Genome-information-assisted breeding method II, breeding parent selection method based on whole-genome SNP (single nucleotide polymorphism) beneficial haplotype mining

Abstract

The invention relates to a genome-information-assisted breeding method to select breeding parents via HT (haplotype) variation information and SNP clustering grouping information. The method is substantially to acquire massive genome sequencing information of candidate breeding parents via methods of genomics and biological informatics; on one hand, a high-quality SNP dataset is acquired through sequence comparing and analyzing, a genetic distance matrix of the candidate breeding parents is calculated on such basis, an SNP cluster tree is constructed, and the candidate parents are grouped according to genetic relational degrees; on the other hand, important related gene sites are selected according to target traits set by a breeding plan, HT variation information of the candidate parents is acquired, and differences of the parents having different types of HT variations in terms of target trait are compared. Through integration of the HT variation information and based on SNP cluster parent grouping information, candidate parents to identify repeated phenotypes of the target traits is acquired by screening the massive candidate breeding parents. The method belongs to the field of rice molecular breeding; the parent material range can be effectively narrowed from the massive candidate breeding parents via database information mining, phenotype repeats identification work is reduced, and breeding efficiency is improved.

Description

technical field [0001] The invention relates to a molecular breeding method for mining favorable alleles and selecting breeding parents by using haplotype information based on the whole genome SNP. The method belongs to the field of crop molecular breeding, and is suitable for efficiently selecting breeding parents in rice and other crops. Background technique [0002] The combination of genome technology and information technology enables researchers to easily obtain the massive amount of genetic data they need and deeply mine related genetic information; the database platform enables breeders to store and deeply mine massive data and realize information sharing . Parental selection is a crucial step in crop breeding, which directly determines the success or failure of all work in a breeding cycle (at least 3-5 years). With the advent of the genome era, molecular breeding has evolved towards the direction of genome-wide information; the selection of breeding parents is no...

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Problems solved by technology

In the process of crop breeding, it is a heavy and long-term task to select the desir

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