Genomic and evolutionary inferences between American and global strains of porcine epidemic diarrhea virus
| Autor: | Matthew C. Jarvis, Yan Zhang, Ben M. Hause, Martha I. Nelson, Michael P. Murtaugh, Douglas Marthaler, Qiuhong Wang, Anastasia N. Vlasova, Ham Ching Lam, Richard A. Hesse, Jianqiang Zhang, Leyi Wang |
|---|---|
| Rok vydání: | 2016 |
| Předmět: |
0301 basic medicine
Diarrhea Swine Molecular Sequence Data Bayesian analysis Genome Viral Biology Genome Article Complete genome 03 medical and health sciences Food Animals Phylogenetics Animals Gene Phylogeny Genetics Whole genome sequencing Swine Diseases Phylogenetic tree Porcine epidemic diarrhea virus Molecular analysis Structural gene Sequence Analysis DNA biology.organism_classification Biological Evolution United States 030104 developmental biology GenBank Animal Science and Zoology Coronavirus Infections |
| Zdroj: | Preventive Veterinary Medicine |
| ISSN: | 0167-5877 |
| DOI: | 10.1016/j.prevetmed.2015.10.020 |
| Popis: | Porcine epidemic diarrhea virus (PEDV) has caused severe economic losses both recently in the United States (US) and historically throughout Europe and Asia. Traditionally, analysis of the spike gene has been used to determine phylogenetic relationships between PEDV strains. We determined the complete genomes of 93 PEDV field samples from US swine and analyzed the data in conjunction with complete genome sequences available from GenBank (n=126) to determine the most variable genomic areas. Our results indicate high levels of variation within the ORF1 and spike regions while the C-terminal domains of structural genes were highly conserved. Analysis of the Receptor Binding Domains in the spike gene revealed a limited number of amino acid substitutions in US strains compared to Asian strains. Phylogenetic analysis of the complete genome sequence data revealed high rates of recombination, resulting in differing evolutionary patterns in phylogenies inferred for the spike region versus whole genomes. These finding suggest that significant genetic events outside of the spike region have contributed to the evolution of PEDV. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|
Full Text from ScienceDirect