Strain identifier
BacDive ID: 134346
Type strain:
Species: Marinobacter psychrophilus
Strain Designation: 20041
Strain history: D.-C. Zhang et al. 20041.
NCBI tax ID(s): 330734 (species)
General
@ref: 32559
BacDive-ID: 134346
keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, motile, rod-shaped
description: Marinobacter psychrophilus 20041 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from seawater.
NCBI tax id
- NCBI tax id: 330734
- Matching level: species
strain history
- @ref: 67770
- history: D.-C. Zhang et al. 20041.
doi: 10.13145/bacdive134346.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Alteromonadales
- family: Alteromonadaceae
- genus: Marinobacter
- species: Marinobacter psychrophilus
- full scientific name: Marinobacter psychrophilus Zhang et al. 2008
@ref: 32559
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Alteromonadales
family: Alteromonadaceae
genus: Marinobacter
species: Marinobacter psychrophilus
strain designation: 20041
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32559 | negative | 1.75 µm | 0.35 µm | rod-shaped | yes | |
69480 | yes | 98.04 | ||||
69480 | negative | 99.995 |
pigmentation
- @ref: 32559
- production: yes
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
32559 | positive | growth | 0-22 | psychrophilic |
32559 | positive | optimum | 17 | psychrophilic |
67770 | positive | growth | 18 | psychrophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32559 | positive | growth | 05-10 | alkaliphile |
32559 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 32559
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.999 |
halophily
- @ref: 32559
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 02-08 %
observation
- @ref: 67770
- observation: quinones: Q-9
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32559 | 22599 | arabinose | + | carbon source |
32559 | 17754 | glycerol | + | carbon source |
32559 | 17822 | serine | + | carbon source |
32559 | 17992 | sucrose | + | carbon source |
32559 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
32559 | alkaline phosphatase | + | 3.1.3.1 |
32559 | catalase | + | 1.11.1.6 |
32559 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
@ref | sample type | latitude | longitude |
---|---|---|---|
32559 | seawater | ||
67770 | Sea-ice samples collected off the Canadian Basin of the Arctic Ocean (78° 23' 14" N 149° 06' 55" W) | 78.3872 | -149.115 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_325.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_89;96_227;97_249;98_278;99_325&stattab=map
- Last taxonomy: Marinobacter psychrophilus subclade
- 16S sequence: DQ060402
- Sequence Identity:
- Total samples: 2059
- soil counts: 171
- aquatic counts: 1732
- animal counts: 122
- plant counts: 34
Sequence information
16S sequences
- @ref: 32559
- description: Marinobacter psychrophilus strain 20041 16S ribosomal RNA gene, partial sequence
- accession: DQ060402
- length: 1506
- database: nuccore
- NCBI tax ID: 330734
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Marinobacter psychrophilus 20041 | GCA_001043175 | complete | ncbi | 330734 |
66792 | Marinobacter psychrophilus 20041 | 2636415955 | complete | img | 330734 |
GC content
@ref | GC-content | method |
---|---|---|
32559 | 55.4 | |
67770 | 55.4 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 91.56 | yes |
flagellated | yes | 89.515 | no |
gram-positive | no | 98.733 | yes |
anaerobic | no | 97.707 | yes |
aerobic | yes | 86.342 | no |
halophile | yes | 70.637 | no |
spore-forming | no | 95.849 | no |
thermophile | no | 99.595 | yes |
glucose-util | yes | 56.849 | no |
glucose-ferment | no | 89.584 | no |
External links
@ref: 32559
culture collection no.: CGMCC 1.6499, JCM 14643, BCRC 80070
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 18523195 | Marinobacter psychrophilus sp. nov., a psychrophilic bacterium isolated from the Arctic. | Zhang DC, Li HR, Xin YH, Chi ZM, Zhou PJ, Yu Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.65690-0 | 2008 | Arctic Regions, Bacterial Typing Techniques, Base Composition, *Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Ice Cover/*microbiology, Marinobacter/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity | Genetics |
Phylogeny | 26908308 | Complete genome of Marinobacter psychrophilus strain 20041(T) isolated from sea-ice of the Canadian Basin. | Song L, Ren L, Wang L, Yu Y, Wang X, Liu G | Mar Genomics | 10.1016/j.margen.2016.02.001 | 2016 | Arctic Regions, Canada, *Genome, Bacterial, Ice Cover/*microbiology, Marinobacter/classification/*genetics, Phylogeny, Sequence Analysis, DNA | Genetics |
Reference
@id | authors | title | doi/url | ID_cross_reference | pubmed |
---|---|---|---|---|---|
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 | ||
32559 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 28777 | 28776041 |
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/ | |||
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | ||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |