Evolutionary analysis of structural protein gene VP1 of foot-and-mouth disease virus serotype Asia 1

TheScientificWorldJournal
Qingxun ZhangYong-Guang Zhang

Abstract

Foot-and-mouth disease virus (FMDV) serotype Asia 1 was mostly endemic in Asia and then was responsible for economically important viral disease of cloven-hoofed animals, but the study on its selection and evolutionary process is comparatively rare. In this study, we characterized 377 isolates from Asia collected up until 2012, including four vaccine strains. Maximum likelihood analysis suggested that the strains circulating in Asia were classified into 8 different groups (groups I-VIII) or were unclassified (viruses collected before 2000). On the basis of divergence time analyses, we infer that the TMRCA of Asia 1 virus existed approximately 86.29 years ago. The result suggested that the virus had a high mutation rate (5.745 × 10(-3) substitutions/site/year) in comparison to the other serotypes of FMDV VP1 gene. Furthermore, the structural protein VP1 was under lower selection pressure and the positive selection occurred at many sites, and four codons (positions 141, 146, 151, and 169) were located in known critical antigenic residues. The remaining sites were not located in known functional regions and were moderately conserved, and the reason for supporting all sites under positive selection remains to be elucidated because ...Continue Reading

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Citations

Jun 21, 2016·Transboundary and Emerging Diseases·L RobinsonW Vosloo
Jan 19, 2019·Journal of Biomolecular Structure & Dynamics·Indra SinghAnil Rai
Aug 10, 2020·Archives of Virology·Saravanan SubramaniamRaj Kumar Singh
May 23, 2021·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Saher QadeerMuhammad Anjum Zia

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Software Mentioned

jModelTest
Bayesian Evolutionary Analysis by Sampling Trees
MEGA
TreeAnnotator
Datamonkey
Tracer
SLAC
HyPhy package
BEAST

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