猪圆环病毒2型全基因组序列分析及Cap蛋白CTL表位预测

doi:10.16431/j.cnki.1671-7236.2023.02.023

Abstract

Abstract: 【Objective】 This study was aimed to monitor the current Porcine circovirus type 2 (PCV2) strains circulating in Hunan province and its capsid protein (Cap) variation,predict the cytotoxic T lymphocyte (CTL) epitopes,and provide some insights for the development of PCV2 novel vaccines and virus clearance.【Method】 In this study,PCV2 complete genome amplification,sequencing and phylogenetic analysis were performed on 17 PCV2 positive tissue samples collected from 6 regions in Hunan province from 2019 to 2021,and bioinformatic methods were used to analyze the amino acid variation of Cap and its CTL epitopes were predicted.【Result】 The phylogenetic tree showed that 1 strain of PCV2a,7 strains of PCV2b and 9 strains of PCV2d were obtained from the 17 PCV2 genome sequences.Multiple sequence alignments of Cap protein revealed that there were 16 mutated amino acid residues located on the capsid surface,and 11 residues were involved in the formation of conformational epitopes.Furthermore,among the predicted 9 potential CTL epitopes,epitopes 16－24,28－36,136－144 and 179－187 amino acids were highly conserved in 1 610 PCV2 genotypes from GenBank.The four conserved epitopes were further analyzed by the 3D structure of the TCR-pMHC complex,the results showed that all the four peptides could form stable TCR-pMHC complexes with MHC Ⅰ molecule and TCR.【Conclusion】 This study showed that PCV2b and PCV2d became the predominant genotypes in Hunan province with highly variability.These predicted CTL epitopes could be used as candidate epitopes.

Key words: Porcine circovirus type 2 (PCV2); Cap protein; CTL epitope

CLC Number:

S852.65^＋1

ZHOU Wenfeng, ZHANG Yingjie, BAI Yihan, ZHANG Luhua, MAI Jinhui, WANG Naidong, YANG Yi, ZHAN Yang, WANG Dongliang. Complete Genome Sequence Analysis and Cap CTL Epitopes Prediction of Porcine Circovirus Type 2[J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(2): 656-665.

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Complete Genome Sequence Analysis and Cap CTL Epitopes Prediction of Porcine Circovirus Type 2

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