Strain identifier

BacDive ID: 13925

Type strain: Yes

Species: Rhodocyclus purpureus

Strain Designation: 6770

Strain history: <- N. Pfennig, 6770

NCBI tax ID(s): 1067 (species)

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General

@ref: 12

BacDive-ID: 13925

DSM-Number: 168

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

description: Rhodocyclus purpureus 6770 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from slaughterhouse waste lagoon.

NCBI tax id

  • NCBI tax id: 1067
  • Matching level: species

strain history

  • @ref: 12
  • history: <- N. Pfennig, 6770

doi: 10.13145/bacdive13925.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Rhodocyclales
  • family: Rhodocyclaceae
  • genus: Rhodocyclus
  • species: Rhodocyclus purpureus
  • full scientific name: Rhodocyclus purpureus Pfennig 1978 (Approved Lists 1980)

@ref: 12

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Rhizobiales

family: Rhodocyclaceae

genus: Rhodocyclus

species: Rhodocyclus purpureus

full scientific name: Rhodocyclus purpureus Pfennig 1978

strain designation: 6770

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 100

Culture and growth conditions

culture medium

  • @ref: 12
  • 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: 12
  • growth: positive
  • type: growth
  • temperature: 25
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 12
  • oxygen tolerance: anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.954

Isolation, sampling and environmental information

isolation

  • @ref: 12
  • sample type: slaughterhouse waste lagoon

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Meat
#Engineered#Waste#Wastewater

Safety information

risk assessment

  • @ref: 12
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Rhodocyclus purpureus DSM 168 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Ala gene, complete sequence; and 23S ribosomal RNA gene, partial sequenceAY9579792083ena1067
20218Rhodocyclus purpureus strain 6770 16S ribosomal RNA gene, partial sequenceM341321478ena1067

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rhodocyclus purpureus DSM 168GCA_016653115scaffoldncbi1067
66792Rhodocyclus purpureus strain DSM 1681067.13wgspatric1067

GC content

  • @ref: 12
  • GC-content: 65.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno84.333no
gram-positiveno99.324no
anaerobicyes89.451no
aerobicno95.23yes
halophileno94.013no
spore-formingno96.394no
thermophileno96.091yes
glucose-utilno75.535no
motileno72.837no
glucose-fermentno85.657no

External links

@ref: 12

culture collection no.: DSM 168, NCIMB 13339, Pfennig 6770

straininfo link

  • @ref: 83099
  • straininfo: 4891

literature

  • topic: Phylogeny
  • Pubmed-ID: 35336224
  • title: Comparative Genome Analysis of the Photosynthetic Betaproteobacteria of the Genus Rhodocyclus: Heterogeneity within Strains Assigned to Rhodocyclus tenuis and Description of Rhodocyclus gracilis sp. nov. as a New Species.
  • authors: Kyndt JA, Aviles FA, Imhoff JF, Kunzel S, Neulinger SC, Meyer TE
  • journal: Microorganisms
  • DOI: 10.3390/microorganisms10030649
  • year: 2022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 168)https://www.dsmz.de/collection/catalogue/details/culture/DSM-168
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)
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
83099Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4891.1StrainInfo: A central database for resolving microbial strain identifiers