Genomic Epidemiology of Salmonella enterica Serotype Enteritidis based on Population Structure of Prevalent Lineages

Details

• Alternative Title:
  Emerg Infect Dis
• Personal Author:
  Deng, Xiangyu ; Desai, Prerak T. ; den Bakker, Henk C. ; Mikoleit, Matthew ; Tolar, Beth ; Trees, Eija ; Hendriksen, Rene S. ; Frye, Jonathan G. ; Porwollik, Steffen ; Weimer, Bart C. ; Wiedmann, Martin ; Weinstock, George M. ; Fields, Patricia I. ; McClelland, Michael
• Description:
  Salmonella enterica serotype Enteritidis is one of the most commonly reported causes of human salmonellosis. Its low genetic diversity, measured by fingerprinting methods, has made subtyping a challenge. We used whole-genome sequencing to characterize 125 S. enterica Enteritidis and 3 S. enterica serotype Nitra strains. Single-nucleotide polymorphisms were filtered to identify 4,887 reliable loci that distinguished all isolates from each other. Our whole-genome single-nucleotide polymorphism typing approach was robust for S. enterica Enteritidis subtyping with combined data for different strains from 2 different sequencing platforms. Five major genetic lineages were recognized, which revealed possible patterns of geographic and epidemiologic distribution. Analyses on the population dynamics and evolutionary history estimated that major lineages emerged during the 17th-18th centuries and diversified during the 1920s and 1950s.
• Subjects:
  Disease Outbreaks Evolution, Molecular Genome, Bacterial Genome Sequencing Genomic Epidemiology Humans Models, Statistical Phylogeny Polymorphism, Single Nucleotide Prevalence Research Salmonella Enterica Serotype Enteritidis Salmonella Enteritidis Salmonella Infections Serogroup SNP Subtyping, Evolution, Bacteria

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• Source:
  Emerg Infect Dis. 20(9):1481-1489.
• Pubmed ID:
  25147968
• Pubmed Central ID:
  PMC4178404
• Document Type:
  Journal Article
• Funding:
  R01 AI073971/AI/NIAID NIH HHS/United States ; HHSN272200900040C/AI/NIAID NIH HHS/United States ; HHSN272200900040C/PHS HHS/United States ; AI039557/AI/NIAID NIH HHS/United States ; AI073971/AI/NIAID NIH HHS/United States ; R01 AI083646/AI/NIAID NIH HHS/United States ; AI083646/AI/NIAID NIH HHS/United States ; R01 AI052237/AI/NIAID NIH HHS/United States ; R01 AI075093/AI/NIAID NIH HHS/United States ; AI052237/AI/NIAID NIH HHS/United States ; AI075093/AI/NIAID NIH HHS/United States ; AI077645/AI/NIAID NIH HHS/United States
• Volume:
  20
• Issue:
  9
• Collection(s):
  Emerging Infectious Diseases
• Main Document Checksum:
  urn:sha256:2b0dc11233859481b66fbb0ee5a1b39c72caad9592a5b3ee08ddbc314528aaba
• Download URL:
  https://stacks.cdc.gov/view/cdc/25432/cdc_25432_DS1.pdf
• File Type:
  [PDF - 628.53 KB ]