Strain identifier

BacDive ID: 1795

Type strain: Yes

Species: Nitrobacter vulgaris

Strain Designation: Z

Strain history: <- E. Spieck <- E. Bock; Z

NCBI tax ID(s): 29421 (species)

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General

@ref: 3859

BacDive-ID: 1795

DSM-Number: 10236

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

description: Nitrobacter vulgaris Z is a mesophilic bacterium of the family Nitrobacteraceae.

NCBI tax id

  • NCBI tax id: 29421
  • Matching level: species

strain history

  • @ref: 3859
  • history: <- E. Spieck <- E. Bock; Z

doi: 10.13145/bacdive1795.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Nitrobacteraceae
  • genus: Nitrobacter
  • species: Nitrobacter vulgaris
  • full scientific name: Nitrobacter vulgaris Bock et al. 2001

@ref: 3859

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Nitrobacteraceae

genus: Nitrobacter

species: Nitrobacter vulgaris

full scientific name: Nitrobacter vulgaris Bock et al. 2001

strain designation: Z

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3859AUTOTROPHIC NITROBACTER MEDIUM (DSMZ Medium 756c)yeshttps://mediadive.dsmz.de/medium/756cName: AUTOTROPHIC NITROBACTER MEDIUM (DSMZ Medium 756c) Composition: NaNO2 2.0 g/l NaCl 0.5 g/l KH2PO4 0.15 g/l MgSO4 x 7 H2O 0.05 g/l CaCO3 0.007 g/l FeSO4 x 7 H2O 9.73e-05 g/l H3BO3 4.94e-05 g/l ZnSO4 x 7 H2O 4.31e-05 g/l (NH4)6Mo7O24 3.71e-05 g/l MnSO4 x H2O 3.38e-05 g/l CuSO4 x 5 H2O 2.5e-05 g/l Distilled water
385910% MIXOTROPHIC NITROBACTER MEDIUM (DSMZ Medium 756b)yeshttps://mediadive.dsmz.de/medium/756bName: 10% MIXOTROPHIC NITROBACTER MEDIUM (DSMZ Medium 756b) Composition: NaNO2 2.0 g/l NaCl 0.5 g/l KH2PO4 0.15 g/l Peptone 0.15 g/l Yeast extract 0.15 g/l Na-pyruvate 0.055 g/l MgSO4 x 7 H2O 0.05 g/l CaCO3 0.007 g/l FeSO4 x 7 H2O 9.73e-05 g/l H3BO3 4.94e-05 g/l ZnSO4 x 7 H2O 4.31e-05 g/l (NH4)6Mo7O24 3.71e-05 g/l MnSO4 x H2O 3.38e-05 g/l CuSO4 x 5 H2O 2.5e-05 g/l Distilled water
3859MIXOTROPHIC NITROBACTER MEDIUM (DSMZ Medium 756a)yeshttps://mediadive.dsmz.de/medium/756aName: MIXOTROPHIC NITROBACTER MEDIUM (DSMZ Medium 756a) Composition: NaNO2 2.0 g/l Yeast extract 1.5 g/l Peptone 1.5 g/l Na-pyruvate 0.55 g/l NaCl 0.5 g/l KH2PO4 0.15 g/l MgSO4 x 7 H2O 0.05 g/l CaCO3 0.007 g/l FeSO4 x 7 H2O 9.73e-05 g/l H3BO3 4.94e-05 g/l ZnSO4 x 7 H2O 4.31e-05 g/l (NH4)6Mo7O24 3.71e-05 g/l MnSO4 x H2O 3.38e-05 g/l CuSO4 x 5 H2O 2.5e-05 g/l Distilled water

culture temp

  • @ref: 3859
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_2433.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_297;97_329;98_1900;99_2433&stattab=map
  • Last taxonomy: Nitrobacter
  • 16S sequence: AM114522
  • Sequence Identity:
  • Total samples: 8985
  • soil counts: 5887
  • aquatic counts: 1315
  • animal counts: 625
  • plant counts: 1158

Safety information

risk assessment

  • @ref: 3859
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Nitrobacter vulgaris partial 16S rRNA gene, type strain DSM 10236T
  • accession: AM114522
  • length: 1441
  • database: ena
  • NCBI tax ID: 29421

Genome sequences

  • @ref: 66792
  • description: Nitrobacter vulgaris DSM 10236
  • accession: 2829791209
  • assembly level: draft
  • database: img
  • NCBI tax ID: 29421

External links

@ref: 3859

culture collection no.: DSM 10236

straininfo link

  • @ref: 71442
  • straininfo: 48785

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3859Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10236)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10236
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
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)
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
71442Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48785.1StrainInfo: A central database for resolving microbial strain identifiers