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Isolation, identification and complete genome sequence analysis of a strain of foot-and-mouth disease virus serotype Asia1 from pigs in southwest of China.

Yang X, Zhou YS, Wang HN, Zhang Y, Wei K, Wang T - Virol. J. (2011)

Bottom Line: In 2005-2007, FMD outbreaks caused by Asia1 type occurred in many regions of China, as well as some parts of East Asia countries.The complete genome of Asia1/WHN/CHA/06 was 8161 nucleotides (nt) in length, and was closer to JS/CHA/05 than to all other strains.Potential recombination events associated with Asia1/WHN/CHA/06 were found between JS/CHA/05 and HNK/CHA/05 strains with partial 3B and 3C fragments.

View Article: PubMed Central - HTML - PubMed

Affiliation: School of Life science, Sichuan University, Animal Disease Prevention and Food Safety Key Laboratory of Sichuan Province," 985 Project" Science Innovative Platform for Resource and environment Protection of Southwestern, Key Laboratory of Bio-resources and Eco-environment, Ministry of Education, Chengdu, Sichuan, 610064, China.

ABSTRACT

Background: Foot-and-mouth disease virus (FMDV) serotype Asia1 generally infects cattle and sheep, while its infection of pigs is rarely reported. In 2005-2007, FMD outbreaks caused by Asia1 type occurred in many regions of China, as well as some parts of East Asia countries. During the outbreaks, there was not any report that pigs were found to be clinically infected.

Results: In this study, a strain of FMDV that isolated from pigs was identified as serotype Asia1, and designated as "Asia1/WHN/CHA/06". To investigate the genomic feature of the strain, complete genome of Asia1/WHN/CHA/06 was sequenced and compared with sequences of other FMDVs by phylogenetic and recombination analysis. The complete genome of Asia1/WHN/CHA/06 was 8161 nucleotides (nt) in length, and was closer to JS/CHA/05 than to all other strains. Potential recombination events associated with Asia1/WHN/CHA/06 were found between JS/CHA/05 and HNK/CHA/05 strains with partial 3B and 3C fragments.

Conclusion: This is the first report of the isolation and identification of a strain of FMDV type Asia1 from naturally infected pigs. The Asia1/WHN/CHA/06 strain may evolve from the recombination of JS/CHA/05 and HNK/CHA/05 strains.

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Related in: MedlinePlus

Nucleotide similarity comparison of the complete sequences of Asia1/WHN/CHA/06 with those of representative FMDVs. It showed a window size of 200 nt and a step size of 20 nt. The x-axis indicates nucleotide positions along the alignment and the y-axis denotes the similarity. The vertical lines show the recombination points at position 5805 and 6073.
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Figure 2: Nucleotide similarity comparison of the complete sequences of Asia1/WHN/CHA/06 with those of representative FMDVs. It showed a window size of 200 nt and a step size of 20 nt. The x-axis indicates nucleotide positions along the alignment and the y-axis denotes the similarity. The vertical lines show the recombination points at position 5805 and 6073.

Mentions: In the similarity plot, Asia1/WHN/CHA/06 was shown to be closer to JS/CHA/05 than the other 8 strains. However, there were two narrow zones displaying disproportionately low levels of similarity between the two strains compared to the other regions (Figure 2). Moreover, Asia1/WHN/CHA/06 was shown to have a higher similarity to HNK/CHA/05 than JS/CHA/05 within the right narrow zone (corresponding to 3B/3C), which suggested that there was a possible recombination event in this region. And it was shown that the major parent was JS/CHA/05, and the minor parent was HNK/CHA/05. In the analysis by RDP program, the segment corresponding to 3B/3C region was defined as a crossover region (Figure 3, 4), which indicated that JS/CHA/05 and HNK/CHA/05 were possible mosaics with Asia1/WHN/CHA/06. And the estimated recombination breakpoint was at the position 5805-6073.


Isolation, identification and complete genome sequence analysis of a strain of foot-and-mouth disease virus serotype Asia1 from pigs in southwest of China.

Yang X, Zhou YS, Wang HN, Zhang Y, Wei K, Wang T - Virol. J. (2011)

Nucleotide similarity comparison of the complete sequences of Asia1/WHN/CHA/06 with those of representative FMDVs. It showed a window size of 200 nt and a step size of 20 nt. The x-axis indicates nucleotide positions along the alignment and the y-axis denotes the similarity. The vertical lines show the recombination points at position 5805 and 6073.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3094298&req=5

Figure 2: Nucleotide similarity comparison of the complete sequences of Asia1/WHN/CHA/06 with those of representative FMDVs. It showed a window size of 200 nt and a step size of 20 nt. The x-axis indicates nucleotide positions along the alignment and the y-axis denotes the similarity. The vertical lines show the recombination points at position 5805 and 6073.
Mentions: In the similarity plot, Asia1/WHN/CHA/06 was shown to be closer to JS/CHA/05 than the other 8 strains. However, there were two narrow zones displaying disproportionately low levels of similarity between the two strains compared to the other regions (Figure 2). Moreover, Asia1/WHN/CHA/06 was shown to have a higher similarity to HNK/CHA/05 than JS/CHA/05 within the right narrow zone (corresponding to 3B/3C), which suggested that there was a possible recombination event in this region. And it was shown that the major parent was JS/CHA/05, and the minor parent was HNK/CHA/05. In the analysis by RDP program, the segment corresponding to 3B/3C region was defined as a crossover region (Figure 3, 4), which indicated that JS/CHA/05 and HNK/CHA/05 were possible mosaics with Asia1/WHN/CHA/06. And the estimated recombination breakpoint was at the position 5805-6073.

Bottom Line: In 2005-2007, FMD outbreaks caused by Asia1 type occurred in many regions of China, as well as some parts of East Asia countries.The complete genome of Asia1/WHN/CHA/06 was 8161 nucleotides (nt) in length, and was closer to JS/CHA/05 than to all other strains.Potential recombination events associated with Asia1/WHN/CHA/06 were found between JS/CHA/05 and HNK/CHA/05 strains with partial 3B and 3C fragments.

View Article: PubMed Central - HTML - PubMed

Affiliation: School of Life science, Sichuan University, Animal Disease Prevention and Food Safety Key Laboratory of Sichuan Province," 985 Project" Science Innovative Platform for Resource and environment Protection of Southwestern, Key Laboratory of Bio-resources and Eco-environment, Ministry of Education, Chengdu, Sichuan, 610064, China.

ABSTRACT

Background: Foot-and-mouth disease virus (FMDV) serotype Asia1 generally infects cattle and sheep, while its infection of pigs is rarely reported. In 2005-2007, FMD outbreaks caused by Asia1 type occurred in many regions of China, as well as some parts of East Asia countries. During the outbreaks, there was not any report that pigs were found to be clinically infected.

Results: In this study, a strain of FMDV that isolated from pigs was identified as serotype Asia1, and designated as "Asia1/WHN/CHA/06". To investigate the genomic feature of the strain, complete genome of Asia1/WHN/CHA/06 was sequenced and compared with sequences of other FMDVs by phylogenetic and recombination analysis. The complete genome of Asia1/WHN/CHA/06 was 8161 nucleotides (nt) in length, and was closer to JS/CHA/05 than to all other strains. Potential recombination events associated with Asia1/WHN/CHA/06 were found between JS/CHA/05 and HNK/CHA/05 strains with partial 3B and 3C fragments.

Conclusion: This is the first report of the isolation and identification of a strain of FMDV type Asia1 from naturally infected pigs. The Asia1/WHN/CHA/06 strain may evolve from the recombination of JS/CHA/05 and HNK/CHA/05 strains.

Show MeSH
Related in: MedlinePlus