Strain identifier

BacDive ID: 130742

Type strain: Yes

Species: Actinomadura darangshiensis

Strain Designation: DLS-70

Strain history: <- Soon Dong Lee,Jeju

NCBI tax ID(s): 705336 (species)

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General

@ref: 22034

BacDive-ID: 130742

DSM-Number: 45941

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic

description: Actinomadura darangshiensis DLS-70 is an aerobe, mesophilic bacterium that was isolated from soil from the surface of a rock collected from the peak of a volcanic cone.

NCBI tax id

  • NCBI tax id: 705336
  • Matching level: species

strain history

@refhistory
22034<- S. D. Lee, Jeju National Univ., Rep. of Korea; DLS-70
67771<- Soon Dong Lee,Jeju

doi: 10.13145/bacdive130742.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Thermomonosporaceae
  • genus: Actinomadura
  • species: Actinomadura darangshiensis
  • full scientific name: Actinomadura darangshiensis Lee and Kim 2015

@ref: 22034

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Thermomonosporaceae

genus: Actinomadura

species: Actinomadura darangshiensis

full scientific name: Actinomadura darangshiensis Lee and Kim 2015

strain designation: DLS-70

type strain: yes

Morphology

multimedia

  • @ref: 22034
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45941.jpg
  • caption: Medium 554 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22034N-Z-AMINE-MEDIUM (DSMZ Medium 554)yeshttps://mediadive.dsmz.de/medium/554Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
22034GYM 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

culture temp

@refgrowthtypetemperaturerange
22034positivegrowth28mesophilic
67771positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
22034soil from the surface of a rock collected from the peak of a volcanic coneJeju, Darangshi OreumRepublic of KoreaKORAsia
67771From volcanic ashRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Environmental#Terrestrial#Volcanic

Safety information

risk assessment

  • @ref: 22034
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22034
  • description: Actinomadura darangshiensis partial 16S rRNA gene, type strain DLS-70T
  • accession: FN646682
  • length: 1424
  • database: ena
  • NCBI tax ID: 705336

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinomadura darangshiensis DSM 45941GCA_004349235contigncbi705336
66792Actinomadura darangshiensis strain DSM 45941705336.3wgspatric705336
66792Actinomadura darangshiensis DSM 459412866841126draftimg705336

GC content

  • @ref: 22034
  • GC-content: 69.9
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveyes89.623no
anaerobicno98.686yes
halophileno89.004no
spore-formingyes93.269no
glucose-utilyes88.469no
thermophileno97.177yes
flagellatedno98.026no
aerobicyes90.761yes
glucose-fermentno89.741no
motileno92.399no

External links

@ref: 22034

culture collection no.: DSM 45941, KCTC 29224

straininfo link

  • @ref: 89242
  • straininfo: 401242

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny25678680Actinomadura darangshiensis sp. nov., isolated from a volcanic cone.Lee SD, Kim SBInt J Syst Evol Microbiol10.1099/ijs.0.0000992015Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, Volcanic EruptionsGenetics
Phylogeny28251351Actinomadura alkaliterrae sp. nov., isolated from an alkaline soil.Ay H, Nouioui I, Del Carmen Montero-Calasanz M, Carro L, Klenk HP, Goodfellow M, Igual JM, Cetin D, Sahin N, Isik KAntonie Van Leeuwenhoek10.1007/s10482-017-0850-62017Actinomycetaceae/isolation & purification/*metabolism, Bacterial Typing Techniques, DNA, Bacterial, Diaminopimelic Acid/metabolism, Fatty Acids, Nucleic Acid Hybridization, Phospholipids, *Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Soil, *Soil Microbiology, TurkeyMetabolism

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22034Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45941Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45941)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
89242Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID401242.1