Strain identifier
BacDive ID: 13925
Type strain:
Species: Rhodocyclus purpureus
Strain Designation: 6770
Strain history: <- N. Pfennig, 6770
NCBI tax ID(s): 1067 (species)
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
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.954 |
Isolation, sampling and environmental information
isolation
- @ref: 12
- sample type: slaughterhouse waste lagoon
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Rhodocyclus purpureus DSM 168 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Ala gene, complete sequence; and 23S ribosomal RNA gene, partial sequence | AY957979 | 2083 | ena | 1067 |
20218 | Rhodocyclus purpureus strain 6770 16S ribosomal RNA gene, partial sequence | M34132 | 1478 | ena | 1067 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Rhodocyclus purpureus DSM 168 | GCA_016653115 | scaffold | ncbi | 1067 |
66792 | Rhodocyclus purpureus strain DSM 168 | 1067.13 | wgs | patric | 1067 |
GC content
- @ref: 12
- GC-content: 65.3
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 84.333 | no |
gram-positive | no | 99.324 | no |
anaerobic | yes | 89.451 | no |
aerobic | no | 95.23 | yes |
halophile | no | 94.013 | no |
spore-forming | no | 96.394 | no |
thermophile | no | 96.091 | yes |
glucose-util | no | 75.535 | no |
motile | no | 72.837 | no |
glucose-ferment | no | 85.657 | no |
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
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
12 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 168) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-168 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
83099 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID4891.1 | StrainInfo: A central database for resolving microbial strain identifiers |