Strain identifier
BacDive ID: 17958
Type strain: 
Species: Piscinibacter aquaticus
Strain history: <- Y. Muramatsu, Natl. Inst. of Technol. and Evaluation (NITE), Japan; NBRC 102349 <- J. Song, Inha University, Incheon, Korea
NCBI tax ID(s): 392597 (species)
version 8.1 (current version)
General
@ref: 8386
BacDive-ID: 17958
DSM-Number: 19915
keywords: 16S sequence, Bacteria, facultative aerobe, mesophilic, Gram-negative, rod-shaped
description: Piscinibacter aquaticus DSM 19915 is a facultative aerobe, mesophilic, Gram-negative bacterium that was isolated from artificial freshwater pond .
NCBI tax id
- NCBI tax id: 392597
- Matching level: species
strain history
- @ref: 8386
- history: <- Y. Muramatsu, Natl. Inst. of Technol. and Evaluation (NITE), Japan; NBRC 102349 <- J. Song, Inha University, Incheon, Korea
doi: 10.13145/bacdive17958.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Burkholderiales, not assigned to family
- genus: Piscinibacter
- species: Piscinibacter aquaticus
- full scientific name: Piscinibacter aquaticus (Song and Cho 2007) Stackebrandt et al. 2009
synonyms
- @ref: 20215
- synonym: Methylibium aquaticum
@ref: 8386
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Burkholderiales, not assigned to family
genus: Piscinibacter
species: Piscinibacter aquaticus
full scientific name: Piscinibacter aquaticus (Song and Cho 2007) Stackebrandt et al. 2009
type strain: yes
Morphology
cell morphology
- @ref: 32241
- gram stain: negative
- cell length: 1.35 µm
- cell width: 0.55 µm
- cell shape: rod-shaped
- motility: no
Culture and growth conditions
culture medium
- @ref: 8386
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 8386 | positive | growth | 28 | mesophilic |
| 32241 | positive | growth | 15-42 | |
| 32241 | positive | optimum | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 32241 | positive | growth | 06-10 | alkaliphile |
| 32241 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 32241
- oxygen tolerance: facultative aerobe
halophily
- @ref: 32241
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-1 %
observation
- @ref: 32241
- observation: aggregates in clumps
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32241 | 15963 | ribitol | + | carbon source |
| 32241 | 16449 | alanine | + | carbon source |
| 32241 | 29016 | arginine | + | carbon source |
| 32241 | 28260 | galactose | + | carbon source |
| 32241 | 24265 | gluconate | + | carbon source |
| 32241 | 17754 | glycerol | + | carbon source |
| 32241 | 27570 | histidine | + | carbon source |
| 32241 | 15792 | malonate | + | carbon source |
| 32241 | 506227 | N-acetylglucosamine | + | carbon source |
| 32241 | 26271 | proline | + | carbon source |
| 32241 | 17272 | propionate | + | carbon source |
| 32241 | 26546 | rhamnose | + | carbon source |
| 32241 | 33942 | ribose | + | carbon source |
| 32241 | 17822 | serine | + | carbon source |
| 32241 | 17151 | xylitol | + | carbon source |
| 32241 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32241 | alkaline phosphatase | + | 3.1.3.1 |
| 32241 | gelatinase | + | |
| 32241 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 8386
- sample type: artificial freshwater pond (Inkyoung pond)
- geographic location: Incheon, inside Inha University
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Built environment | |
| #Environmental | #Aquatic | #Freshwater |
| #Environmental | #Aquatic | #Pond (small) |
taxonmaps
- @ref: 69479
- File name: preview.99_20857.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_818;97_952;98_15763;99_20857&stattab=map
- Last taxonomy: Piscinibacter
- 16S sequence: AB681749
- Sequence Identity:
- Total samples: 3833
- soil counts: 1140
- aquatic counts: 1530
- animal counts: 237
- plant counts: 926
Safety information
risk assessment
- @ref: 8386
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Piscinibacter aquaticus gene for 16S rRNA, partial sequence, strain: NBRC 102349 | AB681749 | 1454 | ena | 392597 |
| 8386 | Piscinibacter aquaticus strain IMCC1728 16S ribosomal RNA gene, partial sequence | DQ664244 | 1470 | ena | 392597 |
GC content
- @ref: 32241
- GC-content: 66.2
External links
@ref: 8386
culture collection no.: DSM 19915, IMCC 1728, KCCM 42364, NBRC 102349
straininfo link
- @ref: 86945
- straininfo: 293939
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 17766884 | Methylibium aquaticum sp. nov., a betaproteobacterium isolated from a eutrophic freshwater pond. | Song J, Cho JC | Int J Syst Evol Microbiol | 10.1099/ijs.0.65179-0 | 2007 | Aerobiosis/physiology, Bacterial Typing Techniques, Base Composition, Betaproteobacteria/*classification/genetics/*isolation & purification/physiology, Cytoplasmic Granules/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flagella/physiology, Fresh Water/*microbiology, Genes, rRNA, Hydroxybutyrates/analysis, Korea, Molecular Sequence Data, Organic Chemicals/metabolism, Phylogeny, Polyesters/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Temperature, Ubiquinone/analysis | Genetics |
| Phylogeny | 18180990 | Methylibium subsaxonicum spec. nov., a betaproteobacterium Isolated from a hardwater rivulet. | Stackebrandt E, Fruhling A, Cousin S, Brambilla E, Lunsdorf H, Verbarg S | Curr Microbiol | 10.1007/s00284-007-9095-3 | 2008 | Bacterial Typing Techniques, Base Composition, Betaproteobacteria/chemistry/*classification/*isolation & purification/ultrastructure, Biofilms, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Germany, Microscopy, Electron, Transmission, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Ubiquitin/analysis | Genetics |
| Phylogeny | 19622640 | Dissection of the genus Methylibium: reclassification of Methylibium fulvum as Rhizobacter fulvus comb. nov., Methylibium aquaticum as Piscinibacter aquaticus gen. nov., comb. nov. and Methylibium subsaxonicum as Rivibacter subsaxonicus gen. nov., comb. nov. and emended descriptions of the genera Rhizobacter and Methylibium. | Stackebrandt E, Verbarg S, Fruhling A, Busse HJ, Tindall BJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.008383-0 | 2009 | Betaproteobacteria/chemistry/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry, Phylogeny, Pseudomonadaceae/chemistry/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics | Enzymology |
| Phylogeny | 27550187 | Piscinibacter defluvii sp. nov., isolated from a sewage treatment plant, and emended description of the genus Piscinibacter Stackebrandt et al. 2009. | Cho SH, Lee HJ, Jeon CO | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001438 | 2016 | Bacterial Typing Techniques, Base Composition, Burkholderiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Putrescine/analogs & derivatives/chemistry, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Sewage/*microbiology, Ubiquinone/chemistry | Transcriptome |
| Phylogeny | 29957173 | Piscinibacter caeni sp. nov., isolated from activated sludge. | Chen DZ, Yu NN, Chu QY, Chen J, Ye JX, Cheng ZW, Zhang SH, Chen JM | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002891 | 2018 | Bacteria/genetics, Bacterial Typing Techniques, Base Composition, Burkholderiales/*classification/genetics/isolation & purification, Cadaverine/chemistry, China, DNA, Bacterial/genetics, Drug Industry, Fatty Acids/chemistry, Industrial Waste, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, Putrescine/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Ubiquinone/chemistry | Transcriptome |
| Phylogeny | 31754825 | Geomonas soli gen. nov., sp. nov., a New Member of the Family Comamonadaceae, Isolated from Soil. | Khan SA, Jeong SE, Park HY, Lee SS, Jeon CO | Curr Microbiol | 10.1007/s00284-019-01814-5 | 2019 | Bacterial Typing Techniques, Base Composition, Comamonadaceae/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Whole Genome Sequencing | Transcriptome |
| Phylogeny | 36473949 | Chryseolinea lacunae sp. nov. and Piscinibacter lacus sp. nov. Isolated from Artificial Pond Water. | Kim I, Chhetri G, Kim J, So Y, Seo T | Curr Microbiol | 10.1007/s00284-022-03133-8 | 2022 | Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Water |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
|---|---|---|---|---|---|---|---|
| 8386 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19915) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19915 | ||||
| 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 | ||||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | ||
| 32241 | 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 | 28776041 | 28482 | ||
| 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 | ||||
| 86945 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID293939.1 | StrainInfo: A central database for resolving microbial strain identifiers |