Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) samples from field cases in Fujian, China

Chen, Xi; Yang, Jinxian; Yu, Feifei; Ge, Jun-Qing; Lin, Tao; Song, Tieying

doi:10.1007/s11262-012-0794-x

Cited by 34 publications

(23 citation statements)

References 24 publications

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“…S protein gene mutations may alter some functional sites and protein modification sites. The asparagine (N)-linked glycosylation sites and phosphorylated sites differed among the Gansu PEDV field strains, which was consistent with the results of a previous study Chen et al, 2012). The prediction of epitopes, the pivotal functional sites closely associated with immunological recognition, should contribute to the design and development of epitope vaccines and antibodies (Chen et al, 2009;Pasick et al, 2014;Farrell and Gordon, 2015).…”

Section: Discussionsupporting

confidence: 87%

Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus samples obtained from farms in Gansu, China

Wang

et al. 2016

Genet. Mol. Res.

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ABSTRACT. Porcine epidemic diarrhea poses significant sanitation problems in the porcine industry, and has negatively affected the economy in recent years. In this study, 48 fecal specimens were collected from piglets from four intensive swine farms located in the Gansu Province of China. The molecular diversity and phylogenetic relationships between porcine epidemic diarrhea viruses (PEDV) prevalent in Gansu were probed, and the resultant proteins were characterized. Sequence analysis of the spike protein (S) genes showed that each specimen had unique characteristics, and that the PEDV1/S/4 strain could be differentiated from the others via a unique mutation of the S gene. The phylogeny of S glycoprotein showed that all strains were clustered into two major groups. The four Gansu PEDV field strains were characterized into different groups; this finding was consistent with the results of the protein characterization prediction. This analysis additionally revealed the unique characteristics of each specimen. The results of this study could be used to elucidate the prevalence of PEDV and contribute to the prevention of PEDV in Gansu.

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Section: Discussionsupporting

confidence: 87%

Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus samples obtained from farms in Gansu, China

Wang

et al. 2016

Genet. Mol. Res.

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“…The variation of field isolates of PEDV might change the genotypes and may be one of the possible reasons for the outbreaks in immunized pigs in Hebei, China [17]. Similar results were demonstrated in our primary study on field samples from 3 different swine farms in Fujian [18]. Thereby it is necessary to analyze the genetic heterogeneity of PEDV to find out which genotype prevails in Fujian.…”

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confidence: 66%

Sequence Heterogeneity of the ORF3 Gene of Porcine Epidemic Diarrhea Viruses Field Samples in Fujian, China, 2010–2012

Chen

Zeng²,

Yang

et al. 2013

Viruses

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Twenty-seven field samples that showed positive in PEDV detection were collected from different farms of Fujian province from 2010 to 2012. Their heterogeneity was investigated by analysis of the ORF3 gene because of its potential function as a representation of virulence. According to the results, six Fujian strains in Group 1 showed a different genotype with unique point mutations, which might be used in differentiation between PEDV groups and brought potential antigenic variation. P55 and five reference strains in Group 2 had a long length deletion, showing another genotype and might be involved in the variation of virulence. Phylogenetic analysis revealed that the collected Fujian strains were very distant from the vaccine development strain CV777, which might be the reason why the vaccine was inefficient to control the disease. The results can help to reconsider the strategy of PEDV vaccine management and prevent outbreaks of PEDV-induced diarrhea more efficiently.

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“…The S gene exhibits a high degree of genetic diversity [5, 20, 21], and the S protein plays important roles in interactions with cellular receptors during virus entry, the induction of neutralizing antibodies in natural hosts, growth adaptation in vitro, and attenuation of virulence in vivo [22]. Thus, the PEDV S glycoprotein is utilized for determining genetic relatedness among PEDV isolates and developing diagnostic assays and effective vaccines [23, 24]. Apart from the S gene, ORF3 is the only accessory gene in PEDV, and its product is believed to function as an ion channel and influence virus production and virulence [25, 26].…”

Section: Introductionmentioning

confidence: 99%

Novel Porcine Epidemic Diarrhea Virus (PEDV) Variants with Large Deletions in the Spike (S) Gene Coexist with PEDV Strains Possessing an Intact S Gene in Domestic Pigs in Japan: A New Disease Situation

et al. 2017

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Since late 2013, after an absence of seven years, outbreaks of porcine epidemic diarrhea virus (PEDV) infection have reemerged and swept rapidly across Japan, resulting in significant economic losses. In this study, we report the emergence, mixed infection, and genetic characterization of 15 novel field PEDV variants with large genomic deletions. The sizes of deletion varied between 582 nt (194 aa) and 648 nt (216 aa) at positions 28–714 (10–238) on the S gene (protein). Among 17 PEDV samples isolated from individual pigs, all of them contained at least two distinct genotypes with large genomic deletions, and 94.1% of them were found to consist of strains with an intact S gene. These variants were found in eight primary and nine recurrent outbreaks, and they might be associated with persistent PEDV infection in the farms. Full-length S and ORF3 genes of eight variants derived from 2 samples were characterized. This is the first report of mixed infections caused by various genotypes of PEDV and would be important for the studies of viral isolation, pathogenesis, and molecular epidemiology of the disease.

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Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) samples from field cases in Fujian, China

Cited by 34 publications

References 24 publications

Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus samples obtained from farms in Gansu, China

Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus samples obtained from farms in Gansu, China

Sequence Heterogeneity of the ORF3 Gene of Porcine Epidemic Diarrhea Viruses Field Samples in Fujian, China, 2010–2012

Novel Porcine Epidemic Diarrhea Virus (PEDV) Variants with Large Deletions in the Spike (S) Gene Coexist with PEDV Strains Possessing an Intact S Gene in Domestic Pigs in Japan: A New Disease Situation

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