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Spatiotemporal dynamics and epistatic interaction sites in dengue virus type 1: a comprehensive sequence-based
Pei-Yu Chu1, Guan-Ming Ke, Po-Chih Chen
1Department of Medical Laboratory Science and Biotechnology, College of Health Sciences, Kaohsiung Medical University, Kaohsiung, Taiwan ; Department of Laboratory Medicine, Kaohsiung Medical University Hospital, Kaohsiung, Taiwan.
Plos One
|September 17, 2013
Summary
This study reveals five genotypes of dengue virus type 1 (DENV1) and their geographic spread. Emerging genotypes show higher population densities, indicating evolving transmission dynamics.
Area of Science:
- Virology
- Epidemiology
- Genomics
Background:
- Dengue fever poses a significant global health threat, requiring detailed epidemiological understanding.
- Characterizing dengue virus type 1 (DENV1) evolution is crucial for effective control strategies.
Purpose of the Study:
- To reconstruct phylogenetic and recombination events of DENV1.
- To analyze phylodynamic characteristics and site-specific variation of DENV1.
Main Methods:
- Phylogenetic analysis of 100 worldwide DENV1 genome sequences.
- Reconstruction of phylodynamic characteristics and site-specific variation.
- Identification of recombination events and selection pressures.
Main Results:
- Five DENV1 genotypes (GI-GV) were identified with distinct geographic localizations.
- Emerging genotypes (GIV, GV) exhibit higher population densities.
- Negative selection restricts variation, with key interaction sites in PrM 221 and NS3 1730; recombination is prominent in regions E, NS3-NS4A, and NS5.
Conclusions:
- DENV1 transmission has evolved from random to localized patterns, with newer genotypes showing increased prevalence.
- Protein regions PrM 221 and NS3 1730 warrant further investigation for their biological roles.
- Monitoring emergent GV sublineages in Central America and Europe is essential due to their recent transmission.
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