Comparative genomic analysis of classical and variant virulent parental/attenuated strains of porcine epidemic diarrhea virus

Viruses

Volumn 7, Issue 10, 2015, Pages 5525-5538

  Chen, Fangzhou ^a   Zhu, Yinxing ^a   Wu, Meizhou ^a   Ku, Xugang ^a   Ye, Shiyi ^a   Li, Zhonghua ^a   Guo, Xiaozhen ^a   He, Qigai ^a  

^a HUAZHONG AGRICULTURAL UNIVERSITY   (China)

Author keywords

Genomic analysis; Variant PEDV; Virus attenuation; Virus cell adaptation

Indexed keywords

NEUROENDOCRINE SPECIFIC PROTEIN; VITRONECTIN; MUTANT PROTEIN; VIRAL PROTEIN;

ANIMAL CELL; ANIMAL EXPERIMENT; ARTICLE; CELL ADAPTATION; CELL FUNCTION; CELL GROWTH; COMPARATIVE STUDY; CONTROLLED STUDY; CYTOPATHOGENIC EFFECT; GENE DELETION; GENE MUTATION; GENE SEQUENCE; GENETIC ANALYSIS; IMMUNOFLUORESCENCE; IMMUNOHISTOCHEMISTRY; MUTATION RATE; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PORCINE EPIDEMIC DIARRHEA VIRUS; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS; VIRUS IDENTIFICATION; VIRUS STRAIN; VIRUS TITRATION; VIRUS VIRULENCE; ADAPTATION; AMINO ACID SUBSTITUTION; ANIMAL; CHLOROCEBUS AETHIOPS; CORONAVIRUS INFECTION; DNA SEQUENCE; GENETIC VARIATION; GENETICS; GROWTH, DEVELOPMENT AND AGING; ISOLATION AND PURIFICATION; PIG; SWINE DISEASE; VERO CELL LINE; VETERINARY; VIROLOGY; VIRULENCE; VIRUS CULTURE; VIRUS GENOME;

ADAPTATION, BIOLOGICAL; AMINO ACID SUBSTITUTION; ANIMALS; CERCOPITHECUS AETHIOPS; CORONAVIRUS INFECTIONS; GENETIC VARIATION; GENOME, VIRAL; MUTANT PROTEINS; PORCINE EPIDEMIC DIARRHEA VIRUS; SEQUENCE ANALYSIS, DNA; SEQUENCE DELETION; SERIAL PASSAGE; SWINE; SWINE DISEASES; VERO CELLS; VIRAL STRUCTURAL PROTEINS; VIRULENCE;

EID: 84945353267     PISSN: None     EISSN: 19994915     Source Type: Journal    
DOI: 10.3390/v7102891     Document Type: Article

References (36)

1. Song, D.; Park, B. Porcine epidemic diarrhoea virus: A comprehensive review of molecular epidemiology, diagnosis, and vaccines. Virus Genes 2012, 44, 167–175.[CrossRef] [PubMed]
2. Li, W.; Li, H.; Liu, Y.; Pan, Y.; Deng, F.; Song, Y.; Tang, X.; He, Q. New variants of porcine epidemic diarrhea virus, China, 2011. Emerg. Infect. Dis. 2012, 18, 1350–1353.[CrossRef] [PubMed]
3. Xuan, H.; Xing, D.; Wang, D.; Zhu, W.; Zhao, F.; Gong, H. Study on the culture of porcine epidemic diarrhea virus adapted to fetal porcine intestine primary cell monolayer. Chin. J. Vet. Sci. 1984, 4, 202–208.
4. Chen, J.F.; Sun, D.B.; Wang, C.B.; Shi, H.Y.; Cui, X.C.; Liu, S.W.; Qiu, H.J.; Feng, L. Molecular characterization and phylogenetic analysis of membrane protein genes of porcine epidemic diarrhea virus isolates in China. Virus Genes 2008, 36, 355–364.[CrossRef] [PubMed]
5. Li, Z.L.; Zhu, L.; Ma, J.Y.; Zhou, Q.F.; Song, Y.H.; Sun, B.L.; Chen, R.A.; Xie, Q.M.; Bee, Y.Z. Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) field strains in south China. Virus Genes 2012, 45, 181–185.[CrossRef] [PubMed]
6. Sun, R.Q.; Cai, R.J.; Chen, Y.Q.; Liang, P.S.; Chen, D.K.; Song, C.X. Outbreak of porcine epidemic diarrhea in suckling piglets, China. Emerg. Infect. Dis. 2012, 18, 161–163.[CrossRef] [PubMed]
7. Gao, Y.; Kou, Q.; Ge, X.; Zhou, L.; Guo, X.; Yang, H. Phylogenetic analysis of porcine epidemic diarrhea virus field strains prevailing recently in China. Arch. Virol. 2012, 158, 711–715.[CrossRef] [PubMed]
8. Wang, X.M.; Niu, B.B.; Yan, H.; Gao, D.S.; Yang, X.; Chen, L.; Chang, H.T.; Zhao, J.; Wang, C.Q. Genetic properties of endemic Chinese porcine epidemic diarrhea virus strains isolated since 2010. Arch. Virol. 2013, 158, 2487–2494.[CrossRef] [PubMed]
9. Hao, J.W.; Xue, C.Y.; He, L.L.; Wang, Y.; Cao, Y.C. Bioinformatics insight into the spike glycoprotein gene of field porcine epidemic diarrhea strains during 2011–2013 in Guangdong, China. Virus Genes 2014, 49, 58–67.[CrossRef] [PubMed]
10. Huang, Y.W.; Dickerman, A.W.; Pineyro, P.; Li, L.; Fang, L.; Kiehne, R.; Opriessnig, T.; Meng, X.J. Origin, Evolution, and Genotyping of Emergent Porcine Epidemic Diarrhea Virus Strains in the United States. mBio 2013, 4, e00737-13.[CrossRef] [PubMed]
11. Lee, S.; Lee, C. Outbreak-Related Porcine Epidemic Diarrhea Virus Strains Similar to US Strains, South Korea, 2013. Emerg. Infect. Dis. 2014, 20, 1223–1226.[CrossRef] [PubMed]
12. Lin, C.; Chung, W.; Chang, S.; Wen, C.; Liu, H.; Chien, C.; Chiou, M.T. US-like Strain of Porcine Epidemic Diarrhea Virus Outbreaks in Taiwan, 2013–2014. J. Vet. Med. Sci. 2014, 76, 1297–1299.[CrossRef] [PubMed]
13. Chen, J.; Wang, C.; Shi, H.; Qiu, H.J.; Liu, S.; Shi, D.; Zhang, X.; Feng, L. Complete genome sequence of a Chinese virulent porcine epidemic diarrhea virus strain. J. Virol. 2011, 85, 11538–11539.[CrossRef] [PubMed]
14. Luo, Y.; Zhang, J.; Deng, X.; Ye, Y.; Liao, M.; Fan, H. Complete genome sequence of a highly prevalent isolate of porcine epidemic diarrhea virus in South China. J. Virol. 2012, 86.[CrossRef] [PubMed]
15. Kweon, C.H.; Kwon, B.J.; Lee, J.G.; Kewon, G.O.; Kang, Y.B. Derivation of attenuated porcine epidemic diarrhea virus (PEDV) as vaccine candidate. Vaccine 1999, 17, 2546–2553.[CrossRef]
16. Hofmann, M.; Wyler, R. Propagation of the virus of porcine epidemic diarrhea in cell culture. J. Clin. Microbiol. 1988, 26, 2235–2239. [PubMed]
17. Zeng, S.L.; Zhang, H.; Ding, Z.; Luo, R.; An, K.; Liu, L.Z.; Bi, J.; Chen, H.C.; Xiao, S.B.; Fang, L.R. Proteome analysis of porcine epidemic diarrhea virus (PEDV)-infected Vero cells. Proteomics 2015, 1–10.[CrossRef] [PubMed]
18. Reed, L.J.; Muench, H. A simple method of estimating fifty per cent endpoints. Am. J. Epidemiol. 1938, 27, 493–497.
19. Zhang, K.; He, Q. Establishment and Clinical Application of a Multiplex Reverse Transcription PCR for Detection of Porcine Epidemic Diarrhea Virus, Porcine Transmissible Gastroenteritis Virus and Porcine Group A Rotavirus. Chin. J. Anim. Vet. Sci. 2010, 41, 1001–1005.
20. Luo, C.Q.; Zhang, X.L.; Wang, Y.M.; Zhu, Z.H.; Deng, A.G. Effect of lipo-prostaglandin E1 on mesangial proliferative glomerulonephritis in rats. J. Huazhong Univ. Sci. Technol. Med. Sci. 2005, 25, 516–518. [PubMed]
21. Pan, Y.; Tian, X.; Li, W.; Zhou, Q.; Wang, D.; Bi, Y.; Chen, F.; Song, Y. Isolation and characterization of a variant porcine epidemic diarrhea virus in China. Virol. J. 2012, 9, e195.[CrossRef] [PubMed]
22. Tamura, K.; Dudley, J.; Nei, M.; Kumar, S. MEGA4: Molecular evolutionary genetics analysis (MEGA) software version 4. 0. Mol. Biol. Evol. 2007, 24, 1596–1599.[CrossRef] [PubMed]
23. Lole, K.S.; Bollinger, R.C.; Paranjape, R.S.; Gadkari, D.; Kulkarni, S.S.; Novak, N.G.; Ingersoll, R.; Sheppard, H.W.; Ray, S.C. Full-Length Human Immunodeficiency Virus Type 1 Genomes from Subtype C-Infected Seroconverters in India, with Evidence of Inter-subtype Recombination. J. Virol. 1999, 73, 152–160. [PubMed]
24. Krajewska, M.; Krajewski, S.; Epstein, J.I.; Shabaik, A.; Sauvageot, J.; Song, K.; Kitada, S.; Reed, J.C. Immunohistochemical analysis of bcl-2, bax, bcl-X, and mcl-1 expression in prostate cancers. Am. J. Pathol. 1996, 148, 1567–1576. [PubMed]
25. Song, D.S.; Yang, J.S.; Oh, J.S.; Han, J.H.; Park, B.K. Differentiation of a Vero cell adapted porcine epidemic diarrhea virus from Korean field strains by restriction fragment length polymorphism analysis of ORF 3. Vaccine 2003, 21, 1833–1842.[CrossRef]
26. Song, D.S.; Oh, J.S.; Kang, B.K.; Yang, J.S.; Moon, H.J.; Yoo, H.S.; Jang, Y.S.; Park, B.K. Oral efficacy of Vero cell attenuated porcine epidemic diarrhea virus DR13 strain. Res. Vet. Sci. 2007, 82, 134–140.[CrossRef] [PubMed]
27. Chen, Q.; Li, G.W.; Stasko, J.; Thomas, J.T.; Stensland, W.R.; Pillatzki, A.E.; Gauger, P.C.; Schwartz, K.J.; Madson, D.; Yoon, K.J. et al. Isolation and Characterization of Porcine Epidemic Diarrhea Viruses Associated with the 2013 Disease Outbreak among Swine in the United States. J. Clin. Microbiol. 2014, 52, 234–243.[CrossRef] [PubMed]
28. An, T.Q.; Tian, Z.J.; Zhou, Y.J.; Xiao, Y.; Peng, J.M.; Chen, J.; Jiang, Y.F.; Hao, X.F.; Tong, G.Z. Comparative genomic analysis of five pairs of virulent parental/attenuated vaccine strains of PRRSV. Vet. Microbiol. 2011, 149, 104–112.[CrossRef] [PubMed]
29. Park, S.J.; Moon, H.J.; Yang, J.S.; Lee, C.S.; Song, D.S.; Kang, B.K.; Park, B.K. Cloning and further sequence analysis of the spike gene of attenuated porcine epidemic diarrhea virus DR 13. Virus Genes 2007, 35, 55–64.[CrossRef] [PubMed]
30. Puranaveja, S.; Poolperm, P.; Lertwatcharasarakul, P.; Kesdaengsakonwut, S.; Boonsoongnern, A.; Urairong, K.; Kitikoon, P.; Choojai, P.; Kedkovid, R.; Teankum, K. et al. Chinese-like strain of porcine epidemic diarrhea virus, Thailand. Emerg. Infect. Dis. 2009, 15, 1112–1115.[CrossRef] [PubMed]
31. Sato, T.; Takeyama, N.; Katsumata, A.; Tuchiya, K.; Kodama, T.; Kusanagi, K. Mutations in the spike gene of porcine epidemic diarrhea virus associated with growth adaptation in vitro and attenuation of virulence in vivo. Virus Genes 2011, 43, 72–78.[CrossRef] [PubMed]
32. Nguyen, V.P.; Hogue, B.G. Protein interactions during coronavirus assembly. J. Virol. 1997, 71, 9278–9284. [PubMed]
33. Wang, K.; Lu, W.; Chen, J.; Xie, S.; Shi, H.; Hsu, H.; Yu, W.; Xu, K.; Bian, C.; Fischer, W.B. et al. PEDV ORF3 encodes an ion channel protein and regulates virus production. FEBS Lett. 2012, 586, 384–391.[CrossRef] [PubMed]
34. Woods, R.D. Efficacy of a transmissible gastroenteritis coronavirus with an altered ORF 3 gene. Can. J. Vet. Res. 2001, 65, 28–32. [PubMed]
35. Park, J.H.; Han, J.H.; Kwon, H.M. Sequence analysis of the ORF 7 region of transmissible gastroenteritis viruses isolated in Korea. Virus Genes 2008, 36, 71–78.[CrossRef] [PubMed]
36. Schumacher, L.L.; Woodworth, J.C.; Zhang, J.Q.; Gauger, P.C.; Chen, Q.; Welch, M.; Salzebrenner, H.; Thomas, J.; Main, R.; Dirtz, S.S. et al. Determining the minimum infectious dose of porcine epidemic diarrhea virus in a feed matrix. In Proceedings of the Midwest Meeting, Des Moines, IA, USA, 16–18 March 2015.