Strain identifier
BacDive ID: 131332
Type strain:
Species: Chryseobacterium polytrichastri
Strain Designation: YG4-6
Strain history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; YG4-6 <- X. Chen and R. Zhao
NCBI tax ID(s): 1302687 (species)
General
@ref: 22559
BacDive-ID: 131332
DSM-Number: 26899
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Chryseobacterium polytrichastri YG4-6 is a mesophilic, Gram-negative bacterium that was isolated from surface-disinfected moss .
NCBI tax id
- NCBI tax id: 1302687
- Matching level: species
strain history
- @ref: 22559
- history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; YG4-6 <- X. Chen and R. Zhao
doi: 10.13145/bacdive131332.20230509.8.1
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 polytrichastri
- full scientific name: Chryseobacterium polytrichastri Chen et al. 2015
@ref: 22559
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Weeksellaceae
genus: Chryseobacterium
species: Chryseobacterium polytrichastri
full scientific name: Chryseobacterium polytrichastri Chen et al. 2015
strain designation: YG4-6
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.99
Culture and growth conditions
culture medium
- @ref: 22559
- name: TGY MEDIUM (DSMZ Medium 1496)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1496
- composition: Name: PGY MEDIUM (DSMZ Medium 1496) Composition: Agar 15.0 g/l Tryptone 5.0 g/l Yeast extract 3.0 g/l D-Glucose 1.0 g/l Distilled water
culture temp
- @ref: 22559
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
Isolation, sampling and environmental information
isolation
- @ref: 22559
- sample type: surface-disinfected moss (Polytrichastrum formosum)
- host species: Polytrichastrum formosum
- geographic location: Tibet province, Gawalong glacier zone (29° 38' 58.66'' N, 91° 06' 56.34'' E)
- country: China
- origin.country: CHN
- continent: Asia
- latitude: 29.6496
- longitude: 91.1156
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Moss |
#Host Body-Site | #Plant | #Sterilized plant part |
taxonmaps
- @ref: 69479
- File name: preview.99_11446.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_206;97_2215;98_8562;99_11446&stattab=map
- Last taxonomy: Chryseobacterium
- 16S sequence: KC560018
- Sequence Identity:
- Total samples: 1842
- soil counts: 509
- aquatic counts: 503
- animal counts: 526
- plant counts: 304
Safety information
risk assessment
- @ref: 22559
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22559
- description: Chryseobacterium polytrichastri strain YG4-6 16S ribosomal RNA gene, partial sequence
- accession: KC560018
- length: 1478
- database: ena
- NCBI tax ID: 1302687
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Chryseobacterium polytrichastri DSM 26899 | GCA_900142445 | scaffold | ncbi | 1302687 |
66792 | Chryseobacterium polytrichastri strain DSM 26899 | 1302687.4 | wgs | patric | 1302687 |
66792 | Chryseobacterium polytrichastri DSM 26899 | 2700988715 | draft | img | 1302687 |
GC content
- @ref: 22559
- GC-content: 37.3
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 89.503 | no |
flagellated | no | 95.522 | no |
gram-positive | no | 98.04 | no |
anaerobic | no | 99.462 | no |
aerobic | yes | 93.877 | no |
halophile | no | 95.479 | no |
spore-forming | no | 93.3 | no |
thermophile | no | 99.684 | yes |
glucose-util | yes | 89.091 | no |
glucose-ferment | no | 88.68 | no |
External links
@ref: 22559
culture collection no.: DSM 26899, CGMCC 1.12491
straininfo link
- @ref: 89773
- straininfo: 400357
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 25450189 | Chryseobacterium polytrichastri sp. nov., isolated from a moss (Polytrichastrum formosum), and emended description of the genus Chryseobacterium. | Chen XY, Zhao R, Chen ZL, Liu L, Li XD, Li YH | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0338-6 | 2014 | Bacterial Typing Techniques, Base Composition, Bryophyta/growth & development/*microbiology, Chryseobacterium/*classification/genetics/*isolation & purification, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Ice Cover, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, Vitamin K 2/analysis | Genetics |
Phylogeny | 25812970 | Chryseobacterium limigenitum sp. nov., isolated from dehydrated sludge. | Kampfer P, Trcek J, Skok B, Sorgo A, Glaeser SP | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0434-2 | 2015 | Bacterial Typing Techniques, Chryseobacterium/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology | Genetics |
Phylogeny | 26573006 | Chryseobacterium panacis sp. nov., isolated from ginseng soil. | Singh P, Kim YJ, Farh Mel-A, Dan WD, Kang CH, Yang DC | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0620-2 | 2015 | Base Composition, Chryseobacterium/classification/genetics/*isolation & purification/metabolism, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Panax/*growth & development, Phylogeny, Republic of Korea, *Soil Microbiology | Metabolism |
Phylogeny | 29458480 | Chryseobacterium glaciei sp. nov., isolated from the surface of a glacier in the Indian trans-Himalayas. | Pal M, Kumari M, Kiran S, Salwan R, Mayilraj S, Chhibber S, Gulati A | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002600 | 2018 | Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover/*microbiology, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, 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 | |
22559 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26899 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26899) | |
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 | |
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 | |
89773 | 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-ID400357.1 |