利用全基因组重测序数据检测8个鸭品种基因组拷贝数变异

doi:10.11843/j.issn.0366-6964.2023.09.011

Abstract

Abstract: The main purpose of this study was to identify the potentially copy number variations (CNVs) related to economically important traits of ducks, and provide a basis for the analysis of the effects of CNVs on economic traits of ducks. In this study, the whole genome resequencing data of 8 duck breeds was used, including 78 individuals downloaded from the National Center for Biotechnology Information (NCBI) public database to detect CNVs in the duck genome via CNVnator and CNVcaller software. Only the same type of CNVRs with at least 1 bp overlap in the two softwares was retained to eliminate the influence of false positive results. A total of 7 550 CNVRs including 7 098 duplications and 452 deletions were identified by merging CNVs in 8 duck breeds. These CNVRs were unevenly distributed on 29 autosomes, which occupied about 1.51% of the duck whole genome sequence, their total length was 16 111.2 kb and the average length was 2 134 bp. Furthermore, 4 304 potential breed-specific CNVRs were screened from 8 duck breeds, covering 1 230 annotated genes. Moreover, 38 CNVRs possibly related to the growth and reproduction of ducks were identified by Gene Ontology (GO) enrichment analysis. In this study, a total of 7 550 CNVRs were detected, in which 4 304 potential breed-specific CNVRs were screened and 38 CNVRs potentially related to the growth and reproduction were identified. The results provides a necessary basis for further research on the effects of CNVs on economically important traits of ducks.

Key words: duck, whole genome resequencing data, genome, copy number variations, CNVs

CLC Number:

S834.2

LIN Yan, HUANG Min, LI Xiujin, ZHANG Xumeng, HUANG Yunmao, TIAN Yunbo, WU Zhongping. Uncovering Genome-wide Copy Number Variations in 8 Duck Breeds Using Whole Genome Resequencing Data[J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3700-3709.

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Uncovering Genome-wide Copy Number Variations in 8 Duck Breeds Using Whole Genome Resequencing Data

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