SNP Molecular Marker Combination for Rice Genotyping and Its Application

A whole-genome and rice technology, applied in the fields of molecular biology, genomics, bioinformatics and molecular plant breeding, can solve the problems of large-scale commercial breeding, cumbersome operation process, and small quantity, and achieve easy automatic detection , high flux, low cost effect

Active Publication Date: 2022-03-08
INST OF CROP SCI CHINESE ACAD OF AGRI SCI +1
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Problems solved by technology

However, traditional molecular marker technology has many limitations, such as low throughput, small quantity, cumbersome operation process, and cannot meet the needs of large-scale commercial breeding

Method used

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  • SNP Molecular Marker Combination for Rice Genotyping and Its Application
  • SNP Molecular Marker Combination for Rice Genotyping and Its Application
  • SNP Molecular Marker Combination for Rice Genotyping and Its Application

Examples

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Embodiment 1

[0030] Example 1 Development of SNP Molecular Marker Combinations for Rice Genotyping

[0031] 1. Resequencing of 3024 rice germplasm resources and acquisition of SNP sites

[0032] 1. Library construction and sequencing of 3024 rice germplasm resources:

[0033] The DNA sequences of 24 random samples were added with 6 bp linker sequences and mixed together to construct a mixed index library. The linker sequences were used to distinguish the DNA sequences of each sample. The constructed library was subjected to PE90 sequencing on the HiSeq2000 machine, and at least 6 lanes were measured for each library to ensure that each sample could get enough data. Then split the data according to the linker sequence, and the read length of each sample after splitting is 83bp (83=90-6-1, 1 is the connecting base "T"). Finally, the reads contaminated by adapters and low-quality reads (base quality value ≤ 5) were removed to obtain high-quality cleanreads.

[0034] 2. Alignment and SNP / In...

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Abstract

The present invention provides a combination of SNP molecular markers for rice genotyping, which consists of 56606 SNP markers. The numbers of the SNP markers are respectively SNP1-SNP56606, and their nucleotide sequences are respectively shown in SEQ ID NO: 1-56606. Show. The combination of SNP molecular markers of the present invention can be used for molecular marker fingerprint analysis of rice variety resources, genotype identification for offspring of hybrid populations, identification of variety authenticity, analysis and screening of genetic background of breeding materials, and correlation of agronomic traits Analysis has broad application prospects.

Description

technical field [0001] The invention relates to the fields of genomics, molecular biology, bioinformatics and molecular plant breeding, in particular to a combination of SNP molecular markers for rice genotyping and applications thereof. Background technique [0002] Molecular marker technologies are important tools in molecular breeding. Traditional molecular marker technologies, such as RFLP (Restriction Fragment Length Polymorphism, restriction fragment length polymorphism) and SSR (Simple Sequence Repeat, simple sequence repeat) technology have played an important role in functional genomics research. However, the traditional molecular marker technology has many limitations, such as low throughput, small quantity, cumbersome operation process, and cannot meet the needs of large-scale commercial breeding. For precise control of target genes, effective selection of genetic backgrounds, and accurate analysis and identification of breeding varieties, it is necessary to deve...

Claims

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): C12Q1/6895C12N15/11
CPCC12Q1/6895C12Q2600/156C12Q2600/13C12N15/11C12Q1/68
Inventor 黎志康王冰冰王文生王佳徐建龙傅彬英高用明张帆许娜熊艳文
Owner INST OF CROP SCI CHINESE ACAD OF AGRI SCI
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