Strain identifier
BacDive ID: 159562
Type strain: 
Species: Xanthomonas dyei
Strain history: <- CFBP <- ICMP <- J. M. Young
NCBI tax ID(s): 743699 (species)
version 8.1 (current version)
General
@ref: 66388
BacDive-ID: 159562
DSM-Number: 110537
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen
description: Xanthomonas dyei DSM 110537 is a mesophilic plant pathogen that was isolated from Metrosideros excelsa Sol. Ex Gaertn. .
NCBI tax id
- NCBI tax id: 743699
- Matching level: species
strain history
- @ref: 66388
- history: <- CFBP <- ICMP <- J. M. Young
doi: 10.13145/bacdive159562.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Lysobacterales
- family: Lysobacteraceae
- genus: Xanthomonas
- species: Xanthomonas dyei
- full scientific name: Xanthomonas dyei Young et al. 2010
@ref: 66388
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Lysobacterales
family: Lysobacteraceae
genus: Xanthomonas
species: Xanthomonas dyei
full scientific name: Xanthomonas dyei Young et al. 2010
type strain: yes
Morphology
multimedia
- @ref: 66388
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_110537.jpg
- caption: DSM 110537 on medium 830 at 25 °C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 66388 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
| 66388 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | 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: 66388
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 66388
- sample type: Metrosideros excelsa Sol. Ex Gaertn. (angular leaf lesion with a dark non-discrete margin)
- host species: Metrosideros excelsa
- geographic location: Bay of Plenty Omahanui (37° 27' S, 176° 54' E)
- country: New Zealand
- origin.country: NZL
- continent: Australia and Oceania
- latitude: -37.45
- longitude: 176.9
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host Body-Site | #Plant | #Leaf (Phyllosphere) |
| #Host | #Plants | #Tree |
taxonmaps
- @ref: 69479
- File name: preview.99_92.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_73;97_76;98_83;99_92&stattab=map
- Last taxonomy: Xanthomonas
- 16S sequence: JQ955625
- Sequence Identity:
- Total samples: 52152
- soil counts: 10026
- aquatic counts: 6826
- animal counts: 28252
- plant counts: 7048
Safety information
risk assessment
- @ref: 66388
- pathogenicity plant: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 66388
- description: Xanthomonas dyei strain ICMP 12167 16S ribosomal RNA gene, partial sequence
- accession: JQ955625
- length: 1465
- database: ena
- NCBI tax ID: 743699
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Xanthomonas dyei CFBP7245 | GCA_002939865 | scaffold | ncbi | 743699 |
| 66792 | Xanthomonas dyei strain CFBP7245 | 743699.3 | wgs | patric | 743699 |
| 66792 | Xanthomonas dyei CFBP7245 | 2784132091 | draft | img | 743699 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 84.553 | no |
| gram-positive | no | 98.046 | no |
| anaerobic | no | 98.863 | no |
| aerobic | yes | 95.414 | no |
| halophile | no | 95.452 | no |
| spore-forming | no | 95.064 | no |
| glucose-util | yes | 95.556 | no |
| thermophile | no | 99.326 | no |
| motile | yes | 80.366 | no |
| glucose-ferment | no | 88.898 | no |
External links
@ref: 66388
culture collection no.: DSM 110537, CFBP 7245, NCPPB 4446, ICMP 12167
straininfo link
- @ref: 112041
- straininfo: 229278
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 | |
| 66388 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-110537 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 110537) | |
| 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/ | |
| 112041 | 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-ID229278.1 |