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Strain identifier

BacDive ID: 17589

Type strain: Yes

Species: Xanthomonas hyacinthi

Strain history: <- NCPPB <- E. van Slogteren

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

@ref: 7869

BacDive-ID: 17589

DSM-Number: 19077

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

description: Xanthomonas hyacinthi DSM 19077 is a mesophilic plant pathogen that was isolated from Hyacinthus orientalis.

NCBI tax id

NCBI tax idMatching level
56455species
1440765strain

strain history: <- NCPPB <- E. van Slogteren

doi: 10.13145/bacdive17589.20221219.7.1

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 hyacinthi
  • full scientific name: Xanthomonas hyacinthi (ex Wakker 1883) Vauterin et al. 1995

@ref: 7869

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Xanthomonas

species: Xanthomonas hyacinthi

full scientific name: Xanthomonas hyacinthi (ex Wakker 1883) Vauterin et al. 1995

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.461

Culture and growth conditions

culture medium

  • @ref: 7869
  • 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: 7869
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.622

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 98.029

Isolation, sampling and environmental information

isolation

  • @ref: 7869
  • sample type: Hyacinthus orientalis
  • country: Netherlands
  • origin.country: NLD
  • continent: Europe

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_399.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_73;97_76;98_333;99_399&stattab=map
  • Last taxonomy: Xanthomonas
  • 16S sequence: Y10754
  • Sequence Identity:
  • Total samples: 20017
  • soil counts: 5101
  • aquatic counts: 3769
  • animal counts: 5827
  • plant counts: 5320

Safety information

risk assessment

  • @ref: 7869
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7869
  • description: X.hyacinthi 16S rRNA gene
  • accession: Y10754
  • length: 1500
  • database: ena
  • NCBI tax ID: 56455

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Xanthomonas hyacinthi DSM 19077 DSM 19077GCA_001010435contigncbi1440765
66792Xanthomonas hyacinthi DSM 190771440765.4wgspatric1440765
66792Xanthomonas hyacinthi DSM 190772651869672draftimg1440765

External links

@ref: 7869

culture collection no.: DSM 19077, ATCC 19314, ICMP 189, LMG 739, NCPPB 599, IPO 392

straininfo link

@refpassport
20218http://www.straininfo.net/strains/764110
20218http://www.straininfo.net/strains/24579
20218http://www.straininfo.net/strains/24582
20218http://www.straininfo.net/strains/24578
20218http://www.straininfo.net/strains/24585

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7869Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19077)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19077
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)