-
Full-length genome analysis of two genetically distinct variants of porcine epidemic diarrhea virus in Thailand
- Back
Metadata
Document Title
Full-length genome analysis of two genetically distinct variants of porcine epidemic diarrhea virus in Thailand
Author
Cheun-Arom T., Temeeyasen G., Tripipat T., Kaewprommal P., Piriyapongsa J., Sukrong S., Chongcharoen W., Tantituvanont A., Nilubol D.
Name from Authors Collection
Affiliations
Department of Veterinary Microbiology, Faculty of Veterinary Science, Bangkok, Thailand; Genome Technology Research Unit, National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency, Pathumthani, Thailand; Department of Pharmacognosy and Pharmaceutical Botany, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok, Thailand; Department of Pharmaceutics and Industrial Pharmacy, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok, 10330, Thailand
Type
Article
Source Title
Infection, Genetics and Evolution
ISSN
15671348
Year
2016
Volume
44
Page
114-121
Open Access
Green
Publisher
Elsevier B.V.
DOI
10.1016/j.meegid.2016.06.046
Abstract
Porcine epidemic diarrhea virus (PEDV) has continued to cause sporadic outbreaks in Thailand since 2007 and a pandemic variant containing an insertion and deletion in the spike gene was responsible for outbreaks. In 2014, there were further outbreaks of the disease occurring within four months of each other. In this study, the full-length genome sequences of two genetically distinct PEDV isolates from the outbreaks were characterized. The two PEDV isolates, CBR1/2014 and EAS1/2014, were 28,039 and 28,033 nucleotides in length and showed 96.2% and 93.6% similarities at nucleotide and amino acid levels respectively. In total, we have observed 1048 nucleotide substitutions throughout the genome. Compared to EAS1/2014, CBR1/2014 has 2 insertions of 4 (56GENQ59) and 1 (140N) amino acid positions 56-59 and 140, and 2 deletions of 2 (160DG161) and 1 (1199Y) amino acid positions 160-161 and 1199. The phylogenetic analysis based on full-length genome of CBR1/2014 isolate has grouped the virus with the pandemic variants. In contrast, EAS1/2014 isolate was grouped with CV777, LZC and SM98, a classical variant. Our findings demonstrated the emergence of EAS1/2014, a classical variant which is novel to Thailand and genetically distinct from the currently circulating endemic variants. This study warrants further investigations into molecular epidemiology and genetic evolution of the PEDV in Thailand. © 2016 Elsevier B.V.
Industrial Classification
Knowledge Taxonomy Level 1
Knowledge Taxonomy Level 2
Knowledge Taxonomy Level 3
Funding Sponsor
Chulalongkorn University; National Research Council of Thailand
License
CC BY or CC BY-NC-ND
Rights
Elsevier B.V.
Publication Source
Scopus