1887

Abstract

Gram-stain-negative, pectinolytic bacteria were repeatedly isolated from pear trees displaying symptoms of bleeding canker in China. Three strains, JS5, LN1 and QZH3, had identical 16S rRNA gene sequences that shared 99 % similarity to the type strain of Phylogenetic analysis of strains JS5, LN1 and QZH3 with isolates representing all species of the genus and related species supported their affiliation to . Multi-locus sequence typing employing concatenated sequences encoding ,,,,, and the intergenic spacer illustrated a phylogeny which placed strains JS5, LN1 and QZH3 as a distinct clade, separate from all other species of the genus Average nucleotide identity values obtained in comparison with all species of the genus supported the distinctiveness of strain JS5 within the genus . Additionally, all three strains were phenotypically distinguished from other species of the genus by failing to hydrolyse casein, and by producing acids from (−)--arabinose, (+)melibiose, (+)raffinose, mannitol and -inositol, but not from 5-keto--gluconate or β-gentiobiose. The name sp. nov. is proposed to accommodate these strains; the type strain is JS5 (=CGMCC 1.15464=DSM 101947).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001060
2016-08-01
2020-04-02
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/8/2831.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001060&mimeType=html&fmt=ahah

References

  1. Brady C. L., Cleenwerck I., Denman S., Venter S. N., Rodríguez-Palenzuela P., Coutinho T. A., De Vos P.. 2012; Proposal to reclassify Brenneria quercina (Hildebrand and Schroth 1967) Hauben et al. 1999 into a new genus, Lonsdalea gen. nov., as Lonsdalea quercina comb. nov., descriptions of Lonsdalea quercina subsp. quercina comb. nov., Lonsdalea quercina subsp. iberica subsp. nov. and Lonsdalea quercina subsp. britannica subsp. nov., emendation of the description of the genus Brenneria, reclassification of Dickeya dieffenbachiae as Dickeya dadantii subsp. dieffenbachiae comb. nov., and emendation of the description of Dickeya dadantii . Int J Syst Evol Microbiol62:1592–1602 [CrossRef][PubMed]
    [Google Scholar]
  2. Fessehaie A., De Boer S. H., Lévesque C. A.. 2002; Molecular characterization of DNA encoding 16S-23S rRNA intergenic spacer regions and 16S rRNA of pectolytic Erwinia species. Can J Microbiol48:387–398 [CrossRef][PubMed]
    [Google Scholar]
  3. Goris J., Konstantinidis K. T., Klappenbach J. A., Coenye T., Vandamme P., Tiedje J. M.. 2007; DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol57:81–91 [CrossRef][PubMed]
    [Google Scholar]
  4. Konstantinidis K. T., Tiedje J. M.. 2005; Towards a genome-based taxonomy for prokaryotes. J Bacteriol187:6258–6264 [CrossRef][PubMed]
    [Google Scholar]
  5. Kou L., Wang S.. 2006; The occurrence and control of the bleeding canker in Dangshan pear in China. Fruit Growers’ Friend2:44–45
    [Google Scholar]
  6. Larkin M. A., Blackshields G., Brown N. P., Chenna R., McGettigan P. A., McWilliam H., Valentin F., Wallace I. M., Wilm A. et al. 2007; clustal w and clustal_x version 2.0. Bioinformatics23:2947–2948 [CrossRef][PubMed]
    [Google Scholar]
  7. Parkinson N., DeVos P., Pirhonen M., Elphinstone J.. 2014; Dickeya aquatica sp. nov., isolated from waterways. Int J Syst Evol Microbiol64:2264–2266 [CrossRef][PubMed]
    [Google Scholar]
  8. Pham H. N., Ohkusu K., Mishima N., Noda M., Monir Shah M., Sun X., Hayashi M., Ezaki T., Nhung P. H., Hong Nhung P.. 2007; Phylogeny and species identification of the family Enterobacteriaceae based on dnaJ sequences. Diagn Microbiol Infect Dis58:153–161 [CrossRef][PubMed]
    [Google Scholar]
  9. Richter M., Rosselló-Móra R.. 2009; Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A106:19126–19131 [CrossRef]
    [Google Scholar]
  10. Samson R., Legendre J. B., Christen R., Fischer-Le Saux M., Achouak W., Gardan L.. 2005; Transfer of Pectobacterium chrysanthemi (Burkholder et al. 1953) Brenner et al. 1973 and Brenneria paradisiaca to the genus Dickeya gen. nov. as Dickeya chrysanthemi comb. nov. and Dickeya paradisiaca comb. nov. and delineation of four novel species, Dickeya dadantii sp. nov., Dickeya dianthicola sp. nov., Dickeya dieffenbachiae sp. nov. and Dickeya zeae sp. nov. Int J Syst Evol Microbiol55:1415–1427 [CrossRef][PubMed]
    [Google Scholar]
  11. Stead D. E., Sellwood J. E., Wilson J., Viney I.. 1992; Evaluation of a commercial microbial identification system based on fatty acid profiles for rapid, accurate identification of plant pathogenic bacteria. J Appl Bacteriol72:315–321 [CrossRef]
    [Google Scholar]
  12. Sławiak M., van Beckhoven J. R. C. M., Speksnijder A. G. C. L., Czajkowski R., Grabe G., van der Wolf J. M.. 2009; Biochemical and genetical analysis reveal a new clade of biovar 3 Dickeya spp. strains isolated from potato in Europe. Eur J Plant Pathol125:245–261[CrossRef]
    [Google Scholar]
  13. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S.. 2011; MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol28:2731–2739 [CrossRef][PubMed]
    [Google Scholar]
  14. van der Wolf J. M., Nijhuis E. H., Kowalewska M. J., Saddler G. S., Parkinson N., Elphinstone J. G., Pritchard L., Toth I. K., Lojkowska E. et al. 2014; Dickeya solani sp. nov., a pectinolytic plant-pathogenic bacterium isolated from potato (Solanum tuberosum). Int J Syst Evol Microbiol64:768–774 [CrossRef][PubMed]
    [Google Scholar]
  15. Waleron M., Waleron K., Lojkowska E.. 2002; Genotypic characterisation of the Erwinia genus by PCR-RFLP analysis of rpoS gene. Plant Prot Sc38:288–290
    [Google Scholar]
  16. Weisburg W. G., Barns S. M., Pelletier D. A., Lane D. J.. 1991; 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol173:697–703
    [Google Scholar]
  17. Yin G., Xu Y.. 1973; Study on the occurrence and control of the bleeding canker of pear. Xuzhou Horticulture1:15–19
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001060
Loading
/content/journal/ijsem/10.1099/ijsem.0.001060
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most cited this month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error