Strain identifier
BacDive ID: 13687
Type strain: 
Species: Pseudooceanicola batsensis
Strain history: <- J.-C. Cho
NCBI tax ID(s): 252305 (strain), 314255 (species)
version 8.1 (current version)
General
@ref: 6220
BacDive-ID: 13687
DSM-Number: 15984
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Pseudooceanicola batsensis DSM 15984 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seawater.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 252305 | strain |
| 314255 | species |
strain history
- @ref: 6220
- history: <- J.-C. Cho
doi: 10.13145/bacdive13687.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Pseudooceanicola
- species: Pseudooceanicola batsensis
- full scientific name: Pseudooceanicola batsensis (Cho and Giovannoni 2004) Lai et al. 2015
synonyms
- @ref: 20215
- synonym: Oceanicola batsensis
@ref: 6220
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Pseudooceanicola
species: Pseudooceanicola batsensis
full scientific name: Pseudooceanicola batsensis (Cho and Giovannoni 2004) Lai et al. 2015
type strain: yes
Morphology
cell morphology
- @ref: 30164
- gram stain: negative
- cell length: 1.1 µm
- cell width: 0.6 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 6220
- incubation period: 1-2 days
Culture and growth conditions
culture medium
- @ref: 6220
- 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 | growth | type | temperature | range |
|---|---|---|---|---|
| 6220 | positive | growth | 30 | mesophilic |
| 30164 | positive | growth | 4.0-40 | |
| 30164 | positive | optimum | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 30164 | positive | growth | 6.0-9.0 | alkaliphile |
| 30164 | positive | optimum | 7.75 |
Physiology and metabolism
oxygen tolerance
- @ref: 30164
- oxygen tolerance: aerobe
spore formation
- @ref: 30164
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30164 | NaCl | positive | growth | 0.75-10 % |
| 30164 | NaCl | positive | optimum | 5.4 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30164 | 62064 | 2,3-butanediol | + | carbon source |
| 30164 | 30089 | acetate | + | carbon source |
| 30164 | 22599 | arabinose | + | carbon source |
| 30164 | 18403 | L-arabitol | + | carbon source |
| 30164 | 15740 | formate | + | carbon source |
| 30164 | 28260 | galactose | + | carbon source |
| 30164 | 24265 | gluconate | + | carbon source |
| 30164 | 29987 | glutamate | + | carbon source |
| 30164 | 17754 | glycerol | + | carbon source |
| 30164 | 28087 | glycogen | + | carbon source |
| 30164 | 24996 | lactate | + | carbon source |
| 30164 | 15792 | malonate | + | carbon source |
| 30164 | 29864 | mannitol | + | carbon source |
| 30164 | 17268 | myo-inositol | + | carbon source |
| 30164 | 17272 | propionate | + | carbon source |
| 30164 | 17148 | putrescine | + | carbon source |
| 30164 | 17822 | serine | + | carbon source |
| 30164 | 30911 | sorbitol | + | carbon source |
| 30164 | 26986 | threonine | + | carbon source |
| 30164 | 53423 | tween 40 | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 6220 | catalase | + | 1.11.1.6 |
| 6220 | cytochrome-c oxidase | + | 1.9.3.1 |
| 30164 | catalase | + | 1.11.1.6 |
| 30164 | cytochrome oxidase | + | 1.9.3.1 |
| 30164 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
- @ref: 6220
- sample type: seawater
- geographic location: Atlantic Ocean, Sargasso Sea
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_8143.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_2662;97_4619;98_5929;99_8143&stattab=map
- Last taxonomy: Pseudooceanicola batsensis subclade
- 16S sequence: AY424898
- Sequence Identity:
- Total samples: 371
- soil counts: 2
- aquatic counts: 362
- animal counts: 3
- plant counts: 4
Safety information
risk assessment
- @ref: 6220
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6220
- description: Oceanicola batsensis strain HTCC2597 16S ribosomal RNA gene, partial sequence
- accession: AY424898
- length: 1425
- database: ena
- NCBI tax ID: 314255
GC content
- @ref: 30164
- GC-content: 67.3
External links
@ref: 6220
culture collection no.: DSM 15984, ATCC BAA 863, KCTC 12145, HTCC 2597
straininfo link
- @ref: 82870
- straininfo: 127232
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 15280281 | Oceanicola granulosus gen. nov., sp. nov. and Oceanicola batsensis sp. nov., poly-beta-hydroxybutyrate-producing marine bacteria in the order 'Rhodobacterales'. | Cho JC, Giovannoni SJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.03015-0 | 2004 | Acids/metabolism, Amino Acids/metabolism, Atlantic Ocean, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, Cytoplasmic Granules/chemistry, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry, Fatty Acids/analysis/isolation & purification, Genes, rRNA, Gentian Violet, Hydroxybutyrates/*metabolism, Microbial Sensitivity Tests, Molecular Sequence Data, Movement, Phenazines, Phylogeny, Polyesters/*metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/cytology/isolation & purification/physiology, Seawater/microbiology, Sequence Analysis, DNA, Sequence Homology, Water Microbiology | Metabolism |
| Phylogeny | 17625206 | Oceanicola marinus sp. nov., a marine alphaproteobacterium isolated from seawater collected off Taiwan. | Lin KY, Sheu SY, Chang PS, Cho JC, Chen WM | Int J Syst Evol Microbiol | 10.1099/ijs.0.65020-0 | 2007 | Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Taiwan | Genetics |
| Phylogeny | 19406811 | Oceanicola pacificus sp. nov., isolated from a deep-sea pyrene-degrading consortium. | Yuan J, Lai Q, Wang B, Sun F, Liu X, Du Y, Li G, Gu L, Zheng T, Shao Z | Int J Syst Evol Microbiol | 10.1099/ijs.0.003400-0 | 2009 | Bacterial Typing Techniques, Base Composition, Biodegradation, Environmental, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Molecular Sequence Data, Pacific Ocean, Phenotype, Phylogeny, Pyrenes/*metabolism, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Species Specificity | Genetics |
| Phylogeny | 19717582 | Oceanicola nitratireducens sp. nov., a marine alphaproteobacterium isolated from the South China Sea. | Zheng Q, Chen C, Wang YN, Jiao N | Int J Syst Evol Microbiol | 10.1099/ijs.0.016311-0 | 2009 | Alphaproteobacteria/*classification/genetics/isolation & purification/physiology, Base Sequence, Fatty Acids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology | Genetics |
| Genetics | 20418400 | Genome sequences of Oceanicola granulosus HTCC2516(T) and Oceanicola batsensis HTCC2597(TDelta). | Thrash JC, Cho JC, Vergin KL, Giovannoni SJ | J Bacteriol | 10.1128/JB.00412-10 | 2010 | Genome, Bacterial/*genetics, Molecular Sequence Data, Rhodobacteraceae/*genetics | |
| 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 | 33054905 | Pseudooceanicola aestuarii sp. nov., isolated from the Jiulong River Estuary in PR China. | Li Y, Wang Y, Wang Y, Lin F, Zhu H, Lai Q, Shao Z, Zhou H | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004520 | 2020 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, *Estuaries, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/isolation & purification, Rivers/*microbiology, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 6220 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15984) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15984 | ||||
| 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 | ||||
| 30164 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26514 | 28776041 | ||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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 | ||||
| 82870 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID127232.1 | StrainInfo: A central database for resolving microbial strain identifiers |