China Animal Husbandry & Veterinary Medicine ›› 2025, Vol. 52 ›› Issue (11): 5414-5421.doi: 10.16431/j.cnki.1671-7236.2025.11.036

• Preventive Veterinary Medicine • Previous Articles    

Whole Genome Sequenccing and Genetic Evolution Analysis of Pigeon Circovirus

WANG Zhonghao1,2, TIAN Ye2, YUAN Xiaoyuan2, LI Guiming2, CHEN Shumin3, LIU Mingchao1, WANG Chuanwen1, MENG Kai2   

  1. 1. College of Veterinary Medicine, Hebei Agricultural University, Baoding 071000, China;
    2. Poultry Institute, Shandong Academy of Agricultural Sciences, Shandong Key Laboratory of Poultry Breeding, Jinan Key Laboratory of Agricultural Laboratory Animals and Comparative Medicine, Jinan 250100, Shandong, China;
    3. Shandong Animal Disease Prevention and Control Center, Jinan 250100, China
  • Received:2025-03-10 Published:2025-10-30

PDF (PC)

[an error occurred while processing this directive]

Abstract: 【Objective】 The aim of this experiment was to understand the genomic characteristics and genetic variation patterns of Pigeon circovirus (PiCV),which was prevalent in some areas of East China. 【Method】 Sterile samples of lung,spleen,and liver tissues were collected from 58 deceased pigeons and subjected to pathogen detection via PCR amplification.PiCV-positive samples were further subjected to full-length viral genome amplification by PCR and TA cloning.The positive plasmid sequencing results were used for full-genome sequence assembly,nucleotide and amino acid sequence alignment through DNAStar and Mega 11.0 software,and the phylogenetic tree was constructed.Recombination analysis and identification of the isolates were performed using RDP 5.42 and Simplot 3.5.2 software. 【Result】 PCR test results showed that among the 58 dead pigeons,30 were positive for PiCV,and no other viruses were detected.The sequencing results showed that the whole genome sequences of five PiCV isolates were successfully obtained,named SD02,SD040,JS091,AH056, and AH529 respectively,and the sequence lengths were 2 037,2 034,2 039,2 039, and 2 041 bp, respectively.The similarity comparison results showed that the nucleotide sequence similarity of the five PiCV isolates to the reference sequences registered both domestically and internationally ranged from 83.2% to 100%,and they were more closely related to the domestic isolates.Genetic evolution analysis showed that the five PiCV isolates belonged to different subtypes,with isolates SD040,SD02,JZ091,AH056,and AH529 belonged to subtypes B,A,C,G, and H,respectively.Amino acid sequence analysis indicated that compared with the standard strain jz1,the Cap protein amino acids of the five PiCV isolates had different degrees of mutations,substitutions and deletions,and the Rep protein had three amino acid deletions and one amino acid mutation.Recombination analysis identified two recombination events among the five PiCV isolates,with isolate AH056 being a recombinant of GX6 and JS2 strains,with a recombination breakpoint located at 161 bp. 【Conclusion】 In this study,the complete genomic sequences of five different subtypes of PiCV were isolated and obtained.Viral recombination and mutations in key proteins were significant contributors to their diversity and complexity.This study enriched the understanding of the genomic characteristics and genetic evolution patterns of PiCV and provided important reference data for the epidemiological investigation of PiCV in East China.

Key words: Pigeon circovirus; whole genome sequencing; genetic evolution analysis

CLC Number: