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Method for improving aquatic animal whole-genome selective breeding efficiency

A whole-genome and aquatic animal technology, applied in genomics, proteomics, bioinformatics, etc., can solve the problems of low value, limited wide application, and limited application, so as to reduce typing costs, high prediction accuracy, The effect of improving accuracy

Active Publication Date: 2020-03-06
INST OF OCEANOLOGY - CHINESE ACAD OF SCI
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AI Technical Summary

Problems solved by technology

[0004] However, for aquatic animals, the value of a single individual is often low, and the application of genome-wide selection methods is still greatly limited, mainly because the relatively high cost of SNP typing limits the application of this method. In addition, the improvement of breeding efficiency is not enough. This obviously limits the wide application of this method

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  • Method for improving aquatic animal whole-genome selective breeding efficiency
  • Method for improving aquatic animal whole-genome selective breeding efficiency

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Embodiment 1

[0017] Example 1: A method for improving the efficiency of genome-wide selective breeding of aquatic animals

[0018] (1) Data source

[0019] 1. The data analyzed for prawns include SNP typing data and phenotype data of 200 individuals, and the SNP typing data are obtained by the 2b-RAD typing method (Wang Q., Yu Y., Zhang Q., Zhang X., Huang H.,Xiang J.&Li F.(2019)Evaluation on the genomic selection in Litopenaeus vannamei for theresistance against Vibrio parahaemolyticus.Aquaculture 505,212-6), 2b-RAD sequencing data and the published reference genome of Litopenaeus vannamei (Xiaojun Zhang, Jianbo Yuan, Yamin Sun, Shihao Li, Yi Gao, Yang Yu, Chengzhang Liu, Quanchao Wang, Xinjia Lv, Xiaoxi Zhang, Ka Yan Ma, Xiaobo Wang, Wenchao Lin, Long Wang, Xueli Zhu, Chengsong Zhang, Jiquan Zhang, Songjun Jin, Kuijie Yu, Jie Kong, Peng Xu, Jack Chen, Hongbin Zhang, Patrick Sorgeloos, Amir Sagi, Acacia Alcivar-Warren, Zhanjiang Liu, Lei Wang, Jue Ruan, KaHou Chu*, Bin Liu*, Fuhua Li* ,...

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Abstract

The invention discloses a whole-genome selective breeding method suitable for aquatic animals. Specifically, high-density SNP typing is carried out on individuals of a breeding basic group or a core group; the phenotypic value of the target character is determined; whole-genome association analysis (GWAS) is carried out by utilizing the SNP typing data and the phenotypic data to obtain a significance P value of each SNP marker; the marks are sorted from low to high according to P values; according to different traits, different marker number combinations sorted in the top are selected according to the P values, analysis is performed by adopting methods such as GBLUP, Bayes B and the like, the prediction accuracy of the different marker numbers selected according to the P values is evaluated through cross validation, and finally, the marker combination with the highest prediction accuracy is determined. SNP typing is conducted on the candidate population or the next-generation breedingpopulation through the screened optimal marker combination, breeding value prediction is conducted on the candidate population or the next-generation breeding population through adoption of GBLUP or BayesB or ssGBLUP or other methods, and therefore, the prediction accuracy can be remarkably improved.

Description

technical field [0001] The invention belongs to the field of molecular breeding, and in particular relates to a whole-genome selective breeding method suitable for aquatic animals. Background technique [0002] Genome-wide selective breeding was first proposed by Meuwissen in 2001, which uses SNP markers covering the whole genome to type reference populations and candidate populations, and obtains the effect of each SNP marker based on the phenotype and genotype information of the reference population. SNP effects are predicted and evaluated for candidate populations. With the development of high-throughput SNP typing technology, this method has been applied to more important economic animals including dairy cows, pigs, and chickens. [0003] In order to improve the efficiency of genome-wide selection, researchers have carried out a series of work. On the one hand, they are developing high-density SNP typing methods. Currently, the commonly used SNP chip generally has about...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B20/20
CPCG16B20/20Y02A40/81
Inventor 李富花于洋罗正相建海
Owner INST OF OCEANOLOGY - CHINESE ACAD OF SCI
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