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Detection and molecular diversity of spike gene of porcine epidemic diarrhea virus in China.

Chen J, Liu X, Shi D, Shi H, Zhang X, Li C, Chi Y, Feng L - Viruses (2013)

Bottom Line: The full-length S genes of representative field strains were sequenced. 33 field strains share 93.5%-99.9% homologies with each other at the nucleotide sequence level and 92.3%-99.8% homologies with each other at the amino acids sequence level.The phylogenetic analysis showed there are classical strains and variants prevailing in pig herd in China.PEDV has a high detection rate in pig herds in China.

View Article: PubMed Central - PubMed

Affiliation: Division of Swine Infectious Diseases, State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150001, China. fl@hvri.ac.cn.

ABSTRACT
Since late 2010, porcine epidemic diarrhea virus (PEDV) has rapidly disseminated all over the China and caused considerable morbidity and high mortality (up to 100%) in neonatal piglets. 79.66% (141 of 177) pig farms in 29 provinces (excluding Tibet and Hainan, China) and 72.27% (417 of 577) samples were positive for PEDV confirmed by reverse transcription-polymerase chain reaction (RT-PCR). The full-length S genes of representative field strains were sequenced. 33 field strains share 93.5%-99.9% homologies with each other at the nucleotide sequence level and 92.3%-99.8% homologies with each other at the amino acids sequence level. Most field strains have nucleotide deletion and insertion regions, and show lower homologies (93.5%-94.2%) with Chinese classical strain CH/S, however higher homologies (97.1%-99.3%) with recent strain CHGD-1. The phylogenetic analysis showed there are classical strains and variants prevailing in pig herd in China. PEDV has a high detection rate in pig herds in China. Sequence analysis indicated the S genes of recent field strains have heterogeneity and the variants are predominant.

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Related in: MedlinePlus

Comparison of the antigen epitopes of S proteins of field strains and reference strains. Dots indicate the amino acids are identical to those of reference strain CV777-attenuated. SS2 is in the yellow region, SS6 is in the green region and the motif against 2C10 is in the pink region.
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viruses-05-02601-f001: Comparison of the antigen epitopes of S proteins of field strains and reference strains. Dots indicate the amino acids are identical to those of reference strain CV777-attenuated. SS2 is in the yellow region, SS6 is in the green region and the motif against 2C10 is in the pink region.

Mentions: The S proteins of recently Chinese field strains have 1,381–1,389 amino acids (aa) in length (Table 1). These consequences were due to the presences of the number of deleted or inserted amino acids that were accumulated in the N-terminus of the S protein. The antigen epitope motif (1368GPRLQPY1374) against 2C10, a monoclonal antibody that showed neutralizing activities against PEDV [13], the CO-26K equivalent (COE) domain (aa499–638) [14] and the epitopes SS2 (748YSNIGVCK755), SS6 (764LQDGQVKI771) [15] of S protein can induce neutralizing antibodies against PEDV. According to the result of multiple alignments of amino acid sequences, the antigen epitope motif (1368GPRLQPY1374) is conserved in all the Chinese field strains. The epitope SS2 is conserved in all the Chinese field strains (excluding CH/HLJHG/2011). The epitope SS6 shows 2- or 3-amino acid mutations in most field strains (Figure 1). Compared to CV777-attenuated, 7 field strains have no amino acids change in the COE domain, 27 field strains have 1-8 different amino acids in the COE domain (Table 2).


Detection and molecular diversity of spike gene of porcine epidemic diarrhea virus in China.

Chen J, Liu X, Shi D, Shi H, Zhang X, Li C, Chi Y, Feng L - Viruses (2013)

Comparison of the antigen epitopes of S proteins of field strains and reference strains. Dots indicate the amino acids are identical to those of reference strain CV777-attenuated. SS2 is in the yellow region, SS6 is in the green region and the motif against 2C10 is in the pink region.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3814607&req=5

viruses-05-02601-f001: Comparison of the antigen epitopes of S proteins of field strains and reference strains. Dots indicate the amino acids are identical to those of reference strain CV777-attenuated. SS2 is in the yellow region, SS6 is in the green region and the motif against 2C10 is in the pink region.
Mentions: The S proteins of recently Chinese field strains have 1,381–1,389 amino acids (aa) in length (Table 1). These consequences were due to the presences of the number of deleted or inserted amino acids that were accumulated in the N-terminus of the S protein. The antigen epitope motif (1368GPRLQPY1374) against 2C10, a monoclonal antibody that showed neutralizing activities against PEDV [13], the CO-26K equivalent (COE) domain (aa499–638) [14] and the epitopes SS2 (748YSNIGVCK755), SS6 (764LQDGQVKI771) [15] of S protein can induce neutralizing antibodies against PEDV. According to the result of multiple alignments of amino acid sequences, the antigen epitope motif (1368GPRLQPY1374) is conserved in all the Chinese field strains. The epitope SS2 is conserved in all the Chinese field strains (excluding CH/HLJHG/2011). The epitope SS6 shows 2- or 3-amino acid mutations in most field strains (Figure 1). Compared to CV777-attenuated, 7 field strains have no amino acids change in the COE domain, 27 field strains have 1-8 different amino acids in the COE domain (Table 2).

Bottom Line: The full-length S genes of representative field strains were sequenced. 33 field strains share 93.5%-99.9% homologies with each other at the nucleotide sequence level and 92.3%-99.8% homologies with each other at the amino acids sequence level.The phylogenetic analysis showed there are classical strains and variants prevailing in pig herd in China.PEDV has a high detection rate in pig herds in China.

View Article: PubMed Central - PubMed

Affiliation: Division of Swine Infectious Diseases, State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150001, China. fl@hvri.ac.cn.

ABSTRACT
Since late 2010, porcine epidemic diarrhea virus (PEDV) has rapidly disseminated all over the China and caused considerable morbidity and high mortality (up to 100%) in neonatal piglets. 79.66% (141 of 177) pig farms in 29 provinces (excluding Tibet and Hainan, China) and 72.27% (417 of 577) samples were positive for PEDV confirmed by reverse transcription-polymerase chain reaction (RT-PCR). The full-length S genes of representative field strains were sequenced. 33 field strains share 93.5%-99.9% homologies with each other at the nucleotide sequence level and 92.3%-99.8% homologies with each other at the amino acids sequence level. Most field strains have nucleotide deletion and insertion regions, and show lower homologies (93.5%-94.2%) with Chinese classical strain CH/S, however higher homologies (97.1%-99.3%) with recent strain CHGD-1. The phylogenetic analysis showed there are classical strains and variants prevailing in pig herd in China. PEDV has a high detection rate in pig herds in China. Sequence analysis indicated the S genes of recent field strains have heterogeneity and the variants are predominant.

Show MeSH
Related in: MedlinePlus