Complete set of primer pairs for constructing semi-glutinous japonica rice variety DNA (Deoxyribonucleic Acid) fingerprint library, and screening method and application of complete set of primer pairs

Abstract

The invention provides a complete set of primer pairs for constructing a semi-glutinous japonica rice variety DNA (Deoxyribonucleic Acid) fingerprint library, which comprises 18 pairs of SNP (Single Nucleotide Polymorphism) four primer pairs and 36 pairs of InDel primer pairs; the 18 pairs of SNP four primer pairs respectively and specifically detect 18 rice SNP sites SNPjs0001 to SNPjs0018; and the 36 pairs of InDel primer pairs respectively and specifically detect 36 rice InDel sites InDeljs0001 to InDeljs0036. Related screening methods and application are also provided. The complete set of primer pairs for constructing the semi-glutinous japonica rice variety DNA fingerprint library disclosed by the invention can be used for constructing the semi-glutinous japonica rice variety DNA fingerprint library, can be used for identifying authenticity and purity of the semi-glutinous japonica rice varieties, and is ingenious in design, simple, convenient and rapid to use, low in cost, free of environmental influence and suitable for large-scale popularization and application.

Description

technical field [0001] The present invention relates to the technical field of bioinformatics and molecular genetics, more specifically, to the technical field of primer pairs for constructing rice DNA fingerprint database, in particular to a set of primers for constructing semi-waxy japonica variety DNA fingerprint database Pairs and their screening methods and applications. Background technique [0002] In recent years, breeders have bred a series of excellent-tasting japonica rice varieties by reducing the amylose content of rice based on the eating habits of people in the Jianghuai region who prefer soft glutinous rice (Wang Cailin, Zhang Yadong, Zhao Chunfang, etc., Jiangsu Province Excellent Taste Japonica Rice Genetics and Breeding Research, Genetics, 2021, 43(5): 442-458), such as Nanjing series japonica rice varieties in Jiangsu Province, Ningjing 8, Suxiangjing 100, Fengjing 1606, Wuxiangjing 113, etc. Shanghai's Huruan 1212, Rosin Japonica 1018, etc., Zhejiang's ...

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Problems solved by technology

These studies basically use SSR molecular markers. my country's current industry standard for rice variety authenticity molecular detection "NYT1433-2014-Technical Regulations for Rice Variety Identification SSR Marker Method" is also based on DNA molecular identification of 48 pairs of SSR markers, but this Indica rice varieties with rich genetic variation were selected as reference varieties for the standard, and the effect of many markers in distinguishing cultivated japonica rice varieties was not satisfactory, and only a few showed polymorphism. The main reason may be that the main japonica rice varieties in production often come from the same backbone. Parental varieties or derived varieties with only a few or even a single trait improved on the basis of the same variety, resulting in smaller and smaller genetic differences among varieties. Studies have shown that the main japonica varieties in the same rice area, especially semi-waxy japonica varieties, often contain the same main traits. (Zhao Chunfang, Yue Hongliang, Tian Zheng, etc., Physicochemical characteristics of Jiangsu and northeast japonica rice and sequence analysis of Wx and OsSSIIa genes, Acta Crops, 2020, 46(06), 75-85)

Therefore, conventional SSR molecular markers can no longer be used to identify the authenticity and purity of these varieties

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