基于简化基因组测序技术和基因芯片技术比较研究黄羽肉鸡基因组选择

doi:10.11843/j.issn.0366-6964.2020.10.006

Abstract

Abstract: This study aimed to compare the accuracy of the genomic estimated breeding value (GEBV) using reduced-representation genome sequencing technology and SNP chip technology to implement genomic selection. A total of 395 individuals (212♂+ 183♀, from 8 half-sib families) were randomly selected from F₂ generation of AH broiler resource population, and genotyped with 10×specific-locus amplified fragment sequencing (SLAF-seq) and Illumina Chicken 60K SNP BeadChip. Genomic best linear unbiased prediction (GBLUP) and BayesCπ were used to compare the accuracy of genomic estimated breeding values (GEBV) for 6 traits: body weight at the 6^th week, body weight at the 12^th week, average daily gain (ADG), average daily feed intake (ADFI), feed conversion ratio (FCR) and residual feed intake (RFI). A 5-fold cross validation procedure was used to verify the accuracies of GEBV between prediction models and between genotyping platforms. The results showed that there was no significant difference between accuracies of GEBV predicted by GBLUP and BayesCπ using the same genotyping platform(P>0.05). The superiority of the two genotyping platforms was different for different traits. For body weight at the 6^th week, the accuracy of GEBV was higher using chip SNPs (P<0.05). On the contrary, the accuracy was higher using SLAF-seq for residual feed intake (P<0.05). Comprehensive comparison of the means of GEBV for 6 traits, the difference between the two genotyping platforms was less than 0.01, therefore, both high throughput sequencing and chip SNPs can be used for genomic selection in yellow-feathered broiler.

Key words: yellow-feathered broiler, genomic estimated breeding value, reduced-representation genomic sequencing, SNP chip, cross validation

CLC Number:

S831.2

LIU Tianfei, LUO Chenglong, WANG Yan, ZHOU Guangyuan, MA Jie, SHU Dingming, SU Guosheng, QU Hao. Comparison between Reduced-Representation Genome Sequencing and SNP Chip for Genomic Selection in Yellow-feathered Broiler[J]. Acta Veterinaria et Zootechnica Sinica, 2020, 51(10): 2378-2386.

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Comparison between Reduced-Representation Genome Sequencing and SNP Chip for Genomic Selection in Yellow-feathered Broiler

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