Abstract
Shigella sonnei is a human-adapted pathogen that is emerging globally as the dominant agent of bacterial dysentery. To investigate local establishment, we sequenced the genomes of 263 Vietnamese S. sonnei isolated over 15 y. Our data show that S. sonnei was introduced into Vietnam in the 1980s and has undergone localized clonal expansion, punctuated by genomic fixation events through periodic selective sweeps. We uncover geographical spread, spatially restricted frontier populations, and convergent evolution through local gene pool sampling. This work provides a unique, high-resolution insight into the microevolution of a pioneering human pathogen during its establishment in a new host population.
Keywords:
drug resistance; enteric disease; genomics; phylogeography.
Publication types
-
Research Support, Non-U.S. Gov't
MeSH terms
-
Anti-Bacterial Agents / therapeutic use
-
Child
-
Child, Preschool
-
Chromosomes, Bacterial / genetics
-
Ciprofloxacin / therapeutic use
-
Dysentery, Bacillary / drug therapy
-
Dysentery, Bacillary / epidemiology*
-
Dysentery, Bacillary / microbiology
-
Endemic Diseases*
-
Evolution, Molecular
-
Fluoroquinolones / therapeutic use
-
Gatifloxacin
-
Genetic Variation*
-
Genome, Bacterial / genetics
-
Genomics / methods
-
Geography
-
Humans
-
Infant
-
Molecular Sequence Data
-
Mutation Rate
-
Phylogeny
-
Sequence Analysis, DNA
-
Shigella sonnei / classification
-
Shigella sonnei / genetics*
-
Shigella sonnei / physiology
-
Vietnam / epidemiology
Substances
-
Anti-Bacterial Agents
-
Fluoroquinolones
-
Ciprofloxacin
-
Gatifloxacin
Associated data
-
GENBANK/HF565445
-
GENBANK/HF565446
-
GENBANK/HF572032