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Strain identifier

BacDive ID: 17608

Type strain: Yes

Species: Xanthomonas cucurbitae

Strain Designation: E78, VdM

Strain history: <- NCPPB <- D. R. W. Watson; E78

NCBI tax ID(s): 56453 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 7803

BacDive-ID: 17608

DSM-Number: 18957

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

description: Xanthomonas cucurbitae E78 is a mesophilic plant pathogen that was isolated from Cucurbita maxima, leaf lesion.

NCBI tax id

  • NCBI tax id: 56453
  • Matching level: species

strain history: <- NCPPB <- D. R. W. Watson; E78

doi: 10.13145/bacdive17608.20221219.7.1

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 cucurbitae
  • full scientific name: Xanthomonas cucurbitae (ex Bryan 1926) Vauterin et al. 1995

@ref: 7803

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Xanthomonas

species: Xanthomonas cucurbitae

full scientific name: Xanthomonas cucurbitae (ex Bryan 1926) Vauterin et al. 1995

strain designation: E78, VdM

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes64.659
6948099.624negative

Culture and growth conditions

culture medium

  • @ref: 7803
  • 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: 7803
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.372

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 99.296

Isolation, sampling and environmental information

isolation

  • @ref: 7803
  • sample type: Cucurbita maxima, leaf lesion
  • host species: Cucurbita maxima
  • country: New Zealand
  • origin.country: NZL
  • continent: Australia and Oceania

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Other#Wound
#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: Y10760
  • Sequence Identity:
  • Total samples: 52152
  • soil counts: 10026
  • aquatic counts: 6826
  • animal counts: 28252
  • plant counts: 7048

Safety information

risk assessment

  • @ref: 7803
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Xanthomonas cucurbitae strain LMG690 16S-23S ribosomal RNA intergenic spacer, complete sequenceAF209757501ena56453
20218Xanthomonas cucurbitae clone K0871 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceHM181886558ena56453
7803X.cucurbitae 16S rRNA geneY107601502ena56453

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptococcus pneumoniae LMG690GCA_001149985scaffoldncbi1313
66792Streptococcus pneumoniae strain LMG6901313.6205wgspatric1313

External links

@ref: 7803

culture collection no.: DSM 18957, ICMP 2299, LMG 690, NCPPB 2597

straininfo link

@refpassport
20218http://www.straininfo.net/strains/692231
20218http://www.straininfo.net/strains/24062
20218http://www.straininfo.net/strains/24061
20218http://www.straininfo.net/strains/24063

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24170776Luteimonas abyssi sp. nov., isolated from deep-sea sediment.Fan X, Yu T, Li Z, Zhang XHInt J Syst Evol Microbiol10.1099/ijs.0.056010-02013Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Pacific Ocean, Phosphatidylethanolamines/chemistry, Phosphatidylglycerols/chemistry, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purificationGenetics
30764408First Report of Xanthomonas cucurbitae Causing Bacterial Leaf Spot of Watermelon in the Seychelles.Pruvost O, Robene-Soustrade I, Ah-You N, Jouen E, Boyer C, Wuster G, Hostachy B, Napoles C, Dogley WPlant Dis10.1094/PDIS-93-6-0671B2009
30764465First Report of Xanthomonas cucurbitae Causing Bacterial Leaf Spot of Pumpkin on Reunion Island.Pruvost O, Robene-Soustrade I, Ah-You N, Jouen E, Boyer C, Waller F, Hostachy BPlant Dis10.1094/PDIS-92-11-1591A2008

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7803Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18957)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18957
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)