Tomato whole genome chip and application thereof

Abstract

The invention discloses a tomato whole genome chip and application thereof, gene typing objects capable of being used for chip design are found and screened out, the gene typing objects comprise 1377 SNP loci and 80 Indel loci located on a tomato reference genome SL2.50, and tomato gene typing can be achieved through a targeted capture sequencing technology by means of a liquid phase chip; experimental results show that the chip designed by the invention can be used for tomato genetic diversity analysis, variety identification, genetic relationship identification, whole genome association analysis and genome selective breeding.

Description

technical field [0001] The invention belongs to the technical field of whole genome gene chips, in particular to a tomato whole genome chip and its application. Background technique [0002] Molecular Marker Technology is an important tool in molecular breeding. Traditional molecular markers, such as Restriction Fragment Length Polymorphism (RFLP) and Simple Sequence Repeat (SSR), play an important role in the field of genetics and breeding. However, there are also certain limitations, such as the small number of genomes distributed, the cumbersome operation process and low throughput, which make it impossible to meet the needs of large-scale commercial breeding applications. Single Nucleotide Polymorphism (Single Nucleotide Polymorphism, SNP) refers to the variation of a single nucleotide in the genome, including single base pair conversion, transversion, insertion or deletion. As a more widely distributed genetic marker in the genome, SNP has the characteristics of high ...

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Problems solved by technology

[0005] However, the existing solid-phase gene chips, such as the bovine 90K solid-phase chip, have the following problems in the detection process and application: first, there are many typing sites; The SNP sites around these sites cannot be typed, but the SNP sites around these sites cannot be typed. Once the solid-phase chip is designed, the sites that can be detected are fixed, cannot be added or deleted, and have poor flexibility; finally , the cost of solid-phase chip typing is high

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