Whole-genome selective breeding method and apparatus

A whole-genome, selective breeding technology, applied in the direction of instruments, biological systems, evolutionary organisms, etc., can solve the problems of low accuracy of analysis results, and achieve the effect of promoting progress, improving effect, and improving accuracy

Pending Publication Date: 2020-08-11
天津诺禾致源生物信息科技有限公司
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Problems solved by technology

[0006] The main purpose of the present invention is to provide a method and device for whole genome selective breeding, to solve the problem of low accuracy of analysis results in the prior art

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  • Whole-genome selective breeding method and apparatus
  • Whole-genome selective breeding method and apparatus

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Embodiment 1

[0034] This embodiment provides a method for genome-wide selective breeding, such as figure 1 As shown, the method includes:

[0035] Step S101, obtaining markers significantly associated with the target phenotype in the training population;

[0036] Step S102, according to the training population and markers, using multiple genome-wide selection prediction models to calculate the genome estimated breeding value of each individual in the breeding population;

[0037] Step S103 , according to the descending order of the estimated breeding value of the genome, select a predetermined number of individuals that rank first in multiple genome-wide selection prediction models as breeding materials.

[0038] The above-mentioned whole-genome selective breeding method calculates the genome-estimated breeding value of the breeding population by integrating multiple prediction models, and then uses the calculation results of multiple models to co-locate individual materials with high bre...

Embodiment 2

[0053] The present embodiment provides a genome-wide selective breeding method developed for the results of genome-wide association analysis (GWAS), and its detailed steps are as follows:

[0054] The data that needs to be prepared are the phenotype of the training population (TP), the genotype (ie, marker genotype) data of the TP, the GWAS result data of the TP, the genome selection (GS) prediction model, and the genes of the breeding population (BP) type data. Among them, the result file of the genome-wide association analysis (GWAS) only needs 3 lines, which are the chromosome number, the physical location of the single nucleotide polymorphism (SNP), and the P-value of the single nucleotide polymorphism (SNP). (i.e. p-values ​​with a significant correlation with the target phenotype).

[0055] figure 2 The detailed flow of the genome selective breeding method of this embodiment is shown, in which two populations are required, a training population and a breeding population...

Embodiment 3

[0059] This embodiment discloses a method for genome selective breeding of a certain trait of sheep. Such as Figure 3A to Figure 3H6 As shown, the method includes the following steps:

[0060] S1, analysis of phenotypic characteristics: Detect whether the phenotype of the quantitative trait conforms to the normal distribution or skewed distribution. If there is an extreme phenotype that deviates from the leverage value, it needs to be eliminated in time. The results are as follows Figure 3A shown;

[0061] S2, population stratification analysis: through principal component analysis (PCA) or population structure analysis (Structure), it is determined how many population structures the population has, and the calculated results are added to the genome-wide association analysis (GWAS) model as a fixed effect. The results are as follows Figure 3B shown;

[0062] S3, linkage disequilibrium (LD) analysis: determine the attenuation distance of several groups and large groups, a...

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Abstract

The invention provides a whole-genome selective breeding method and apparatus. The method comprises the following steps of: acquiring markers significantly associated with a target phenotype in a training group; calculating a genome estimated breeding value of each individual in a breeding population by utilizing a plurality of whole-genome selection prediction models according to a training population and the markers; and according to the sequence that the genome estimated breeding values gradually decreases, selecting a predetermined number of individuals which are ranked ahead in the plurality of whole-genome selection prediction models as breeding materials. According to the invention, genome estimated breeding value calculation is carried out based on the plurality of models, multiplemodel results are used for co-localization, and the individuals with high breeding values in all the models are selected as the breeding materials, so the accuracy of results is greatly improved. Themethod can adapt to most of material backgrounds, fills the blank of genome selection analysis in a super computer, improves the effect of breeding selection, and promotes the progress of breeding.

Description

technical field [0001] The invention relates to the field of molecular breeding, in particular to a method and device for whole-genome selective breeding. Background technique [0002] In the history of selective breeding, it has experienced the exploration from empirical breeding to breeding theory and methods, including selection theory, pure line theory, backcross breeding, recurrent breeding, mutation breeding, single seed transmission, ideal plant type; and then to marker assistance In selective breeding, a variety of markers are explored, such as amplified fragment length polymorphism marker-assisted selection (AFLP), microsatellite marker-assisted selection (SSR) and single nucleotide polymorphism marker-assisted selection (SNP). With the development of sequencing technology, the throughput of sequencing is getting higher and the cost is getting lower and lower, coupled with the continuous improvement of computer computing power, this has created technical conditions ...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B5/00G16B10/00G16B30/10G16B40/00
CPCG16B5/00G16B10/00G16B30/10G16B40/00
Inventor 喻宇烨梁齐齐
Owner 天津诺禾致源生物信息科技有限公司
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