Strain identifier
BacDive ID: 131376
Type strain:
Species: Chryseobacterium profundimaris
Strain Designation: DY46
Strain history: Y.-Y. Huo DY46.
NCBI tax ID(s): 1387275 (species)
General
@ref: 22603
BacDive-ID: 131376
DSM-Number: 28214
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Chryseobacterium profundimaris DY46 is a mesophilic bacterium that was isolated from deep-sea sediment.
NCBI tax id
- NCBI tax id: 1387275
- Matching level: species
strain history
@ref | history |
---|---|
22603 | <- L. Xu, Second Inst. Oceanography, State Oceanic Admin., Hangzhou, China; DY46 <- Y.-H. Wu |
67770 | Y.-Y. Huo DY46. |
doi: 10.13145/bacdive131376.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Weeksellaceae
- genus: Chryseobacterium
- species: Chryseobacterium profundimaris
- full scientific name: Chryseobacterium profundimaris Xu et al. 2015
@ref: 22603
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Weeksellaceae
genus: Chryseobacterium
species: Chryseobacterium profundimaris
full scientific name: Chryseobacterium profundimaris Xu et al. 2015
strain designation: DY46
type strain: yes
Culture and growth conditions
culture medium
- @ref: 22603
- 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 |
---|---|---|---|---|
22603 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
observation
- @ref: 67770
- observation: quinones: MK-6
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | latitude | longitude |
---|---|---|---|---|
22603 | deep-sea sediment | mid-ridge (33.11° W 5.96° N, at a depth of 2577 m) | 5.96 | -33.11 |
67770 | Deep-sea sediment sample collected from the Atlantic Ocean |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_3200.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_869;97_1017;98_2453;99_3200&stattab=map
- Last taxonomy: Chryseobacterium
- 16S sequence: KF434119
- Sequence Identity:
- Total samples: 420
- soil counts: 32
- aquatic counts: 63
- animal counts: 276
- plant counts: 49
Safety information
risk assessment
- @ref: 22603
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22603
- description: Chryseobacterium profundimaris strain DY46 16S ribosomal RNA gene, partial sequence
- accession: KF434119
- length: 1439
- database: ena
- NCBI tax ID: 1387275
Genome sequences
- @ref: 66792
- description: Chryseobacterium profundimaris DSM 28214
- accession: 2724679817
- assembly level: draft
- database: img
- NCBI tax ID: 1387275
GC content
- @ref: 22603
- GC-content: 40.7
- method: thermal denaturation, midpoint method (Tm)
External links
@ref: 22603
culture collection no.: DSM 28214, CGMCC 1.12663, JCM 19801
straininfo link
- @ref: 89813
- straininfo: 397928
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 25616910 | Chryseobacterium profundimaris sp. nov., a new member of the family Flavobacteriaceae isolated from deep-sea sediment. | Xu L, Huo YY, Li ZY, Wang CS, Oren A, Xu XW | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0390-x | 2015 | Aerobiosis, Atlantic Ocean, Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Locomotion, Microscopy, Electron, Transmission, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature | Genetics |
Phylogeny | 27902299 | Chryseobacterium nepalense sp. nov., isolated from oil-contaminated soil. | Chaudhary DK, Kim J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001680 | 2017 | Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nepal, Nucleic Acid Hybridization, *Petroleum Pollution, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
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 | |
22603 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28214 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28214) | |
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/ | |
89813 | 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-ID397928.1 |