Strain identifier
BacDive ID: 130331
Type strain: 
Species: Chryseobacterium takakiae
Strain Designation: AG1-2
Strain history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; AG1-2 <- X. Chen and R. Zhao
NCBI tax ID(s): 1302685 (species)
version 8.1 (current version)
General
@ref: 21876
BacDive-ID: 130331
DSM-Number: 26898
keywords: genome sequence, 16S sequence, Bacteria
description: Chryseobacterium takakiae AG1-2 is a bacterium that was isolated from bryophyte Takakia lepidozioides.
NCBI tax id
- NCBI tax id: 1302685
- Matching level: species
strain history
- @ref: 21876
- history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; AG1-2 <- X. Chen and R. Zhao
doi: 10.13145/bacdive130331.20230509.8.1
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 takakiae
- full scientific name: Chryseobacterium takakiae Zhao et al. 2015
@ref: 21876
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Weeksellaceae
genus: Chryseobacterium
species: Chryseobacterium takakiae
full scientific name: Chryseobacterium takakiae Zhao et al. 2015
strain designation: AG1-2
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 93.528 | |
| 69480 | 99.96 | negative |
Culture and growth conditions
culture medium
- @ref: 21876
- name: CASO AGAR (MERCK 105458) (DSMZ Medium 220)
- growth: yes
- link: https://mediadive.dsmz.de/medium/220
- composition: Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.999 |
Isolation, sampling and environmental information
isolation
- @ref: 21876
- sample type: bryophyte Takakia lepidozioides
- host species: Takakia lepidozioides
- geographic location: Tibet province, Gawalong glacier
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Moss
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: KC560016
- Sequence Identity:
- Total samples: 420
- soil counts: 32
- aquatic counts: 63
- animal counts: 276
- plant counts: 49
Safety information
risk assessment
- @ref: 21876
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21876
- description: Chryseobacterium takakiae strain AG1-2 16S ribosomal RNA gene, partial sequence
- accession: KC560016
- length: 1478
- database: ena
- NCBI tax ID: 1302685
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Chryseobacterium takakiae DSM 26898 | GCA_900129385 | scaffold | ncbi | 1302685 |
| 66792 | Chryseobacterium takakiae strain DSM 26898 | 1302685.4 | wgs | patric | 1302685 |
| 66792 | Chryseobacterium takakiae DSM 26898 | 2695420944 | draft | img | 1302685 |
GC content
- @ref: 21876
- 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 | 90.524 | no |
| flagellated | no | 96.3 | no |
| gram-positive | no | 98.176 | no |
| anaerobic | no | 99.482 | no |
| aerobic | yes | 90.562 | no |
| halophile | no | 94.297 | no |
| spore-forming | no | 96.44 | no |
| thermophile | no | 98.699 | no |
| glucose-util | yes | 86.334 | no |
| glucose-ferment | no | 93.06 | no |
External links
@ref: 21876
culture collection no.: DSM 26898, CGMCC 1.12488
straininfo link
- @ref: 88864
- straininfo: 398502
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25273512 | Chryseobacterium takakiae sp. nov., a member of the phylum Bacteroidetes isolated from Takakia lepidozioides. | Zhao R, Chen XY, Li XD, Chen ZL, Li YH | Int J Syst Evol Microbiol | 10.1099/ijs.0.065888-0 | 2014 | Bacterial Typing Techniques, Base Composition, Bryophyta/*microbiology, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, Vitamin K 2/analogs & derivatives/chemistry | 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 | |
| 21876 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26898 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26898) | |
| 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 | |
| 88864 | 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-ID398502.1 |