Genome analysis of Campylobacter jejuni strains isolated from a waterborne outbreak

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• 作者：Joana Revez (8)
  Ann-Katrin Llarena (8)
  Thomas Schott (8) (9)
  Markku Kuusi (10)
  Marjaana Hakkinen (11)
  Rauni Kivist枚 (8)
  Marja-Liisa H盲nninen (8)
  Mirko Rossi (8)
  
  8. Department of Food Hygiene and Environmental Health ; Faculty of Veterinary Medicine ; University of Helsinki ; P.O. Box 66 ; (Agnes Sj枚berginkatu 2) ; Helsinki ; FI-00014 ; Finland
  9. Biology Oceanography ; Leibniz Institute for Baltic Sea Research ; Rostock-Warnem眉nde ; Germany
  10. National Institute for Health and Welfare ; Helsinki ; Finland
  11. Research Department ; Finnish Food Safety Authority ; Helsinki ; Finland
  
• 关键词：Waterborne outbreak ; Campylobacteriosis ; Campylobacter jejuni ; Whole genome sequencing ; PFGE ; SNP ; Phage ; Integrated element ; Microevolution
• 刊名：BMC Genomics
• 出版年：2014
• 出版时间：December 2014
• 年：2014
• 卷：15
• 期：1
• 全文大小：1,151 KB
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• 刊物主题：Life Sciences, general; Microarrays; Proteomics; Animal Genetics and Genomics; Microbial Genetics and Genomics; Plant Genetics & Genomics;
• 出版者：BioMed Central
• ISSN：1471-2164

文摘

Background Waterborne Campylobacter jejuni outbreaks are common in the Nordic countries, and PFGE (pulsed field gel electrophoresis) remains the genotyping method of choice in outbreak investigations. However, PFGE cannot assess the clonal relationship between isolates, leading to difficulties in molecular epidemiological investigations. Here, we explored the applicability of whole genome sequencing to outbreak investigation by re-analysing three C. jejuni strains (one isolated from water and two from patients) from an earlier resolved Finnish waterborne outbreak from the year 2000. Results One of the patient strains had the same PFGE profile, as well as an identical overall gene synteny and three polymorphisms in comparison with the water strain. However, the other patient isolate, which showed only minor differences in the PFGE pattern relative to the water strain, harboured several polymorphisms as well as rearrangements in the integrated element CJIE2. We reconstructed the genealogy of these strains with ClonalFrame including in the analysis four C. jejuni isolated from chicken in 2012 having the same PFGE profile and sequence type as the outbreak strains. The three outbreak strains exhibited a paraphyletic relationship, implying that the drinking water from 2000 was probably contaminated with at least two different, but related, C. jejuni strains. Conclusions Our results emphasize the capability of whole genome sequencing to unambiguously resolve the clonal relationship between isolates of C. jejuni in an outbreak situation and evaluate the diversity of the C. jejuni population.