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. 2012 Dec;45(3):499-507.
doi: 10.1007/s11262-012-0794-x. Epub 2012 Jul 29.

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

Xi Chen  1 , Jinxian Yang, Fusong Yu, Junqing Ge, Tianlong Lin, Tieying Song
Affiliations

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

Xi Chen et al. Virus Genes. 2012 Dec.

Abstract

The outbreak of porcine epidemic diarrhea virus (PEDV) has been a big problem of swine industry in China in recent years. In this study, we investigated molecular diversity, phylogenetic relationships, and protein characterization of Fujian field samples with other PEDV reference strains. Sequence analysis of the S1 and sM genes showed that each sample had unique characteristics, and the sample P55 may be differentiated from the others by the unique deletions and insertions of sM gene. Phylogenetic analysis based on S1 or sM gene, which have high levels of variations, indicated that each sample was related to the specific reference strain, and this finding was consistent with the protein characterization prediction analysis. The study is useful to better understand the prevalence of PEDV and its prevention and control in Fujian.

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Figures

Fig. 1
Fig. 1
Alignment of amino acid sequences of S1 proteins of Fujian PEDV strains and reference strains. The asterisks represent the segments not shown in this figure. The dashes represent deleted amino acids. The shadows indicate the unique substitutions s of chosen strains. The boxes indicate the unique deletions of chosen strains
Fig. 2
Fig. 2
Alignment of amino acid sequences of sM proteins of Fujian PEDV strains and reference strains. The dashes represent deleted amino acids. The boxes indicate the unique deletions of P55 and CH/GSJIII/07
Fig. 3
Fig. 3
Phylogenetic relationship of Fujian PEDV isolates and other strains based on comparisons of S1 and sM amino acid sequences. The GenBank accession number for these genes were listed in Table 2. a Tree based on amino acid sequences of S1 protein. b Tree based on amino acid sequences of sM protein
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