无PERV传染性“中畜”五指山小型猪近交系全基因组重测序分析

doi:10.16431/j.cnki.1671-7236.2025.06.001

Abstract

Abstract: 【Objective】 One female pig (ZXWIPIG505) was selected for whole genome resequencing analysis from a new strain of Porcine endogenous retrovirus (PERV) non-transmitting Zhong Xu Wuzhishan Mini-pig Inbred line (ZXWIPIG),in order to further interpret sequence characteristics of the new PERV non-transmitting pig strain at molecular level.【Method】 Genomic DNA of ZXWIPIG505 peripheral blood mononuclear cells was extracted and whole genome resequencing was performed with Illumina hiseq-4000 sequencing platform.Blast and SAMtools-0.1.19 software were utilized to extract the PERV long fragment and PERV-pol gene sequence fragment integrated in ZXWIPIG505 genome,and DNAStar software was used to analyze the integrated PERV structural gene sequence.And then,the integrated PERV-pol gene sequence in ZXWIPIG505 were compared with the PERV-pol gene sequence in the previously identified PERV-pol deficient ZXWIPIG452.【Result】 The average sequencing depth of ZXWIPIG505 whole genome resequencing was 14.32×,and the effective rate of sequencing data was 97.21%.Q20,Q30 and GC content were respectively 94.37%,87.03%,and 43.38%.The above results indicated that the quality of this sequencing data was high.Five long PERV fragments were integrated in ZXWIPIG505 genome,of which only scaffold5028 contained all PERV structural genes but was defective.Eighty-five integrated PERV-pol gene fragments were detected in the ZXWIPIG505 genome,which were all found incomplete and defective by comparison.The PERV-pol gene sequences integrated into the genomes of ZXWIPIG505 and ZXWIPIG452 exhibited high similarity.There were 60 fragments of the same length,75 fragments with identical integration sites in the pig genome,and 42 fragments with the same PERV-pol gene premature termination sites.【Conclusion】 ZXWIPIG505 selected in the early stage was demonstrated to be a PERV-pol gene-deficient pig,and the integrated PERV-pol gene sequences in ZXWIPIG505 and ZXWIPIG452 had high similarity.

Key words: Porcine endogenous retrovirus; Zhong Xu Wuzhishan Mini-pig inbred line; gene deficient variant; whole genome resequencing

CLC Number:

S858.292

ZHANG Bingyan, FAN Rui, FENG Shutang, JIA Junting, ZHANG Jianbin, MA Yuyuan. Whole Genome Resequencing Analysis of PERV Non-transmitting Zhong Xu Wuzhishan Mini-pig Inbred Line[J]. China Animal Husbandry & Veterinary Medicine, 2025, 52(6): 2459-2467.

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Whole Genome Resequencing Analysis of PERV Non-transmitting Zhong Xu Wuzhishan Mini-pig Inbred Line

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