QTL-seq method of utilizing/Delta(SNP-index)/for character positioning and application thereof

Abstract

The invention discloses a QTL-seq method of utilizing / Delta (SNP-index) / for character positioning and application thereof. The method includes that a reference genome is used to replace a genome which is one of parents to serve as a reference to calculate SNP-index of an offspring pool, and an absolute value / Delta (SNP index) / of Delta (SNP index) is used to replace Delta (SNP index) to be used for a sliding window method property positioning analysis; QTL-seq analysis is performed on extreme phenotype pools of segregation populations identical in phenotype of the parents, and distribution of / Delta (SNP-index) / is utilized to perform positioning prediction on a target character gene or a main-effect QTL (quantitative trait loci), so that the circumstance that conventional QTL-seq methods can only be applied in segregation populations with parent homozygosis and contrasting characters is changed, the QTL-seq method is enabled to be applied in segregation populations with parents identical in character, application range of the QTL-seq method is expanded greatly, and the QTL-seq method has good application prospect. The method can be used for analyzing a red-skin phenotype pool and a green-skin phenotype pool of a MantianhongXZaomeisu hybrid combination with red-skin oriental pears to be parents, and oriental pear red-skin / green-skin character sites are positioned within an interval of 1.86 Mb.

Description

technical field [0001] The invention belongs to the fields of bioinformatics and genomics, and relates to a QTL-seq method for trait mapping by using |Δ(SNP-index)| and its application. Background technique [0002] QTL-seq is a method developed in recent years that uses high-throughput sequencing technology for cluster segregation analysis (BSA) to locate the main genes of quantitative traits or genes of qualitative traits (Takagi et al., 2013). It is suitable for parents with a pair of Progeny populations for relative traits. In this method, 20-50 individual plants exhibiting extreme phenotypes in common mapping populations are selected to form an extreme phenotype pool for whole gene sequencing. The two extreme phenotype pools are analyzed with the genome of one of the parents as a reference, and two extreme phenotype pools are found. SNPs in the pool, calculate the SNP-index of each SNP, and perform QTL or gene prediction according to the distribution of SNP-index. [...

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Problems solved by technology

[0005] In order to solve the problem that the QTL-seq method cannot be applied to fruit tree segregation populations whose parents have the same target trait phenotype, the present invention provides a QTL-seq method using |Δ(SNP-index)| for trait mapping and its application

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