Strain identifier
BacDive ID: 17609
Type strain: 
Species: Xanthomonas pisi
Strain Designation: VdM 111, Xa1
Strain history: <- NCPPB <- D. Dye; XA1 <- N. Okabe
NCBI tax ID(s): 1440766 (strain), 56457 (species)
version 7.1 (current version)
General
@ref: 7802
BacDive-ID: 17609
DSM-Number: 18956
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen
description: Xanthomonas pisi VdM 111 is a mesophilic plant pathogen that was isolated from Pisum sativum, leaf spot.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 56457 | species |
| 1440766 | strain |
strain history: <- NCPPB <- D. Dye; XA1 <- N. Okabe
doi: 10.13145/bacdive17609.20221219.7.1
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 pisi
- full scientific name: Xanthomonas pisi (ex Goto and Okabe 1958) Vauterin et al. 1995
@ref: 7802
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Lysobacteraceae
genus: Xanthomonas
species: Xanthomonas pisi
full scientific name: Xanthomonas pisi (ex Goto and Okabe 1958) Vauterin et al. 1995
strain designation: VdM 111, Xa1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98.811
Culture and growth conditions
culture medium
- @ref: 7802
- name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1a
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 7802
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 98.557
halophily
- @ref: 69480
- halophily level: non-halophilic
- confidence: 98.03
Isolation, sampling and environmental information
isolation
- @ref: 7802
- sample type: Pisum sativum, leaf spot
- host species: Pisum sativum
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Leaf (Phyllosphere) |
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: Y10758
- Sequence Identity:
- Total samples: 52152
- soil counts: 10026
- aquatic counts: 6826
- animal counts: 28252
- plant counts: 7048
Safety information
risk assessment
- @ref: 7802
- 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 pisi clone K0876 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequence | HM181889 | 557 | ena | 56457 |
| 7802 | X.pisi 16S rRNA gene | Y10758 | 1502 | ena | 56457 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Xanthomonas pisi DSM 18956 DSM 18956 | GCA_001010415 | contig | ncbi | 1440766 |
| 66792 | Xanthomonas pisi DSM 18956 | 1440766.4 | wgs | patric | 1440766 |
| 66792 | Xanthomonas pisi DSM 18956 | 2636415828 | draft | img | 1440766 |
External links
@ref: 7802
culture collection no.: DSM 18956, ICMP 570, NCPPB 762
straininfo link
| @ref | passport |
|---|---|
| 20218 | http://www.straininfo.net/strains/692235 |
| 20218 | http://www.straininfo.net/strains/25628 |
| 20218 | http://www.straininfo.net/strains/25629 |
| 20218 | http://www.straininfo.net/strains/25631 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7802 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18956) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18956 | |||
| 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 | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) |