michiganensis Corbaz et al. 1957 as a later heterotypic synonym of Streptomyces xanthochromogenes Arishima et al. 1956.Hu S, Li K, Wang Y, Guo Y, Zhou M, Tang X, Gao JInt J Syst Evol Microbiol10.1099/ijsem.0.0049542021Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genistein/*metabolism, Nucleic Acid Hybridization, *Phylogeny, Plant Leaves/microbiology, Plants, Medicinal/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/classification/isolation & purification, Xanthium/*microbiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9216Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40015)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40015
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/
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
84489Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID36219.1StrainInfo: A central database for resolving microbial strain identifiers