Strain identifier

BacDive ID: 13697

Type strain: No

Species: Paracoccus pantotrophus

Strain Designation: N5

Strain history: <- T.H. Nokhal, N5. Deposited as a strain of Paracoccus denitrificans

NCBI tax ID(s): 82367 (species)

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General

@ref: 492

BacDive-ID: 13697

DSM-Number: 1405

keywords: 16S sequence, Bacteria, mesophilic

description: Paracoccus pantotrophus N5 is a mesophilic bacterium that was isolated from meadow soil.

NCBI tax id

  • NCBI tax id: 82367
  • Matching level: species

strain history

  • @ref: 492
  • history: <- T.H. Nokhal, N5. Deposited as a strain of Paracoccus denitrificans

doi: 10.13145/bacdive13697.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Paracoccus
  • species: Paracoccus pantotrophus
  • full scientific name: Paracoccus pantotrophus (Robertson and Kuenen 1984) Rainey et al. 1999

  • synonyms

    • @ref: 20215
    • synonym: Thiosphaera pantotropha

@ref: 492

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Paracoccus

species: Paracoccus pantotrophus

full scientific name: Paracoccus pantotrophus (Robertson and Kuenen 1984) Rainey et al. 1999

strain designation: N5

type strain: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
492MINERAL MEDIUM FOR CHEMOLITHOTROPHIC GROWTH (H-3) (DSMZ Medium 81)yeshttps://mediadive.dsmz.de/medium/81Name: MINERAL MEDIUM FOR CHEMOLITHOTROPHIC GROWTH (H-3) (DSMZ Medium 81) Composition: Agar 20.1005 g/l Na2HPO4 x 2 H2O 2.91457 g/l KH2PO4 2.31156 g/l NH4Cl 1.00503 g/l MgSO4 x 7 H2O 0.502512 g/l Ferric ammonium citrate 0.0502513 g/l CaCl2 x 2 H2O 0.0100503 g/l NaVO3 x H2O 0.00502512 g/l Calcium pantothenate 0.00251256 g/l Pyridoxine hydrochloride 0.00251256 g/l Nicotinic acid 0.00251256 g/l Thiamine-HCl x 2 H2O 0.00251256 g/l H3BO3 0.00150754 g/l CoCl2 x 6 H2O 0.00100503 g/l Riboflavin 0.000502513 g/l ZnSO4 x 7 H2O 0.000502513 g/l MnCl2 x 4 H2O 0.000150754 g/l Na2MoO4 x 2 H2O 0.000150754 g/l NiCl2 x 6 H2O 0.000100503 g/l CuCl2 x 2 H2O 5.02513e-05 g/l Vitamin B12 5.02513e-05 g/l Folic acid 1.00503e-05 g/l Biotin 5.02513e-06 g/l Distilled water
492NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

  • @ref: 492
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Isolation, sampling and environmental information

isolation

  • @ref: 492
  • sample type: meadow soil
  • geographic location: Göttingen
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Meadow
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_869.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_31;97_32;98_688;99_869&stattab=map
  • Last taxonomy: Paracoccus
  • 16S sequence: HG917907
  • Sequence Identity:
  • Total samples: 5189
  • soil counts: 932
  • aquatic counts: 2441
  • animal counts: 1611
  • plant counts: 205

Safety information

risk assessment

  • @ref: 492
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Paracoccus pantotrophus partial 16S rRNA gene, strain DSM 1405
  • accession: HG917907
  • length: 1397
  • database: ena
  • NCBI tax ID: 82367

GC content

  • @ref: 492
  • GC-content: 65.6

External links

@ref: 492

culture collection no.: DSM 1405

straininfo link

  • @ref: 82882
  • straininfo: 47381

literature

  • topic: Phylogeny
  • Pubmed-ID: 10319488
  • title: A re-evaluation of the taxonomy of Paracoccus denitrificans and a proposal for the combination Paracoccus pantotrophus comb. nov.
  • authors: Rainey FA, Kelly DP, Stackebrandt E, Burghardt J, Hiraishi A, Katayama Y, Wood AP
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-49-2-645
  • year: 1999
  • mesh: Cytochrome c Group/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Paracoccus/*classification/genetics/physiology, Paracoccus denitrificans/*classification/genetics/physiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
492Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1405)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1405
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
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
82882Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID47381.1StrainInfo: A central database for resolving microbial strain identifiers