Strain identifier
BacDive ID: 140285
Type strain: 
Species: Rubricella aquisinus
Strain Designation: J82
Strain history: <- L. Yang, Qingdao Institute of Bioenergy & Bioprocess Technology, Chinese Academy of Sciences (CAS), Qingdao; J82 <- L. Tang; J82
NCBI tax ID(s): 2028108 (species)
version 8.1 (current version)
General
@ref: 42892
BacDive-ID: 140285
DSM-Number: 103377
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Rubricella aquisinus J82 is a mesophilic, Gram-negative bacterium that was isolated from seawater.
NCBI tax id
- NCBI tax id: 2028108
- Matching level: species
strain history
- @ref: 42892
- history: <- L. Yang, Qingdao Institute of Bioenergy & Bioprocess Technology, Chinese Academy of Sciences (CAS), Qingdao; J82 <- L. Tang; J82
doi: 10.13145/bacdive140285.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Rubricella
- species: Rubricella aquisinus
- full scientific name: Rubricella aquisinus Yang et al. 2017
@ref: 42892
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Rubricella
species: Rubricella aquisinus
full scientific name: Rubricella aquisinus Yang et al. 2017
strain designation: J82
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.996
Culture and growth conditions
culture medium
- @ref: 42892
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
- @ref: 42892
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.997 |
Isolation, sampling and environmental information
isolation
- @ref: 42892
- sample type: seawater
- geographic location: Qingdao, coast of Yellow Sea, Jiaozhou Bay
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
Safety information
risk assessment
- @ref: 42892
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 42892
- description: Rubricella aquisinus strain J82 16S ribosomal RNA gene, partial sequence
- accession: KX082663
- length: 1416
- database: ena
- NCBI tax ID: 2028108
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rubricella aquisinus DSM 103377 | GCA_014199445 | scaffold | ncbi | 2028108 |
| 66792 | Rubricella aquisinus strain DSM 103377 | 2028108.3 | wgs | patric | 2028108 |
| 66792 | Rubricella aquisinus DSM 103377 | 2828464391 | draft | img | 2028108 |
GC content
- @ref: 42892
- GC-content: 57.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 76.181 | no |
| gram-positive | no | 98.618 | no |
| anaerobic | no | 97.884 | no |
| aerobic | yes | 87.758 | no |
| halophile | yes | 68.121 | no |
| spore-forming | no | 94.782 | no |
| glucose-util | yes | 67.971 | no |
| thermophile | no | 92.876 | yes |
| motile | yes | 60.343 | no |
| glucose-ferment | no | 90.246 | no |
External links
@ref: 42892
culture collection no.: DSM 103377, CCTCC AB 2016170
straininfo link
- @ref: 96591
- straininfo: 402844
literature
- topic: Phylogeny
- Pubmed-ID: 27853951
- title: Rubricella aquisinus gen. nov., sp. nov., a novel member of the family Rhodobacteraceae.
- authors: Yang LQ, Tang L, Liu L, Salam N, Li WJ, Liu X, Jin G, Jiao N, Zhang Y
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-016-0803-5
- year: 2016
- mesh: China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Phenotype, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Salinity, Seawater/*microbiology, Sodium Chloride/analysis, Species Specificity, Temperature, Ubiquinone/analysis
- topic2: Phenotype
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
| 42892 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103377 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103377) | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 96591 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID402844.1 |