基于mtDNA和Y染色体基因片段的塔河马鹿种公鹿遗传多样性分析

doi:10.11843/j.issn.0366-6964.2023.06.019

Abstract

Abstract: This study aimed to explore the genetic diversity and the ancestral types of Tahe red deer at the molecular level. DNA was extracted from fresh blood which was collected at the sawn antler stage, PCR amplification and direct sequencing were performed to analyze AMELY2, DBY, SRY genes on Y chromosome and ND1, COX1, ATP6, ND5, Cytb genes of mtDNA in 38 stud Tahe red deer species. Base composition, nucleotide diversity (Pi), mean nucleotide difference (K), Tajima’D value, haplotype number (H) and haplotype diversity (Hd) were calculated to evaluate the genetic diversity of stud Tahe red deer. The haplotype network diagram was constructed and the genetic distance between haplotypes was calculated. The phylogenetic tree was constructed and white-lipped deer was used as the outgroup to analyze the parental lines of stud Tahe red deer. The results showed that the length of the Y chromosome spliced by comparing the AMELY2, DBY and SRY genes was 3 577 bp, and a total of 17 SNPs polymorphic sites were detected, and 4 haplotypes were defined. The dominant haplotype was Hap-1, accounting for 65.79% of the frequency. The nucleotide diversity and haplotype diversity were 0.001 95 and 0.495 0, respectively, showing a low level of genetic diversity. The phylogenetic tree constructed based on the Y chromosome genes showed the existence of two branches, A and B. After comparison of ND1, COX1, ATP6, ND5 and Cytb genes of mtDNA, the splicing length was 6 160 bp, and a total of 41 SNPs polymorphic sites were detected, and 8 haplotypes were defined. The dominant haplotype was Hap-1, accounting for 47.37% of the frequency. The nucleotide diversity and haplotype diversity were 0.001 54 and 0.699 9, respectively, showing an imbalance of high haplotype diversity and low nucleotide diversity, and the genetic diversity was at a low level. The phylogenetic tree constructed based on mtDNA showed the existence of two branches, I and II. The genetic diversity of stud Tahe red deer is at a low level, and there are two ancestral types in the population of Tahe red deer.

Key words: mtDNA, Y chromosome, stud Tahe red deer, genetic diversity

CLC Number:

S813.3

YANG Sukun, DONG Yimeng, WANG Hongliang, ZHAO Xitang, CHEN Xu, XING Xiumei. Genetic Diversity Analysis of Stud Tahe Red Deer Based on the Gene Fragments of mtDNA and Y Chromosome[J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(6): 2402-2413.

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Genetic Diversity Analysis of Stud Tahe Red Deer Based on the Gene Fragments of mtDNA and Y Chromosome

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