Strain identifier
BacDive ID: 13726
Type strain: 
Species: Paracoccus bengalensis
Strain Designation: JJJ
Strain history: <- P. Roy, Dept. Microbiol., Bose Inst., India; JJJ <- W. Ghosh et al.
NCBI tax ID(s): 34007 (species)
version 8.1 (current version)
General
@ref: 6759
BacDive-ID: 13726
DSM-Number: 17099
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Paracoccus bengalensis JJJ is a mesophilic, Gram-negative bacterium that was isolated from soil adjacent to the roots of the plant Clitoria ternatea, a native legume of the lower-Gangetic plains of India .
NCBI tax id
- NCBI tax id: 34007
- Matching level: species
strain history
- @ref: 6759
- history: <- P. Roy, Dept. Microbiol., Bose Inst., India; JJJ <- W. Ghosh et al.
doi: 10.13145/bacdive13726.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Paracoccaceae
- genus: Paracoccus
- species: Paracoccus bengalensis
- full scientific name: Paracoccus bengalensis Ghosh et al. 2006
@ref: 6759
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Paracoccus
species: Paracoccus bengalensis
full scientific name: Paracoccus bengalensis Ghosh et al. 2006
strain designation: JJJ
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.993
Culture and growth conditions
culture medium
- @ref: 6759
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 6759
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 99 |
| 69480 | no | 99.976 |
Isolation, sampling and environmental information
isolation
- @ref: 6759
- sample type: soil adjacent to the roots of the plant Clitoria ternatea, a native legume of the lower-Gangetic plains of India (a slender under shrub or herb)
- host species: Clitoria ternatea
- geographic location: West Bengal, Dist. Kolkata
- country: India
- origin.country: IND
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root (Rhizome) |
taxonmaps
- @ref: 69479
- File name: preview.99_869.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_31;97_32;98_688;99_869&stattab=map
- Last taxonomy: Paracoccus
- 16S sequence: AJ864469
- Sequence Identity:
- Total samples: 5189
- soil counts: 932
- aquatic counts: 2441
- animal counts: 1611
- plant counts: 205
Safety information
risk assessment
- @ref: 6759
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6759
- description: Paracoccus bengalensis 16S rRNA gene, type strain JJJT
- accession: AJ864469
- length: 1362
- database: ena
- NCBI tax ID: 302403
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Paracoccus versutus DSM 17099 | GCA_003386575 | contig | ncbi | 34007 |
| 66792 | Paracoccus bengalensis strain DSM 17099 | 302403.6 | wgs | patric | 34007 |
| 66792 | Paracoccus bengalensis DSM 17099 | 2773857629 | draft | img | 302403 |
GC content
- @ref: 6759
- GC-content: 65.3
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 99 | no |
| gram-positive | no | 98.563 | no |
| anaerobic | no | 96.213 | no |
| halophile | no | 83.471 | no |
| spore-forming | no | 96.95 | no |
| glucose-util | yes | 86.052 | no |
| motile | no | 61.997 | no |
| flagellated | no | 87.621 | no |
| aerobic | yes | 82.451 | no |
| thermophile | no | 97.435 | yes |
| glucose-ferment | no | 87.44 | no |
External links
@ref: 6759
culture collection no.: DSM 17099, LMG 22700, MTCC 7003
straininfo link
- @ref: 82909
- straininfo: 132531
literature
- topic: Phylogeny
- Pubmed-ID: 16824961
- title: Paracoccus bengalensis sp. nov., a novel sulfur-oxidizing chemolithoautotroph from the rhizospheric soil of an Indian tropical leguminous plant.
- authors: Ghosh W, Mandal S, Roy P
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2005.10.004
- year: 2005
- mesh: Fabaceae/microbiology, Fatty Acids/analysis, Paracoccus/*isolation & purification/metabolism, RNA, Ribosomal, 16S/analysis, Rhizome/microbiology, Sequence Homology, Nucleic Acid, Soil Microbiology, Sulfur/metabolism, Tetrathionic Acid/metabolism
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 6759 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17099) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17099 | |
| 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 | |
| 82909 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID132531.1 | StrainInfo: A central database for resolving microbial strain identifiers |