Strain identifier
BacDive ID: 132994
Type strain: 
Species: Rubripirellula obstinata
Strain Designation: LF1
Strain history: <- O. M. Lage, Faculty Sci., Univ. Porto, Portugal <- O. M. Lage and J. Bondoso
NCBI tax ID(s): 406547 (species)
version 8.1 (current version)
General
@ref: 24782
BacDive-ID: 132994
DSM-Number: 26289
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Rubripirellula obstinata LF1 is a Gram-negative bacterium that was isolated from epithytic community of a marine macroalga .
NCBI tax id
- NCBI tax id: 406547
- Matching level: species
strain history
- @ref: 24782
- history: <- O. M. Lage, Faculty Sci., Univ. Porto, Portugal <- O. M. Lage and J. Bondoso
doi: 10.13145/bacdive132994.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/planctomycetota
- domain: Bacteria
- phylum: Planctomycetota
- class: Planctomycetia
- order: Pirellulales
- family: Pirellulaceae
- genus: Rubripirellula
- species: Rubripirellula obstinata
- full scientific name: Rubripirellula obstinata Bondoso et al. 2016
@ref: 24782
domain: Bacteria
phylum: Planctomycetes
class: Planctomycetia
order: Planctomycetales
family: Pirellulaceae
genus: Rubripirellula
species: Rubripirellula obstinata
full scientific name: Rubripirellula obstinata Bondoso et al. 2016
strain designation: LF1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.99
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.994 |
Isolation, sampling and environmental information
isolation
- @ref: 24782
- sample type: epithytic community of a marine macroalga (Laminaria sp.)
- host species: Laminaria
- geographic location: Northern coast at Porto
- country: Portugal
- origin.country: PRT
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Host | #Algae | #Brown Algae |
| #Host | #Other | #Epibiont |
taxonmaps
- @ref: 69479
- File name: preview.99_5254.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_75;96_2553;97_3120;98_3919;99_5254&stattab=map
- Last taxonomy: Rubripirellula obstinata subclade
- 16S sequence: DQ986201
- Sequence Identity:
- Total samples: 773
- soil counts: 42
- aquatic counts: 707
- animal counts: 14
- plant counts: 10
Safety information
risk assessment
- @ref: 24782
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24782
- description: Rubripirellula obstinata strain LF1 16S ribosomal RNA gene, partial sequence
- accession: DQ986201
- length: 1452
- database: ena
- NCBI tax ID: 406547
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rubripirellula obstinata LF1 | GCA_008374075 | contig | ncbi | 406547 |
| 66792 | Rubripirellula obstinata CECT 8602 | GCA_001642955 | contig | ncbi | 406547 |
| 66792 | Rubripirellula obstinata strain CECT 8602 | 406547.7 | wgs | patric | 406547 |
| 66792 | Rubripirellula obstinata LF1 | 2731957971 | draft | img | 406547 |
GC content
- @ref: 24782
- GC-content: 56.1
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 96.734 | no |
| anaerobic | no | 95.239 | no |
| halophile | yes | 51.873 | no |
| spore-forming | no | 92.109 | no |
| glucose-util | yes | 88.994 | no |
| aerobic | yes | 80.598 | no |
| flagellated | no | 81.934 | no |
| thermophile | no | 98.049 | no |
| motile | yes | 82.725 | no |
| glucose-ferment | no | 84.123 | no |
External links
@ref: 24782
culture collection no.: DSM 26289, CECT 8602, LMG 27779
straininfo link
- @ref: 91270
- straininfo: 407448
literature
- topic: Phylogeny
- Pubmed-ID: 25487949
- title: Roseimaritima ulvae gen. nov., sp. nov. and Rubripirellula obstinata gen. nov., sp. nov. two novel planctomycetes isolated from the epiphytic community of macroalgae.
- authors: Bondoso J, Albuquerque L, Nobre MF, Lobo-da-Cunha A, da Costa MS, Lage OM
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2014.10.004
- year: 2014
- mesh: Bacterial Proteins/metabolism, Base Composition, DNA, Bacterial/genetics, Molecular Sequence Data, Molecular Typing, Phylogeny, Planctomycetales/enzymology/genetics/*isolation & purification/ultrastructure, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Seaweed/enzymology/genetics/*isolation & purification/ultrastructure, Sequence Analysis, DNA, Water Microbiology
- topic2: Enzymology
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 | |
| 24782 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26289 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26289) | |
| 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 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 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 | |
| 91270 | 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-ID407448.1 |