Strain identifier

BacDive ID: 17954

Type strain: Yes

Species: Xylophilus ampelinus

Strain history: <- NCPPB <- C. G. Panagopoulos

NCBI tax ID(s): 54067 (species)

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General

@ref: 3072

BacDive-ID: 17954

DSM-Number: 7250

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

description: Xylophilus ampelinus DSM 7250 is a mesophilic plant pathogen that was isolated from Vitis vinifera.

NCBI tax id

  • NCBI tax id: 54067
  • Matching level: species

strain history

  • @ref: 3072
  • history: <- NCPPB <- C. G. Panagopoulos

doi: 10.13145/bacdive17954.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Xylophilus
  • species: Xylophilus ampelinus
  • full scientific name: Xylophilus ampelinus (Panagopoulos 1969) Willems et al. 1987

  • synonyms

    • @ref: 20215
    • synonym: Xanthomonas ampelina

@ref: 3072

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Xylophilus

species: Xylophilus ampelinus

full scientific name: Xylophilus ampelinus (Panagopoulos 1969) Willems et al. 1987

type strain: yes

Morphology

colony morphology

  • @ref: 3072
  • incubation period: 8-14 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3072R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 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
3072XYLOPHILUS MEDIUM (DSMZ Medium 587)yeshttps://mediadive.dsmz.de/medium/587Name: XYLOPHILUS MEDIUM (DSMZ Medium 587) Composition: CaCO3 20.0 g/l Agar 15.0 g/l D-Galactose 10.0 g/l Yeast extract 10.0 g/l Ferric ammonium citrate 0.25 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
3072positivegrowth25mesophilic
47532positivegrowth24psychrophilic

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentsampling date
3072Vitis viniferaVitis viniferaCreteGreeceGRCEurope
47532Vitis vinifera var. sultanaCreteGreeceGRCEurope1966

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_5649.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_308;97_3341;98_4211;99_5649&stattab=map
  • Last taxonomy: Variovorax
  • 16S sequence: AF078758
  • Sequence Identity:
  • Total samples: 596
  • soil counts: 103
  • aquatic counts: 178
  • animal counts: 174
  • plant counts: 141

Safety information

risk assessment

  • @ref: 3072
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Xylophilus ampelinus 16S ribosomal RNA gene, partial sequenceAF0787581518ena54067
20218Xylophilus ampelinus 16S rRNA gene, strain DSM 7250AJ4203301550ena54067

GC content

  • @ref: 3072
  • GC-content: 68.0
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 3072

culture collection no.: DSM 7250, ATCC 33914, CNBP 1192, LMG 5856, NCPPB 2217, PDDCC 4298, CCUG 21976, LMG 5857

straininfo link

  • @ref: 86941
  • straininfo: 92461

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19651735Xenophilus aerolatus sp. nov., isolated from air.Kim SJ, Kim YS, Weon HY, Anandham R, Noh HJ, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.013185-02009*Air Microbiology, Base Composition, Base Sequence, Comamonadaceae/*classification/genetics/physiology, DNA, Bacterial/chemistry, Korea, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, RNAGenetics
Phylogeny32970171Xylophilus rhododendri sp. nov., Isolated from Flower of Royal Azalea, Rhododendron schlippenbachii.Lee SA, Heo J, Kim TW, Sang MK, Song J, Kwon SW, Weon HYCurr Microbiol10.1007/s00284-020-02194-x2020Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Flowers, Islands, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Rhododendron, Sequence Analysis, DNA, Ubiquinone, XylophilusTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3072Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7250)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7250
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
47532Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 21976)https://www.ccug.se/strain?id=21976
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
86941Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92461.1StrainInfo: A central database for resolving microbial strain identifiers