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Miller RR, Langille MG, Montoya V, et al. Genomic Analysis of a Serotype 5 Streptococcus pneumoniae Outbreak in British Columbia, Canada, 2005-2009. Can J Infect Dis Med Microbiol. 2016;2016:5381871doi: 10.1155/2016/5381871.
Miller, R. R., Langille, M. G., Montoya, V., Crisan, A., Stefanovic, A., Martin, I., Hoang, L., Patrick, D. M., Romney, M., Tyrrell, G., Jones, S. J., Brinkman, F. S., & Tang, P. (2016). Genomic Analysis of a Serotype 5 Streptococcus pneumoniae Outbreak in British Columbia, Canada, 2005-2009. The Canadian journal of infectious diseases & medical microbiology = Journal canadien des maladies infectieuses et de la microbiologie medicale, 20165381871. https://doi.org/10.1155/2016/5381871
Miller, Ruth R, et al. "Genomic Analysis of a Serotype 5 Streptococcus pneumoniae Outbreak in British Columbia, Canada, 2005-2009." The Canadian journal of infectious diseases & medical microbiology = Journal canadien des maladies infectieuses et de la microbiologie medicale vol. 2016 (2016): 5381871. doi: https://doi.org/10.1155/2016/5381871
Miller RR, Langille MG, Montoya V, Crisan A, Stefanovic A, Martin I, Hoang L, Patrick DM, Romney M, Tyrrell G, Jones SJ, Brinkman FS, Tang P. Genomic Analysis of a Serotype 5 Streptococcus pneumoniae Outbreak in British Columbia, Canada, 2005-2009. Can J Infect Dis Med Microbiol. 2016;2016:5381871. doi: 10.1155/2016/5381871. Epub 2016 Apr 14. PMID: 27366170; PMCID: PMC4904568.
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Can J Infect Dis Med Microbiol. 2016;2016:5381871. doi: 10.1155/2016/5381871. Epub 2016 Apr 14.

Genomic Analysis of a Serotype 5 Streptococcus pneumoniae Outbreak in British Columbia, Canada, 2005-2009.

The Canadian journal of infectious diseases & medical microbiology = Journal canadien des maladies infectieuses et de la microbiologie medicale

Ruth R Miller, Morgan G I Langille, Vincent Montoya, Anamaria Crisan, Aleksandra Stefanovic, Irene Martin, Linda Hoang, David M Patrick, Marc Romney, Gregory Tyrrell, Steven J M Jones, Fiona S L Brinkman, Patrick Tang

Affiliations

  1. School of Population and Public Health, University of British Columbia, Vancouver, BC, Canada.
  2. Department of Pharmacology, Dalhousie University, Halifax, NS, Canada; Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada.
  3. British Columbia Centre for Disease Control, Vancouver, BC, Canada.
  4. Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada.
  5. National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada.
  6. Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada; British Columbia Public Health Laboratory, Vancouver, BC, Canada.
  7. Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada; Department of Pathology and Laboratory Medicine, St. Paul's Hospital, Providence Health Care, Vancouver, BC, Canada.
  8. Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, AB, Canada; The Provincial Laboratory for Public Health (Microbiology), Edmonton, AB, Canada.
  9. Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada; Department of Medical Genetics, University of British Columbia, Vancouver, BC, Canada; Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada.
  10. Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada.
  11. Department of Pathology, Sidra Medical and Research Center, Doha, Qatar.

PMID: 27366170 PMCID: PMC4904568 DOI: 10.1155/2016/5381871

Abstract

Background. Streptococcus pneumoniae can cause a wide spectrum of disease, including invasive pneumococcal disease (IPD). From 2005 to 2009 an outbreak of IPD occurred in Western Canada, caused by a S. pneumoniae strain with multilocus sequence type (MLST) 289 and serotype 5. We sought to investigate the incidence of IPD due to this S. pneumoniae strain and to characterize the outbreak in British Columbia using whole-genome sequencing. Methods. IPD was defined according to Public Health Agency of Canada guidelines. Two isolates representing the beginning and end of the outbreak were whole-genome sequenced. The sequences were analyzed for single nucleotide variants (SNVs) and putative genomic islands. Results. The peak of the outbreak in British Columbia was in 2006, when 57% of invasive S. pneumoniae isolates were serotype 5. Comparison of two whole-genome sequenced strains showed only 10 SNVs between them. A 15.5 kb genomic island was identified in outbreak strains, allowing the design of a PCR assay to track the spread of the outbreak strain. Discussion. We show that the serotype 5 MLST 289 strain contains a distinguishing genomic island, which remained genetically consistent over time. Whole-genome sequencing holds great promise for real-time characterization of outbreaks in the future and may allow responses tailored to characteristics identified in the genome.

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