Strain identifier
BacDive ID: 162614
Type strain: 
Species: Pseudooceanicola antarcticus
Strain history: Y.-Y. Huo Ar-45.
NCBI tax ID(s): 1247613 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 162614
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Pseudooceanicola antarcticus JCM 19802 is a mesophilic, Gram-negative bacterium that was isolated from Seawater collected from the Antarctic Ocean.
NCBI tax id
- NCBI tax id: 1247613
- Matching level: species
strain history
- @ref: 67770
- history: Y.-Y. Huo Ar-45.
doi: 10.13145/bacdive162614.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Pseudooceanicola
- species: Pseudooceanicola antarcticus
- full scientific name: Pseudooceanicola antarcticus (Huo et al. 2014) Lai et al. 2015
synonyms
- @ref: 20215
- synonym: Oceanicola antarcticus
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Pseudooceanicola
species: Pseudooceanicola antarcticus
full scientific name: Pseudooceanicola antarcticus (Huo et al. 2014) Lai et al. 2015
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125438 | negative | 98 |
| 125439 | negative | 98.6 |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125438 | no | 90.76 |
| 125439 | no | 98.5 |
observation
- @ref: 67770
- observation: quinones: Q-10
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Seawater collected from the Antarctic Ocean
Sequence information
16S sequences
- @ref: 67770
- description: Pseudooceanicola antarcticus strain Ar-45 16S ribosomal RNA gene, partial sequence
- accession: JX844452
- length: 1423
- database: nuccore
- NCBI tax ID: 1247613
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pseudooceanicola antarcticus CGMCC 1.12662 | GCA_900215355 | contig | ncbi | 1247613 |
| 66792 | Pseudooceanicola antarcticus strain CGMCC 1.12662 | 1247613.3 | wgs | patric | 1247613 |
| 66792 | Pseudooceanicola antarcticus CGMCC 1.12662 | 2721755848 | draft | img | 1247613 |
GC content
- @ref: 67770
- GC-content: 62
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 82.7 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 98.6 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 73.9 | |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 98.5 | |
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 94.335 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 90.76 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 78.584 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 98 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 60.053 | no |
External links
@ref: 67770
culture collection no.: JCM 19802, CGMCC 1.12662, LMG 27868
straininfo link
- @ref: 113505
- straininfo: 390708
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24899659 | Oceanicola antarcticus sp. nov. and Oceanicola flagellatus sp. nov., moderately halophilic bacteria isolated from seawater. | Huo YY, Li ZY, You H, Wang CS, Post AF, Oren A, Xu XW | Int J Syst Evol Microbiol | 10.1099/ijs.0.062588-0 | 2014 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Pacific Ocean, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA | Genetics |
| Phylogeny | 25663028 | Pseudooceanicola atlanticus gen. nov. sp. nov., isolated from surface seawater of the Atlantic Ocean and reclassification of Oceanicola batsensis, Oceanicola marinus, Oceanicola nitratireducens, Oceanicola nanhaiensis, Oceanicola antarcticus and Oceanicola flagellatus, as Pseudooceanicola batsensis comb. nov., Pseudooceanicola marinus comb. nov., Pseudooceanicola nitratireducens comb. nov., Pseudooceanicola nanhaiensis comb. nov., Pseudooceanicola antarcticus comb. nov., and Pseudooceanicola flagellatus comb. nov. | Lai Q, Li G, Liu X, Du Y, Sun F, Shao Z | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0398-2 | 2015 | Atlantic Ocean, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature | Genetics |
| Phylogeny | 34596505 | Pseudooceanicola endophyticus sp. nov., a novel endophytic bacterium isolated from bark Aegiceras corniculatum. | Zheng ZQ, Chen MS, Yan XR, Tuo L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005036 | 2021 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Bark/*microbiology, *Primulaceae/microbiology, RNA, Ribosomal, 16S/genetics, *Rhodobacteraceae/classification/isolation & purification, Sequence Analysis, DNA | Transcriptome |
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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 |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 113505 | 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-ID390708.1 |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |