Transcriptome-referenced association study and application thereof

Abstract

The invention relates to a transcriptome-referenced association study. The method includes the steps that 1), a reference group is established, the transcriptome sequence of all individuals of the reference group is measured to obtain a reference transcript; 2), high throughput RNA sequencing is performed on the predicted group, and the obtained sequencing data is compared and spliced with the reference transcript, the group transcriptome sequencing results are obtained; 3), the group SNP data is obtained by analyzing the sequencing results of the group transcriptome, the association analysisis conducted by adopting the group SNP and interested characters, and the area of the target gene is determined; and then the gene expression variation in the target area is used to associate with thecharacters, the candidate gene of the target character is obtained. Compared with GWAS, the sequence of the transcriptome is cheap and rapid, and unconstrained by the complexity of the genome. In theory, the transcriptome-referenced association study can achieve to carry out the character association analysis in all species, whether the specie has the reference genome or not, and the genome is complicated or not.

Description

technical field [0001] The present invention relates to the field of biotechnology, in particular to a transcriptome reference association analysis method and its application. Background technique [0002] With the development of sequencing technology and the popularization of high-density single nucleotide polymorphism (single nucleotide polymorphism, SNP) chips, genome-wide association study (GWAS) has increasingly become the focus of human disease research and animal breeding. A powerful tool. GWAS is based on the principle of linkage disequilibrium, by analyzing the correlation between tens of thousands of SNP markers in the genome and target traits in natural populations to achieve the positioning of target trait genes. [0003] With the in-depth research on GWAS, it has gradually exposed the following defects, specifically: [0004] First, in order to realize the identification of SNP markers in the whole genome, it is necessary to resequence the samples and compare ...

AI Technical Summary

Problems solved by technology

However, only a few species have completed whole-genome sequencing and have the reference genomes required for GWAS.

Thus, a major disadvantage of GWAS methods is that the application of the technique relies on the reference genome of the corresponding species

Although the recent GWAS method based on the simplified genome does not rely on the reference genome of the species, it is difficult to detect the candidate gene of the target trait because the gene information near the genetic marker is unknown, which is of little significance in biological research

[0005] Second, GWAS technology can only determine the target gene in a genomic region, and it is difficult to directly determine the target trait candidate genes

[0007] Fourth, GWAS technology is difficult to determine the relationship between candidate genes of target traits