Strain identifier

BacDive ID: 17592

Type strain: Yes

Species: Xanthomonas vesicatoria

Strain history: <- CFBP <- D. W. Dye

NCBI tax ID(s): 925775 (strain), 56460 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 16234

BacDive-ID: 17592

DSM-Number: 22252

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile, plant pathogen

description: Xanthomonas vesicatoria DSM 22252 is a mesophilic, motile plant pathogen that was isolated from Lycopersicon esculentum.

NCBI tax id

NCBI tax idMatching level
925775strain
56460species

strain history

  • @ref: 16234
  • history: <- CFBP <- D. W. Dye

doi: 10.13145/bacdive17592.20230509.8.1

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 vesicatoria
  • full scientific name: Xanthomonas vesicatoria (ex Doidge 1920) Vauterin et al. 1995

@ref: 16234

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Xanthomonas

species: Xanthomonas vesicatoria

full scientific name: Xanthomonas vesicatoria (ex Doidge 1920) Vauterin et al. 1995

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes98.182
6948099.982negative

Culture and growth conditions

culture medium

  • @ref: 16234
  • 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: 16234
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.998

Isolation, sampling and environmental information

isolation

  • @ref: 16234
  • sample type: Lycopersicon esculentum
  • host species: Lycopersicon esculentum
  • country: New Zealand
  • origin.country: NZL
  • continent: Australia and Oceania

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: Y10761
  • Sequence Identity:
  • Total samples: 52152
  • soil counts: 10026
  • aquatic counts: 6826
  • animal counts: 28252
  • plant counts: 7048

Safety information

risk assessment

  • @ref: 16234
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Xanthomonas vesicatoria clone K0947 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceHM181928558ena56460
16234X.vesicatoria 16S rRNA geneY107611502ena925775

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Xanthomonas vesicatoria ATCC 35937 LMG911GCA_001908725completencbi925775
66792Xanthomonas vesicatoria ATCC 35937GCA_000192025contigncbi925775
66792Xanthomonas vesicatoria ATCC 35937925775.3wgspatric925775
66792Xanthomonas vesicatoria ATCC 35937925775.5completepatric925775
66792Xanthomonas vesicatoria ATCC 35937 strain LMG911925775.6plasmidpatric925775
66792Xanthomonas vesicatoria ATCC 35937 strain LMG911925775.7plasmidpatric925775
66792Xanthomonas vesicatoria Maraite, ATCC 35937651324111draftimg925775
66792Xanthomonas vesicatoria LMG 9112721755479completeimg925775

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno85.17no
gram-positiveno97.697no
anaerobicno98.847no
aerobicyes95.854no
halophileno94.71no
spore-formingno94.698no
glucose-utilyes94.249no
thermophileno99.423no
motileyes82.644no
glucose-fermentno89.46no

External links

@ref: 16234

culture collection no.: DSM 22252, ATCC 35937, CFBP 2537, ICMP 63, LMG 911, NCPPB 422

straininfo link

  • @ref: 86587
  • straininfo: 6036

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16234Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22252)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22252
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
86587Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID6036.1StrainInfo: A central database for resolving microbial strain identifiers