Strain identifier
BacDive ID: 13926
Type strain: 
Species: Rhodocyclus tenuis
Strain Designation: 2761
Strain history: <- N. Pfennig, 2761
NCBI tax ID(s): 1188245 (strain), 1066 (species)
version 8.1 (current version)
General
@ref: 2081
BacDive-ID: 13926
DSM-Number: 109
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Rhodocyclus tenuis 2761 is an anaerobe, mesophilic, motile bacterium that was isolated from forest pond.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1188245 | strain |
| 1066 | species |
strain history
- @ref: 2081
- history: <- N. Pfennig, 2761
doi: 10.13145/bacdive13926.20230509.8.1
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 tenuis
- full scientific name: Rhodocyclus tenuis (Pfennig 1969) Imhoff et al. 1984
synonyms
- @ref: 20215
- synonym: Rhodospirillum tenue
@ref: 2081
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Rhizobiales
family: Rhodocyclaceae
genus: Rhodocyclus
species: Rhodocyclus tenuis
full scientific name: Rhodocyclus tenuis (Pfennig 1969) Imhoff et al. 1984
strain designation: 2761
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 98.608 | |
| 69480 | 99.998 | negative |
Culture and growth conditions
culture medium
- @ref: 2081
- 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: 2081
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 2081
- oxygen tolerance: anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.979 |
Isolation, sampling and environmental information
isolation
- @ref: 2081
- sample type: forest pond
- geographic location: Grünenplan
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Pond (small) |
| #Environmental | #Terrestrial | #Forest |
taxonmaps
- @ref: 69479
- File name: preview.99_55039.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_129;96_12982;97_30743;98_39334;99_55039&stattab=map
- Last taxonomy: Rhodocyclus tenuis subclade
- 16S sequence: D16208
- Sequence Identity:
- Total samples: 112
- soil counts: 29
- aquatic counts: 70
- animal counts: 10
- plant counts: 3
Safety information
risk assessment
- @ref: 2081
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 2081
- description: Rhodocyclus tenuis gene for 16S ribosomal RNA, partial sequence, strain: DSM109
- accession: D16208
- length: 1460
- database: ena
- NCBI tax ID: 1188245
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhodocyclus tenuis 2761 | GCA_014197755 | scaffold | ncbi | 1066 |
| 66792 | Rhodocyclus tenuis strain Pfennig 2761 | 1066.6 | wgs | patric | 1066 |
| 66792 | Rhodocyclus tenuis DSM 109 | 2838095286 | draft | img | 1066 |
| 66792 | Rhodocyclus tenuis 2761 | GCA_009469755 | contig | ncbi | 1066 |
GC content
- @ref: 2081
- GC-content: 64.8
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | yes | 81.913 | no |
| gram-positive | no | 99.22 | no |
| anaerobic | yes | 96.914 | yes |
| aerobic | no | 96.8 | yes |
| halophile | no | 97.497 | no |
| spore-forming | no | 93.336 | no |
| glucose-util | no | 75.958 | no |
| thermophile | no | 96.351 | yes |
| motile | yes | 93.204 | no |
| glucose-ferment | no | 88.56 | no |
External links
@ref: 2081
culture collection no.: DSM 109, ATCC 25093, Pfennig 2761
straininfo link
- @ref: 83100
- straininfo: 13837
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Enzymology | 8681949 | The antenna complexes of the purple non-sulfur photosynthetic bacterium Rhodocyclus tenuis. Structural and spectral characterization. | Hu Q, Brunisholz RA, Frank G, Zuber H | Eur J Biochem | 10.1111/j.1432-1033.1996.0381z.x | 1996 | Amino Acid Sequence, Amino Acids/analysis, Bacterial Proteins/*chemistry/isolation & purification, Carboxypeptidases/metabolism, Centrifugation, Density Gradient, Chromatography, Gel, Chromatography, High Pressure Liquid, Circular Dichroism, Detergents/pharmacology, Electrophoresis, Polyacrylamide Gel, Light-Harvesting Protein Complexes, Mass Spectrometry, Molecular Sequence Data, Molecular Weight, Peptides/chemistry, Rhodospirillales/*chemistry, Sequence Alignment, Sequence Analysis, Spectrometry, Fluorescence, Spectrophotometry, Ultraviolet | Genetics |
| Phylogeny | 35336224 | 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. | Kyndt JA, Aviles FA, Imhoff JF, Kunzel S, Neulinger SC, Meyer TE | Microorganisms | 10.3390/microorganisms10030649 | 2022 |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 2081 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 109) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-109 | |
| 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 | |
| 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) | |
| 69479 | João 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 | |
| 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 | |
| 83100 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID13837.1 | StrainInfo: A central database for resolving microbial strain identifiers |