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Sequence heterogeneity of the ORF3 gene of porcine epidemic diarrhea viruses field samples in Fujian, China, 2010-2012.

Chen X, Zeng L, Yang J, Yu F, Ge J, Guo Q, Gao X, Song T - Viruses (2013)

Bottom Line: 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.The results can help to reconsider the strategy of PEDV vaccine management and prevent outbreaks of PEDV-induced diarrhea more efficiently.

View Article: PubMed Central - PubMed

Affiliation: Biotechnology Institute, Fujian Academy of Agricultural Sciences, Fuzhou 350003, China. tieyingsong@163.com.

ABSTRACT
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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Related in: MedlinePlus

Phylogenetic tree of the nucleotide sequences of PEDV samples based on the ORF3 gene. Sequences of reference strains were obtained from the GeneBank database. GeneBank accession numbers were shown in Table 1. Tree topology was constructed using F84 model and bootstrap re-sampling (1,000 data sets) of the multiple alignments was used to test the statistical robustness of the trees obtained by NJ (using the program Neighbor from Mega v4.0 package) G1-G4: Divided groups by phylogenetic tree. The underlines represent the Fujian field samples in this study.
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viruses-05-02375-f003: Phylogenetic tree of the nucleotide sequences of PEDV samples based on the ORF3 gene. Sequences of reference strains were obtained from the GeneBank database. GeneBank accession numbers were shown in Table 1. Tree topology was constructed using F84 model and bootstrap re-sampling (1,000 data sets) of the multiple alignments was used to test the statistical robustness of the trees obtained by NJ (using the program Neighbor from Mega v4.0 package) G1-G4: Divided groups by phylogenetic tree. The underlines represent the Fujian field samples in this study.

Mentions: To analyze the phylogenetic relationships of the 27 Fujian samples and the reference strains from various parts of the world, we constructed a neighbor-joining phylogenetic tree using their ORF3 amino acid sequences (Figure 3). The results indicated that all the local stains were separated into three potential clusters, which might have different origins based on the topology. P55 was clustered into Group 2, while the others were clustered into Group 1. In Group 1, 6 Fujian samples clustered into one subgroup (Subgroup 1) and the other 20 samples were clustered into Subgroup 3.


Sequence heterogeneity of the ORF3 gene of porcine epidemic diarrhea viruses field samples in Fujian, China, 2010-2012.

Chen X, Zeng L, Yang J, Yu F, Ge J, Guo Q, Gao X, Song T - Viruses (2013)

Phylogenetic tree of the nucleotide sequences of PEDV samples based on the ORF3 gene. Sequences of reference strains were obtained from the GeneBank database. GeneBank accession numbers were shown in Table 1. Tree topology was constructed using F84 model and bootstrap re-sampling (1,000 data sets) of the multiple alignments was used to test the statistical robustness of the trees obtained by NJ (using the program Neighbor from Mega v4.0 package) G1-G4: Divided groups by phylogenetic tree. The underlines represent the Fujian field samples in this study.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3814593&req=5

viruses-05-02375-f003: Phylogenetic tree of the nucleotide sequences of PEDV samples based on the ORF3 gene. Sequences of reference strains were obtained from the GeneBank database. GeneBank accession numbers were shown in Table 1. Tree topology was constructed using F84 model and bootstrap re-sampling (1,000 data sets) of the multiple alignments was used to test the statistical robustness of the trees obtained by NJ (using the program Neighbor from Mega v4.0 package) G1-G4: Divided groups by phylogenetic tree. The underlines represent the Fujian field samples in this study.
Mentions: To analyze the phylogenetic relationships of the 27 Fujian samples and the reference strains from various parts of the world, we constructed a neighbor-joining phylogenetic tree using their ORF3 amino acid sequences (Figure 3). The results indicated that all the local stains were separated into three potential clusters, which might have different origins based on the topology. P55 was clustered into Group 2, while the others were clustered into Group 1. In Group 1, 6 Fujian samples clustered into one subgroup (Subgroup 1) and the other 20 samples were clustered into Subgroup 3.

Bottom Line: 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.The results can help to reconsider the strategy of PEDV vaccine management and prevent outbreaks of PEDV-induced diarrhea more efficiently.

View Article: PubMed Central - PubMed

Affiliation: Biotechnology Institute, Fujian Academy of Agricultural Sciences, Fuzhou 350003, China. tieyingsong@163.com.

ABSTRACT
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.

Show MeSH
Related in: MedlinePlus