viernes, 22 de agosto de 2014

Ahead of Print -Novel Porcine Epidemic Diarrhea Virus Variant with Large Genomic Deletion, South Korea - Volume 20, Number 12—December 2014 - Emerging Infectious Disease journal - CDC


Ahead of Print -Novel Porcine Epidemic Diarrhea Virus Variant with Large Genomic Deletion, South Korea - Volume 20, Number 12—December 2014 - Emerging Infectious Disease journal - CDC

Volume 20, Number 12—December 2014


Novel Porcine Epidemic Diarrhea Virus Variant with Large Genomic Deletion, South Korea



Technical Appendicies

Seongjun Park, Sanghyun Kim, Daesub Song1, and Bongkyun Park1Comments to Author 
Author affiliations: Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea (S. Park, S. Kim, D. Song)National Forensic Service, Chilgok, South Korea (S. Park)Seoul National University, Seoul, South Korea (B. Park)


Since 1992, porcine epidemic diarrhea virus (PEDV) has been one of the most common porcine diarrhea–associated viruses in South Korea. We conducted a large-scale investigation of the incidence of PEDV in pigs with diarrhea in South Korea and consequently identified and characterized a novel PEDV variant with a large genomic deletion.
Porcine epidemic diarrhea virus (PEDV) (family Coronaviridae, subfamily Coronavirinae, genusAlphacoronavirus) is an enveloped, positive-sense, single-stranded RNA virus. PEDV causes an acute and highly contagious enteric disease characterized by severe diarrhea, dehydration, and a high death rate in pigs that results in substantial economic losses in the swine industry (1). PEDV was first reported in Belgium and the United Kingdom in 1978; since then, it has been identified in many swine-raising countries in Europe and Asia, notably Belgium, Hungary, Italy, South Korea, Thailand, Japan, and China (1,2). PEDV was not reported in North and South America until 2013, when it was officially confirmed in the United States; it is spreading rapidly across the country (3). We report the emergence and genetic characterization of a novel PEDV variant with a large genomic deletion, which was serendipitously recognized in fecal and intestinal samples of suckling pigs with diarrhea in South Korea as a result of a systematic surveillance program to monitor activity for porcine diarrhea–associated viruses.

The Study

A total of 2,634 fecal and intestinal samples were collected from pigs exhibiting diarrhea from 569 swine farms in all 9 provinces of South Korea, during January 1–December 31, 2008; age groups of the pigs are defined in the Table. All samples were processed as 10% (v/v) suspensions with phosphate-buffered saline (PBS; 0.1 M, pH 7.2), and viral RNA was extracted from them. Subsequently, reverse transcription PCR (RT-PCR) was performed by using 3 primer pairs as described previously (4). To determine complete spike (S) gene sequence, we purified, cloned, and sequenced PCR products on an automated DNA sequencer by using T7, SP6 primers, and newly designed S gene–specific primers (primer sequences available on request). Sequences were analyzed by ClustalX version 1.83 program ( and MegAlign software (DNAStar Inc., Madison, WI, USA), and compared with those of reference strains in GenBank. Phylogenetic analysis was conducted with MEGA version 5.22 (5). The complete S gene sequence of the PEDV variant with a large genomic deletion (strain MF3809/2008/South Korea) described here has been deposited in GenBank under accession no. KF779469.

Dr Seongjun Park is a virologist at the Viral Infectious Disease Research Center, Korea Research Institute of Bioscience and Biotechnology and the Forensic Medicine Division, Daegu Institute, National Forensic Service. His research interests include diagnosis, molecular virology, and epidemiology of emerging viral pathogens of public health significance.


This study was supported by a grant (PJ009015) from BioGreen 21 Program, South Korea. This work was supported by a National Agenda Project grant from the Korea Research Council of Fundamental Science and Technology and the KRIBB Initiative program (KGM3121322).


  1. Song DPark BPorcine epidemic diarrhoea virus: a comprehensive review of molecular epidemiology, diagnosis, and vaccines. Virus Genes.2012;44:16775DOIPubMed
  2. Saif LJPensaert MBSestak KYeo SGJung K. Coronaviruses. In: Zimmerman JJ, Karriker LA, Ramirez A, Schwartz KJ, Stevenson GW, editors. Disease of swine. Hoboken (NJ): Wiley-Blackwell; 2012. p. 501–24.
  3. Stevenson GWHoang HSchwartz KJBurrough ERSun DMadson DEmergence of porcine epidemic diarrhea virus in the United States: clinical signs, lesions, and viral genomic sequences. J Vet Diagn Invest2013;25:64954DOIPubMed
  4. Park SJSong DSHa GWPark BKCloning and further sequence analysis of the spike gene of attenuated porcine epidemic diarrhea virus DR13.Virus Genes2007;35:5564DOIPubMed
  5. Tamura KPeterson DPeterson NStecher GNei MKumar SMEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol2011;28:27319DOIPubMed
  6. Tian YYu ZCheng KLiu YHuang JXin YMolecular characterization and phylogenetic analysis of new variants of the porcine epidemic diarrhea virus in Gansu, China in 2012. Viruses2013;5:19912004DOIPubMed
  7. Park SJKim HKSong DSMoon HJPark BKMolecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) field isolates in Korea. Arch Virol2011;156:57785DOIPubMed
  8. Kim SHKim IJPyo HMTark DSSong JYHyun BHMultiplex real-time RT-PCR for the simultaneous detection and quantification of transmissible gastroenteritis virus and porcine epidemic diarrhea virus. J Virol Methods2007;146:1727DOIPubMed
  9. Masters PSThe molecular biology of coronaviruses. Adv Virus Res2006;66:193292DOIPubMed
  10. Laude HVan Reeth KPensaert MPorcine respiratory coronavirus: molecular features and virus–host interactions. Vet Res1993;24:12550.PubMed
  11. Bernard SLaude HSite-specific alteration of transmissible gastroenteritis virus spike protein results in markedly reduced pathogenicity. J Gen Virol1995;76:223541DOIPubMed
  12. Gallagher TMBuchmeier MJCoronavirus spike proteins in viral entry and pathogenesis. Virology2001;279:3714DOIPubMed
  13. Callebaut PCorrea IPensaert MJimenez GEnjuanes LAntigenic differentiation between transmissible gastroenteritis virus of swine and a related porcine respiratory coronavirus. J Gen Virol1988;69:172530DOIPubMed
  14. Reguera JOrdono DSantiago CEnjuanes LCasasnovas JMAntigenic modules in the N-terminal S1 region of the transmissible gastroenteritis virus spike protein. J Gen Virol2011;92:111726DOIPubMed
  15. Sánchez CMGebauer FSuñé CMendez ADopazo JEnjuanes LGenetic evolution and tropism of transmissible gastroenteritis coronaviruses.Virology1992;190:92105DOIPubMed



Technical Appendix

Suggested citation for this article: Park S, Kim S, Song D, Park B. Novel porcine epidemic diarrhea virus variant with large genomic deletion, South Korea. Emerg Infect Dis [Internet]. 2014 Dec [date cited].
DOI: 10.3201/eid2012.131642
1These authors were co-principal investigators for this study.

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