Strain identifier
BacDive ID: 2453
Type strain: 
Species: Rhabdochromatium marinum
Strain Designation: 8315-5
Strain history: <- N. Pfennig, 8315-5
NCBI tax ID(s): 48729 (species)
version 8.1 (current version)
General
@ref: 1972
BacDive-ID: 2453
DSM-Number: 5261
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Rhabdochromatium marinum 8315-5 is an anaerobe, mesophilic, motile bacterium that was isolated from sippewissett salt marsh.
NCBI tax id
- NCBI tax id: 48729
- Matching level: species
strain history
- @ref: 1972
- history: <- N. Pfennig, 8315-5
doi: 10.13145/bacdive2453.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Chromatiales
- family: Chromatiaceae
- genus: Rhabdochromatium
- species: Rhabdochromatium marinum
- full scientific name: Rhabdochromatium marinum Dilling et al. 1996
@ref: 1972
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Chromatiales
family: Chromatiaceae
genus: Rhabdochromatium
species: Rhabdochromatium marinum
full scientific name: Rhabdochromatium marinum Dilling et al. 1996
strain designation: 8315-5
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 96.665 | |
| 69480 | 100 | negative |
Culture and growth conditions
culture medium
- @ref: 1972
- name: PFENNIG'S MEDIUM I (modified 1988, for purple sulfur bacteria) (DSMZ Medium 28)
- growth: yes
- link: https://mediadive.dsmz.de/medium/28
- composition: Name: PFENNIG'S MEDIUM I (DSMZ Medium 28; with strain-specific modifications) Composition: NaCl 20.0 g/l NaHCO3 1.5 g/l Na2S x 9 H2O 0.592592 g/l MgSO4 x 7 H2O 0.500001 g/l Ammonium chloride 0.349999 g/l KCl 0.349999 g/l KH2PO4 0.349999 g/l CaCl2 x 2 H2O 0.25 g/l Yeast extract 0.25 g/l Ammonium acetate 0.25 g/l Pyruvic acid sodium salt 0.25 g/l Dextrose 0.25 g/l Na2-EDTA 0.003 g/l Resazurin 0.00225 g/l FeSO4 x 7 H2O 0.0011 g/l Vitamin B12 0.001 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 2 H2O 5e-05 g/l ZnCl2 4.2e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l Na2MoO4 x 2 H2O 1.8e-05 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
- @ref: 1972
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 1972 | anaerobe | |
| 69480 | anaerobe | 98.649 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.909 |
Isolation, sampling and environmental information
isolation
- @ref: 1972
- sample type: sippewissett salt marsh
- geographic location: Massachusetts, Cape Cod
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Salt marsh
Safety information
risk assessment
- @ref: 1972
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 1972
- description: R.marinum rRNA gene
- accession: X84316
- length: 1452
- database: ena
- NCBI tax ID: 48729
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhabdochromatium marinum DSM 5261 | GCA_016583795 | contig | ncbi | 48729 |
| 66792 | Rhabdochromatium marinum strain DSM 5261 | 48729.6 | wgs | patric | 48729 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 99.239 | no |
| anaerobic | yes | 96.562 | no |
| halophile | no | 85.268 | no |
| spore-forming | no | 90.209 | no |
| glucose-util | yes | 65.492 | no |
| aerobic | no | 96.578 | no |
| thermophile | no | 97.332 | yes |
| motile | yes | 89.986 | no |
| flagellated | yes | 57.032 | no |
| glucose-ferment | no | 77.336 | no |
External links
@ref: 1972
culture collection no.: DSM 5261
straininfo link
- @ref: 71997
- straininfo: 47912
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 1972 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5261) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5261 | |
| 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) | |
| 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 | |
| 71997 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47912.1 | StrainInfo: A central database for resolving microbial strain identifiers |