Strain identifier
BacDive ID: 17602
Type strain: 
Species: Xanthomonas arboricola
Strain Designation: S3
Strain history: <- CFBP<- ? <- D. W. Dye
NCBI tax ID(s): 56448 (species)
version 8.1 (current version)
General
@ref: 7710
BacDive-ID: 17602
DSM-Number: 18808
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen
description: Xanthomonas arboricola S3 is a mesophilic plant pathogen that was isolated from Juglandis regia.
NCBI tax id
- NCBI tax id: 56448
- Matching level: species
strain history
- @ref: 7710
- history: <- CFBP<- ? <- D. W. Dye
doi: 10.13145/bacdive17602.20230509.8.1
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 arboricola
- full scientific name: Xanthomonas arboricola Vauterin et al. 1995
@ref: 7710
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Lysobacteraceae
genus: Xanthomonas
species: Xanthomonas arboricola
full scientific name: Xanthomonas arboricola Vauterin et al. 1995
strain designation: S3
type strain: yes
Culture and growth conditions
culture medium
- @ref: 7710
- name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830c
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 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: 7710
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 7710
- sample type: Juglandis regia
- host species: Juglans regia
- country: New Zealand
- origin.country: NZL
- continent: Australia and Oceania
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #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: Y10757
- Sequence Identity:
- Total samples: 52152
- soil counts: 10026
- aquatic counts: 6826
- animal counts: 28252
- plant counts: 7048
Safety information
risk assessment
- @ref: 7710
- pathogenicity plant: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Xanthomonas arboricola pv. juglandis gene for 16S rRNA, partial sequence, strain: NCPPB 411 | AB558555 | 1450 | ena | 195709 |
| 20218 | Xanthomonas arboricola strain ICMP35 16S-23S ribosomal RNA intergenic spacer, complete sequence | AF209752 | 507 | ena | 195709 |
| 7710 | X.arboricola 16S rRNA gene | Y10757 | 1502 | ena | 195709 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Xanthomonas arboricola pv. juglandis CFBP 2528 | GCA_001013475 | scaffold | ncbi | 195709 |
| 66792 | Xanthomonas arboricola pv. juglandis strain CFBP 2528 | 195709.15 | wgs | patric | 195709 |
| 66792 | Xanthomonas arboricola pv. juglandis CFBP 2528 | 2627854245 | draft | img | 195709 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 80.862 | no |
| flagellated | no | 85.457 | no |
| gram-positive | no | 97.931 | no |
| anaerobic | no | 98.954 | no |
| aerobic | yes | 94.045 | no |
| halophile | no | 94.638 | no |
| spore-forming | no | 95.404 | no |
| thermophile | no | 99.185 | no |
| glucose-util | yes | 93.502 | no |
| glucose-ferment | no | 88.937 | no |
External links
@ref: 7710
culture collection no.: DSM 18808, ATCC 49083, CFBP 2528, ICMP 35, LMG 747, NCPPB 411
straininfo link
- @ref: 86595
- straininfo: 5635
literature
- topic: Genetics
- Pubmed-ID: 26734033
- title: Comparative Genomics of Pathogenic and Nonpathogenic Strains of Xanthomonas arboricola Unveil Molecular and Evolutionary Events Linked to Pathoadaptation.
- authors: Cesbron S, Briand M, Essakhi S, Gironde S, Boureau T, Manceau C, Fischer-Le Saux M, Jacques MA
- journal: Front Plant Sci
- DOI: 10.3389/fpls.2015.01126
- year: 2015
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7710 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18808) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18808 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 86595 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID5635.1 | StrainInfo: A central database for resolving microbial strain identifiers |