Strain identifier

BacDive ID: 16106

Type strain: Yes

Species: Streptomyces virginiae

Strain Designation: NA 255-88 (M808)

Strain history: KCC S-0425 <-- IFO 12827 <-- SAJ <-- ISP 5094 <-- T. Oliver NA255-B8.

NCBI tax ID(s): 1961 (species)

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General

@ref: 9306

BacDive-ID: 16106

DSM-Number: 40094

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

description: Streptomyces virginiae NA 255-88 is a mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1961
  • Matching level: species

strain history

@refhistory
9306<- E.B. Shirling, ISP <- T. Oliver, NA 255-B8
67770KCC S-0425 <-- IFO 12827 <-- SAJ <-- ISP 5094 <-- T. Oliver NA255-B8.

doi: 10.13145/bacdive16106.20230509.8.1

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 virginiae
  • full scientific name: Streptomyces virginiae Grundy et al. 1952 (Approved Lists 1980)
  • synonyms

    • @ref: 20215
    • synonym: Streptomyces cinnamonensis

@ref: 9306

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces virginiae

full scientific name: Streptomyces virginiae Grundy et al. 1952 emend. Nouioui et al. 2018

strain designation: NA 255-88 (M808)

type strain: yes

Morphology

multimedia

  • @ref: 9306
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40094.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9306GYM 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
9306ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
9306positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

compound production

@refcompound
9306actithiazic acid
9306cycloserine

metabolite production

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

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
9306soil
67770Soilnear Roanoke, VAUSAUSANorth America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_163.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_144;99_163&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: JN201950
  • Sequence Identity:
  • Total samples: 26399
  • soil counts: 19336
  • aquatic counts: 1680
  • animal counts: 1702
  • plant counts: 3681

Safety information

risk assessment

  • @ref: 9306
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces virginiae strain CBS314.55 16S ribosomal RNA gene, partial sequenceJN2019501407ena1961
20218Streptomyces virginiae DNA for 16S rRNA, strain IFO 12827D851231514ena1961
20218Streptomyces virginiae DNA for 16S rRNA, strain IFO 3729D851191514ena1961
20218Streptomyces virginiae gene for 16S ribosomal RNA, partial sequence, strain: JCM 4425D44137120ena1961
20218Streptomyces virginiae gene for 16S rRNA, partial sequence, strain: NBRC 3729AB1847971464ena1961
9306Streptomyces virginiae gene for 16S rRNA, partial sequence, strain: NBRC 12827AB1841751468ena1961

Genome sequences

  • @ref: 67770
  • description: Streptomyces virginiae NRRL ISP-5094
  • accession: GCA_000720455
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1961

GC content

  • @ref: 67770
  • GC-content: 72.4
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno93.584no
flagellatedno97.601no
gram-positiveyes87.519no
anaerobicno98.943no
halophileno95.909no
spore-formingyes93.169no
thermophileno99.229no
glucose-utilyes89.793no
aerobicyes87.496no
glucose-fermentno88.861no

External links

@ref: 9306

culture collection no.: DSM 40094, ATCC 19817, CBS 291.60, CBS 570.68, ETH 14322, IFO 12827, IFO 3729, IMRU 3651, ISP 5094, JCM 4425, NBRC 12827, NBRC 3729, NRRL B-1446, RIA 1097, BCRC 12069, CGMCC 4.1530, KCTC 1747, MTCC 4730, NRRL ISP-5094, VKM Ac-1218

straininfo link

  • @ref: 85172
  • straininfo: 386959

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology12375099Purification and characterization of an epsilon-poly-L-lysine-degrading enzyme from an epsilon-poly-L-lysine-producing strain of Streptomyces albulus.Kito M, Takimoto R, Yoshida T, Nagasawa TArch Microbiol10.1007/s00203-002-0459-62002Aminopeptidases/chemistry/*isolation & purification/metabolism, Chromatography, High Pressure Liquid, Molecular Weight, Polylysine/*metabolism, Streptomyces/*enzymology/isolation & purification, Substrate SpecificityPhylogeny
Phylogeny22421918Streptomyces manipurensis sp. nov., a novel actinomycete isolated from a limestone deposit site in Manipur, India.Nimaichand S, Zhu WY, Yang LL, Ming H, Nie GX, Tang SK, Ningthoujam DS, Li WJAntonie Van Leeuwenhoek10.1007/s10482-012-9720-42012Base Composition, *Calcium Carbonate, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Geologic Sediments/*microbiology, India, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/*isolation & purification, Vitamin K 2/analysisGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9306Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40094)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40094
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
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
85172Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID386959.1StrainInfo: A central database for resolving microbial strain identifiers