Strain identifier

BacDive ID: 13821

Type strain: Yes

Species: Phaeovulum veldkampii

Strain Designation: 51, BN 714

Strain history: <- ATCC <- J. F. Imhoff; 51 <- T. A. Hansen; CIP 103912

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General

@ref: 4412

BacDive-ID: 13821

DSM-Number: 11550

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative

description: Phaeovulum veldkampii 51 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from freshwater pond.

NCBI tax id

NCBI tax idMatching level
1185920strain
33049species

strain history

  • @ref: 4412
  • history: <- ATCC <- J. F. Imhoff; 51 <- T. A. Hansen; CIP 103912

doi: 10.13145/bacdive13821.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Phaeovulum
  • species: Phaeovulum veldkampii
  • full scientific name: Phaeovulum veldkampii (Hansen and Imhoff 1985) Suresh et al. 2020
  • synonyms

    @refsynonym
    20215Bieblia veldkampii
    20215Rhodobacter veldkampii

@ref: 4412

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Rhodobacter

species: Rhodobacter veldkampii

full scientific name: Rhodobacter veldkampii Hansen and Imhoff 1985

strain designation: 51, BN 714

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.998

Culture and growth conditions

culture medium

  • @ref: 4412
  • name: RHODOSPIRILLACEAE MEDIUM (modified) (DSMZ Medium 27)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/27
  • composition: Name: RHODOSPIRILLACEAE MEDIUM (modified) (DSMZ Medium 27) Composition: Disodium succinate 1.0 g/l KH2PO4 0.5 g/l Ammonium acetate 0.5 g/l NaCl 0.4 g/l NH4Cl 0.4 g/l MgSO4 x 7 H2O 0.4 g/l Yeast extract 0.3 g/l L-Cysteine HCl 0.3 g/l CaCl2 x 2 H2O 0.05 g/l Fe(III) citrate 0.005 g/l Resazurin 0.005 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Vitamin B12 Distilled water

culture temp

  • @ref: 4412
  • growth: positive
  • type: growth
  • temperature: 25
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 4412
  • oxygen tolerance: anaerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.996

Isolation, sampling and environmental information

isolation

  • @ref: 4412
  • sample type: freshwater pond
  • country: Netherlands
  • origin.country: NLD
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Aquatic#Pond (small)

taxonmaps

  • @ref: 69479
  • File name: preview.99_22210.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_11227;97_13598;98_16752;99_22210&stattab=map
  • Last taxonomy: Bieblia veldkampii subclade
  • 16S sequence: D16421
  • Sequence Identity:
  • Total samples: 100
  • soil counts: 8
  • aquatic counts: 79
  • animal counts: 12
  • plant counts: 1

Safety information

risk assessment

  • @ref: 4412
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Rhodobacter veldkampii 16S rRNAD134771351ena1185920
20218Rhodobacter veldkampii gene for 16S rRNAD164211389ena1185920

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Phaeovulum veldkampii DSM 11550GCA_004363195scaffoldncbi1185920
66792Phaeovulum veldkampii DSM 11550GCA_003034995contigncbi1185920
66792Phaeovulum veldkampii DSM 11550GCA_016653435scaffoldncbi1185920
66792Rhodobacter veldkampii DSM 115501185920.8wgspatric1185920
66792Rhodobacter veldkampii DSM 115501185920.6wgspatric1185920
66792Rhodobacter veldkampii DSM 115501185920.4wgspatric1185920
66792Rhodobacter veldkampii DSM 115502795385478draftimg1185920

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno86no
motileno57.704no
flagellatedno86.496no
gram-positiveno98.575no
anaerobicno79.7no
aerobicno75.367no
halophileno74.604no
spore-formingno96.091no
glucose-utilyes56.634no
thermophileno94.983yes
glucose-fermentno90.103no

External links

@ref: 4412

culture collection no.: DSM 11550, ATCC 35703, CIP 103912, IFO 16458, NBRC 16458

straininfo link

  • @ref: 82998
  • straininfo: 41237

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4412Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11550)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11550
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)
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
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)
82998Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID41237.1StrainInfo: A central database for resolving microbial strain identifiers