Strain identifier

BacDive ID: 24258

Type strain: Yes

Species: Nocardiopsis fildesensis

Strain Designation: GW9-2

Strain history: CGMCC 4.7023 <-- S. Xu et al.; Ocean Univ. of China, China; GW9-2.

NCBI tax ID(s): 639240 (species)

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General

@ref: 20689

BacDive-ID: 24258

DSM-Number: 45699

keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, rod-shaped

description: Nocardiopsis fildesensis GW9-2 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 639240
  • Matching level: species

strain history

@refhistory
20689<- J. Li, Ocean Univ. China, Qingdao, P. R. China; GW 9-2 <- T. Zhu
67770CGMCC 4.7023 <-- S. Xu et al.; Ocean Univ. of China, China; GW9-2.

doi: 10.13145/bacdive24258.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Nocardiopsidaceae
  • genus: Nocardiopsis
  • species: Nocardiopsis fildesensis
  • full scientific name: Nocardiopsis fildesensis Xu et al. 2014

@ref: 20689

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiopsaceae

genus: Nocardiopsis

species: Nocardiopsis fildesensis

full scientific name: Nocardiopsis fildesensis Xu et al. 2014

strain designation: GW9-2

type strain: yes

Morphology

cell morphology

  • @ref: 31148
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20689GYM 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
20689TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
20689BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
20689positivegrowth28mesophilic
31148positivegrowth16-37
31148positiveoptimum28mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
31148positivegrowth05-11alkaliphile
31148positiveoptimum9

Physiology and metabolism

oxygen tolerance

  • @ref: 31148
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31148
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
31148NaClpositivegrowth0-12 %
31148NaClpositiveoptimum02-04 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3114828757fructose+carbon source
3114828260galactose+carbon source
3114817234glucose+carbon source
3114817754glycerol+carbon source
3114828087glycogen+carbon source
3114829864mannitol+carbon source
3114837684mannose+carbon source
3114853423tween 40+carbon source
3114817632nitrate+reduction

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
20689soilKing George Island, west coast of the Fildes Peninsula near the Chinese Antarctic Great Wall StationChinaCHNAsia
67770Soil from the Fildes PeninsulaKing George IslandAntarcticaATAAntarctica

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_1127.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_152;96_659;97_762;98_881;99_1127&stattab=map
  • Last taxonomy: Nocardiopsis
  • 16S sequence: FJ853144
  • Sequence Identity:
  • Total samples: 418
  • soil counts: 167
  • aquatic counts: 41
  • animal counts: 187
  • plant counts: 23

Safety information

risk assessment

  • @ref: 20689
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20689
  • description: Nocardiopsis fildesensis strain GW9-2 16S ribosomal RNA gene, partial sequence
  • accession: FJ853144
  • length: 1458
  • database: ena
  • NCBI tax ID: 639240

GC content

@refGC-contentmethod
2068976.8thermal denaturation, midpoint method (Tm)
3114876.8

External links

@ref: 20689

culture collection no.: DSM 45699, CGMCC 4.7023, NRRL B-24873, JCM 30781

straininfo link

  • @ref: 88200
  • straininfo: 404491

literature

  • topic: Phylogeny
  • Pubmed-ID: 24048863
  • title: Nocardiopsis fildesensis sp. nov., an actinomycete isolated from soil.
  • authors: Xu S, Yan L, Zhang X, Wang C, Feng G, Li J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.053595-0
  • year: 2013
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Antarctic Regions, 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, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
20689Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45699Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45699)
31148Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172747628776041
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
88200Reimer, 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-ID404491.1