Journal article
Genomic Epidemiology of Salmonella enterica Serotype Enteritidis based on Population Structure of Prevalent Lineages
University of Georgia1
University of California at Irvine2
Cornell University3
Centers for Disease Control and Prevention4
National Food Institute, Technical University of Denmark5
Division of Epidemiology and Microbial Genomics, National Food Institute, Technical University of Denmark6
United States Department of Agriculture7
University of California at Davis8
Washington University School of Medicine9
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.
| Language: | English |
|---|---|
| Publisher: | Centers for Disease Control and Prevention |
| Year: | 2014 |
| Pages: | 1481-1489 |
| ISSN: | 10806059 and 10806040 |
| Types: | Journal article |
| DOI: | 10.3201/eid2009.131095 |
| ORCIDs: | Hendriksen, Rene S. |
03508, Genetics - Human 03509, Genetics - Population genetics 12502, Pathology - General 31000, Physiology and biochemistry of bacteria 36002, Medical and clinical microbiology - Bacteriology 37052, Public health: epidemiology - Communicable diseases 37056, Public health: epidemiology - Miscellaneous EVOLUTIONARY Epidemiology FOOD SAFETY Facultatively Anaerobic Gram-Negative Rods Eubacteria Bacteria Microorganisms (Bacteria, Eubacteria, Microorganisms) - Enterobacteriaceae [06702] Salmonella enterica species pathogen serotype Enteritidis, strain-Nitra GENETICS GENOMICS GENOTYPE Human Medicine Hygiene and toxicology IMMUNOLOGY INFECTIOUS Infection Medical Sciences Microbiological aspects ORIGINS OUTBREAKS PATHOGENS PHYLOGENETICS POLYMORPHISM Population Genetics Population Studies Primates Mammalia Vertebrata Chordata Animalia (Animals, Chordates, Humans, Mammals, Primates, Vertebrates) - Hominidae [86215] human common host RECOMBINATION SALMONELLA SALMONELLA ENTERITIDIS SDG 3 - Good Health and Well-being SELECTION TANDEM REPEAT ANALYSIS TRANSMISSION UNITED-STATES fingerprinting analysis laboratory techniques, genetic techniques genetic diversity salmonellosis bacterial disease pathology, epidemiology sequencing laboratory techniques, genetic techniques single-nucleotide polymorphism typing laboratory techniques, genetic techniques
Disease Outbreaks Evolution, Molecular Genome, Bacterial Humans Infectious and parasitic diseases Medicine Models, Statistical Phylogeny Polymorphism, Single Nucleotide Prevalence R RC109-216 SNP Salmonella Infections Salmonella enterica serotype Enteritidis Salmonella enteritidis Serogroup genome sequencing genomic epidemiology subtyping subtyping, evolution, bacteria
