Strain identifier
BacDive ID: 8201
Type strain:
Species: Psychrobacter namhaensis
Strain Designation: SW-242
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 292734 (species)
General
@ref: 6372
BacDive-ID: 8201
DSM-Number: 16330
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, coccus-shaped
description: Psychrobacter namhaensis SW-242 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from sea water.
NCBI tax id
- NCBI tax id: 292734
- Matching level: species
strain history
doi: 10.13145/bacdive8201.20221219.7.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pseudomonadales
- family: Moraxellaceae
- genus: Psychrobacter
- species: Psychrobacter namhaensis
- full scientific name: Psychrobacter namhaensis Yoon et al. 2005
@ref: 6372
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Moraxellaceae
genus: Psychrobacter
species: Psychrobacter namhaensis
full scientific name: Psychrobacter namhaensis Yoon et al. 2005
strain designation: SW-242
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
31395 | negative | 2 µm | 1.1 µm | coccus-shaped | no | |
67771 | negative | |||||
69480 | negative | 99.57 |
pigmentation
- @ref: 31395
- production: no
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6372 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | 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 |
34973 | Marine agar (MA) | yes | Distilled water make up to (1000.000 ml);Marine agar (55.100 g) |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6372 | positive | growth | 30 | mesophilic |
31395 | positive | growth | 04-37 | |
31395 | positive | optimum | 27.5 | mesophilic |
34973 | positive | growth | 30 | mesophilic |
67771 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
31395 | positive | growth | 5-7.5 |
31395 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
31395 | anaerobe |
67771 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
31395 | no | |
69480 | no | 99.226 |
halophily
@ref | salt | growth | tested relation | concentration | halophily level | confidence |
---|---|---|---|---|---|---|
31395 | NaCl | positive | growth | 0-13 % | ||
31395 | NaCl | positive | optimum | 2.5 % | ||
69480 | non-halophilic | 93.013 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31395 | 30089 | acetate | + | carbon source |
31395 | 22599 | arabinose | + | carbon source |
31395 | 17057 | cellobiose | + | carbon source |
31395 | 28260 | galactose | + | carbon source |
31395 | 17234 | glucose | + | carbon source |
31395 | 17716 | lactose | + | carbon source |
31395 | 25115 | malate | + | carbon source |
31395 | 37684 | mannose | + | carbon source |
31395 | 28053 | melibiose | + | carbon source |
31395 | 15361 | pyruvate | + | carbon source |
31395 | 26546 | rhamnose | + | carbon source |
31395 | 33942 | ribose | + | carbon source |
31395 | 30031 | succinate | + | carbon source |
31395 | 53423 | tween 40 | + | carbon source |
31395 | 53426 | tween 80 | + | carbon source |
31395 | 18222 | xylose | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
31395 | alkaline phosphatase | + | 3.1.3.1 |
31395 | catalase | + | 1.11.1.6 |
31395 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
6372 | sea water | South Sea | Republic of Korea | KOR | Asia |
67771 | From seawater | West sea | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
Safety information
risk assessment
- @ref: 6372
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6372
- description: Psychrobacter namhaensis strain SW-242 16S ribosomal RNA gene, partial sequence
- accession: AY722805
- length: 1494
- database: ena
- NCBI tax ID: 292734
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Psychrobacter namhaensis DSM 16330 | GCA_016107545 | contig | ncbi | 292734 |
66792 | Psychrobacter namhaensis strain DSM 16330 | 292734.5 | wgs | patric | 292734 |
66792 | Streptococcus pneumoniae SMRU2606 | GCA_001135885 | contig | patric | 1313 |
GC content
@ref | GC-content | method |
---|---|---|
6372 | 45.3 | high performance liquid chromatography (HPLC) |
31395 | 45.3 |
External links
@ref: 6372
culture collection no.: DSM 16330, KCTC 12255, CIP 108796
straininfo link
@ref | passport |
---|---|
20218 | http://www.straininfo.net/strains/387827 |
20218 | http://www.straininfo.net/strains/387828 |
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 15879226 | Psychrobacter aquimaris sp. nov. and Psychrobacter namhaensis sp. nov., isolated from sea water of the South Sea in Korea. | Yoon JH, Lee CH, Yeo SH, Oh TK | Int J Syst Evol Microbiol | 10.1099/ijs.0.63464-0 | 2005 | Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Gentian Violet, Korea, Molecular Sequence Data, Movement, Nucleic Acid Hybridization, Phenazines, Phylogeny, Psychrobacter/*classification/cytology/*isolation & purification/physiology, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/pharmacology, Temperature, Water Microbiology | Genetics |
Phylogeny | 19502339 | Psychrobacter fulvigenes sp. nov., isolated from a marine crustacean from the Sea of Japan. | Romanenko LA, Tanaka N, Frolova GM, Mikhailov VV | Int J Syst Evol Microbiol | 10.1099/ijs.0.007195-0 | 2009 | Animals, Bacterial Typing Techniques, Base Composition, Crustacea/*microbiology, DNA Gyrase/genetics, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Oceans and Seas, Phenotype, Phylogeny, Polymerase Chain Reaction/methods, Psychrobacter/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Seawater, Sequence Analysis, DNA, Species Specificity | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
---|---|---|---|---|---|---|---|
6372 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16330) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16330 | ||||
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 | ||
27705 | 10.1099/ijs.0.63464-0 | 15879226 | |||||
31395 | 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 | 27705 | ||
34973 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6465 | |||||
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) | ||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | |||||
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) |