Strain identifier
BacDive ID: 17616
Type strain: 
Species: Xanthomonas hortorum
Strain history: <- NCPPB <- ICPB <- W. Burkholder
NCBI tax ID(s): 56454 (species)
version 8.1 (current version)
General
@ref: 7840
BacDive-ID: 17616
DSM-Number: 19143
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen
description: Xanthomonas hortorum DSM 19143 is a mesophilic plant pathogen that was isolated from Hedera helix.
NCBI tax id
- NCBI tax id: 56454
- Matching level: species
strain history
- @ref: 7840
- history: <- NCPPB <- ICPB <- W. Burkholder
doi: 10.13145/bacdive17616.20230509.8.1
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 hortorum
- full scientific name: Xanthomonas hortorum Vauterin et al. 1995
synonyms
@ref synonym 20215 Xanthomonas cynarae 20215 Xanthomonas gardneri
@ref: 7840
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Lysobacteraceae
genus: Xanthomonas
species: Xanthomonas hortorum
full scientific name: Xanthomonas hortorum Vauterin et al. 1995
type strain: yes
Culture and growth conditions
culture medium
- @ref: 7840
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: 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
culture temp
- @ref: 7840
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 7840
- sample type: Hedera helix
- host species: Hedera helix
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Herbaceous plants (Grass,Crops)
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: Y10759
- Sequence Identity:
- Total samples: 52152
- soil counts: 10026
- aquatic counts: 6826
- animal counts: 28252
- plant counts: 7048
Safety information
risk assessment
- @ref: 7840
- 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 hortorum strain LMG733 16S-23S ribosomal RNA intergenic spacer, complete sequence | AF209758 | 510 | ena | 56454 |
| 20218 | Xanthomonas hortorum pv. hederae clone K0870 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequence | HM181885 | 557 | ena | 453603 |
| 7840 | X.hortorum 16S rRNA gene | Y10759 | 1502 | ena | 56454 |
Genome sequences
- @ref: 66792
- description: Xanthomonas hortorum pv. hederae strain WHRI 7744
- accession: 453603.4
- assembly level: wgs
- database: patric
- NCBI tax ID: 453603
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| gram-positive | no | 97.569 | no |
| anaerobic | no | 98.971 | no |
| halophile | no | 93.938 | no |
| spore-forming | no | 95.51 | no |
| glucose-util | yes | 92.189 | no |
| aerobic | yes | 93.849 | no |
| flagellated | no | 86.552 | no |
| thermophile | no | 99.607 | no |
| motile | yes | 79.217 | no |
| glucose-ferment | no | 89.904 | no |
External links
@ref: 7840
culture collection no.: DSM 19143, ICMP 453, LMG 733, NCPPB 939
straininfo link
- @ref: 86608
- straininfo: 5589
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year |
|---|---|---|---|---|---|---|
| Genetics | 30533651 | Draft Genome Sequences of Pathotype Strains for Three Pathovars Belonging to Three Xanthomonas Species. | Michalopoulou VA, Vicente JG, Studholme DJ, Sarris PF | Microbiol Resour Announc | 10.1128/MRA.00923-18 | 2018 |
| 30731885 | First Report of Xanthomonas hortorum pv. hederae Causing Bacterial Leaf Spot of Hedera hibernica in Slovenia. | Pirc M, Dreo T, Sustarsic M, Erjavec J, Ravnikar M | Plant Dis | 10.1094/PDIS-06-11-0498 | 2012 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7840 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19143) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19143 | |||
| 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 | |||
| 86608 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID5589.1 | StrainInfo: A central database for resolving microbial strain identifiers |