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Strain identifier

BacDive ID: 16539

Type strain: Yes

Species: Nonomuraea pusilla

Strain Designation: A-118, A3

Strain history: KCC A-0144 <-- H. Nonomura A-118.

NCBI tax ID(s): 46177 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 10977

BacDive-ID: 16539

DSM-Number: 43357

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

description: Nonomuraea pusilla A-118 is a mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 46177
  • Matching level: species

strain history

doi: 10.13145/bacdive16539.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Streptosporangiaceae
  • genus: Nonomuraea
  • species: Nonomuraea pusilla
  • full scientific name: Nonomuraea pusilla corrig. (Nonomura and Ohara 1971) Zhang et al. 1998
  • synonyms

    @refsynonym
    20215Actinomadura pusilla
    20215Nonomuria pusilla
    20215Microtetraspora pusilla

@ref: 10977

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptosporangiaceae

genus: Nonomuraea

species: Nonomuraea pusilla

full scientific name: Nonomuraea pusilla (Nonomura and Ohara 1971) Zhang et al. 1998 emend. Nouioui et al. 2018

strain designation: A-118, A3

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 95.929

multimedia

@refmultimedia contentcaptionintellectual property rights
10977https://www.dsmz.de/microorganisms/photos/DSM_43357.jpgMedium 65 37°C© Leibniz-Institut DSMZ
66793EM_DSM_43357_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_43357_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_43357_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_43357_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_43357_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10977CZAPEK PEPTONE AGAR (DSMZ Medium 83)yeshttps://mediadive.dsmz.de/medium/83Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water
37279MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulumyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
10977GYM 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
37279positivegrowth37mesophilic
10977positivegrowth37mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 97.506

compound production

@refcompound
10977actitiocin
20216Actinotiocin

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 95.848

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H6), MK-9(H4), MK-9(H2)

metabolite production

  • @ref: 67770
  • metabolite: actinotiocin
  • production: yes

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10977soil
67770Soil, dry-heatedYamanashi Pref.JapanJPNAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_6928.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_3254;97_3993;98_5096;99_6928&stattab=map
  • Last taxonomy: Nonomuraea pusilla subclade
  • 16S sequence: U48978
  • Sequence Identity:
  • Total samples: 1377
  • soil counts: 1122
  • aquatic counts: 31
  • animal counts: 43
  • plant counts: 181

Safety information

risk assessment

  • @ref: 10977
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Microtetraspora pusilla strain ATCC27296 16S ribosomal RNA gene, partial sequenceAF05138477ena46177
20218Microtetraspora pusilla strain ATCC27296 16S ribosomal RNA gene, partial sequenceAF051391193ena46177
20218Nonomuraea pusilla gene for 16S ribosomal RNA, partial sequenceD854911471ena46177
20218Microtetraspora pusilla 16S rRNA geneU489781414ena46177

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nonomuraea pusilla strain DSM 4335746177.4wgspatric46177
66792Nonomuraea pusilla DSM 433572599185218draftimg46177
67770Nonomuraea pusilla DSM 43357GCA_900109355scaffoldncbi46177
66792Streptococcus pneumoniae SMRU2570GCA_001142865scaffoldpatric1313

GC content

@refGC-contentmethod
6777072.4genome sequence analysis
6777068thermal denaturation, midpoint method (Tm)
6777068.3thermal denaturation, midpoint method (Tm)

External links

@ref: 10977

culture collection no.: DSM 43357, ATCC 27296, CBS 262.72, IFO 14684, KCC A-0144, NBRC 14684, NCIMB 11116, JCM 3144, BCRC 11619, CECT 3284, CIP 106954, IMET 9586, IMSNU 20095, KCTC 9278, MTCC 1121, NBIMCC 1641, NRRL B-16126, VKM Ac-1508

straininfo link

@refpassport
20218http://www.straininfo.net/strains/153492
20218http://www.straininfo.net/strains/105148
20218http://www.straininfo.net/strains/230652
20218http://www.straininfo.net/strains/153493
20218http://www.straininfo.net/strains/168236
20218http://www.straininfo.net/strains/333464
20218http://www.straininfo.net/strains/153497

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10977Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43357)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43357
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
37279Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19141
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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)