Strain identifier
BacDive ID: 13866
Type strain: 
Species: Oceanicella actignis
Strain Designation: PRQ-67
Strain history: <- M. da Costa, Univ. Coimbra, Portugal <- L. Albuquerque; PRQ-67
NCBI tax ID(s): 1189325 (species)
version 9.1 (current version)
General
@ref: 16457
BacDive-ID: 13866
DSM-Number: 22673
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Oceanicella actignis PRQ-67 is a Gram-negative bacterium that was isolated from water of shallow marine hot spring on a beach.
NCBI tax id
- NCBI tax id: 1189325
- Matching level: species
strain history
- @ref: 16457
- history: <- M. da Costa, Univ. Coimbra, Portugal <- L. Albuquerque; PRQ-67
doi: 10.13145/bacdive13866.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Paracoccaceae
- genus: Oceanicella
- species: Oceanicella actignis
- full scientific name: Oceanicella actignis Albuquerque et al. 2012
synonyms
- @ref: 20215
- synonym: Pleomorphobacterium xiamenense
@ref: 16457
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Oceanicella
species: Oceanicella actignis
full scientific name: Oceanicella actignis Albuquerque et al. 2012
strain designation: PRQ-67
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98
Culture and growth conditions
culture medium
- @ref: 16457
- 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: 16457
- growth: positive
- type: growth
- temperature: 50
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 95.636 |
| 69481 | no | 99 |
Isolation, sampling and environmental information
isolation
- @ref: 16457
- sample type: water of shallow marine hot spring on a beach
- geographic location: Azores, Island of São Miguel, Praia do Fogo, at Ribeira Quente
- country: Portugal
- origin.country: PRT
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_92721.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1892;96_38208;97_48616;98_63812;99_92721&stattab=map
- Last taxonomy: Oceanicella actignis subclade
- 16S sequence: JQ864435
- Sequence Identity:
- Total samples: 331
- soil counts: 91
- aquatic counts: 191
- animal counts: 37
- plant counts: 12
Safety information
risk assessment
- @ref: 16457
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16457
- description: Oceanicella actignis strain PRQ-67 16S ribosomal RNA gene, partial sequence
- accession: JQ864435
- length: 1431
- database: nuccore
- NCBI tax ID: 1189325
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Oceanicella actignis DSM 22673 | GCA_008124525 | scaffold | ncbi | 1189325 |
| 66792 | Oceanicella actignis strain DSM 22673 | 1189325.5 | wgs | patric | 1189325 |
| 66792 | Oceanicella actignis DSM 22673 | 2593339287 | draft | img | 1189325 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 99 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 92.145 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 78.029 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 95.636 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 67.08 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 68.637 | no |
External links
@ref: 16457
culture collection no.: DSM 22673, LMG 25334
straininfo link
- @ref: 83042
- straininfo: 362876
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22898658 | Oceanicella actignis gen. nov., sp. nov., a halophilic slightly thermophilic member of the Alphaproteobacteria. | Albuquerque L, Rainey FA, Nobre MF, da Costa MS | Syst Appl Microbiol | 10.1016/j.syapm.2012.07.001 | 2012 | Azores, Chromatography, Thin Layer, Genes, Bacterial/genetics, Hot Springs/microbiology, Lipids/analysis/chemistry, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/chemistry/*classification/genetics/*isolation & purification, Seawater/microbiology | Genetics |
| Phylogeny | 28869003 | Pleomorphobacterium xiamenense Yin et al. 2013 is a later heterotypic synonym of Oceanicella actignis Albuquerque et al. 2012. | Huang Z, Lai Q, Shao Z | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002160 | 2017 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNA | Transcriptome |
| Phylogeny | 31743595 | Physiological and genomic features of Paraoceanicella profunda gen. nov., sp. nov., a novel piezophile isolated from deep seawater of the Mariana Trench. | Liu P, Ding W, Lai Q, Liu R, Wei Y, Wang L, Xie Z, Cao J, Fang J | Microbiologyopen | 10.1002/mbo3.966 | 2019 | Alphaproteobacteria/classification/*isolation & purification/*physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial, Fatty Acids/metabolism, *Genome, Bacterial, *Genomics/methods, Geologic Sediments/microbiology, Lipid Metabolism, Phenotype, Phylogeny, Seawater/*microbiology | Genetics |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 16457 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22673) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22673 | |||
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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 | |||
| 83042 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID362876.1 | StrainInfo: A central database for resolving microbial strain identifiers |