Strain identifier

BacDive ID: 17611

Type strain: Yes

Species: Xanthomonas theicola

Strain history: <- CFBP <- ICMP <- K. Uehara

NCBI tax ID(s): 56464 (species)

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General

@ref: 7703

BacDive-ID: 17611

DSM-Number: 18797

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

description: Xanthomonas theicola DSM 18797 is a mesophilic, motile plant pathogen that was isolated from Camiella sinensis.

NCBI tax id

  • NCBI tax id: 56464
  • Matching level: species

strain history

  • @ref: 7703
  • history: <- CFBP <- ICMP <- K. Uehara

doi: 10.13145/bacdive17611.20230509.8.1

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 theicola
  • full scientific name: Xanthomonas theicola Vauterin et al. 1995

@ref: 7703

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Xanthomonas

species: Xanthomonas theicola

full scientific name: Xanthomonas theicola Vauterin et al. 1995

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes91.274
6948099.997negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7703REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)yeshttps://mediadive.dsmz.de/medium/830cName: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
7703REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: 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: 7703
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no99
69480no99.998

Isolation, sampling and environmental information

isolation

  • @ref: 7703
  • sample type: Camiella sinensis
  • host species: Camellia sinensis
  • geographic location: Chinan-cho
  • country: Japan
  • origin.country: JPN
  • continent: Asia

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Shrub (Scrub)

Safety information

risk assessment

  • @ref: 7703
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Xanthomonas theicola gene for 16S rRNA, partial sequence, strain: LMG 8684AB5585571421ena56464
20218Xanthomonas theicola strain LMG8684 16S-23S ribosomal RNA intergenic spacer, complete sequenceAF209763541ena56464
7703X.theicola 16S rRNA geneY107631502ena56464

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Xanthomonas theicola CFBP 4691GCA_014236795completencbi56464
66792Xanthomonas theicola CFBP 4691GCA_002940605contigncbi56464
66792Xanthomonas theicola strain CFBP 469156464.5completepatric56464
66792Xanthomonas theicola strain CFBP 469156464.3wgspatric56464
66792Xanthomonas theicola CFBP 46912878098136draftimg56464

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
flagellatedno84.414no
gram-positiveno97.843no
anaerobicno98.954no
aerobicyes94.403no
halophileno95.311no
spore-formingno95.451no
glucose-utilyes95.248no
thermophileno98.572yes
glucose-fermentno89.602no
motileyes81.406no

External links

@ref: 7703

culture collection no.: DSM 18797, CFBP 4691, ICMP 6774, LMG 8684

straininfo link

  • @ref: 86604
  • straininfo: 265428

literature

  • topic: Genetics
  • Pubmed-ID: 32997607
  • title: The Complete Genome Sequence of Xanthomonas theicola, the Causal Agent of Canker on Tea Plants, Reveals Novel Secretion Systems in Clade-1 Xanthomonads.
  • authors: Koebnik R, Burokiene D, Bragard C, Chang C, Saux MF, Kolliker R, Lang JM, Leach JE, Luna EK, Portier P, Sagia A, Ziegle J, Cohen SP, Jacobs JM
  • journal: Phytopathology
  • DOI: 10.1094/PHYTO-07-20-0273-SC
  • year: 2021
  • mesh: *Genome, Bacterial/genetics, Phylogeny, Plant Diseases, Tea, *Xanthomonas/genetics
  • topic2: Phylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7703Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18797)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18797
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)
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
86604Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID265428.1StrainInfo: A central database for resolving microbial strain identifiers