A genome-wide resource of intron spanning primers compatible for quantitative PCR and intron length polymorphism in rice

被引：1

作者：

Ram, Hasthi ^{[1
]}

Singh, Bikram Pratap ^{[2
]}

Katara, Jawaharlal ^{[3
]}

Chopra, Radha ^{[1
]}

Kumar, Pankaj ^{[1
]}

Geetika, Rajdeep Jaiswal ^{[1
]}

Deshmukh, Rupesh ^{[1
]}

Sonah, Humira ^{[1
]}

机构：

[1] NABI, Mohali, India

[2] Natl Res Ctr Plant Biotechnol, New Delhi, India

[3] Natl Rice Res Inst, Cuttack, Odisha, India

来源：

INDIAN JOURNAL OF GENETICS AND PLANT BREEDING | 2019年 / 79卷 / 02期

关键词：

Gene-specific marker; gene expression analysis; informative marker; rice genome; sequence variation; GENETIC-MAP; MARKERS; L;

D O I：

10.31742/IJGPB.79.2.15

中图分类号：

Q94 [植物学];

学科分类号：

071001 ;

摘要：

Whole genome sequence availability in rice has provided several advantages for genomics as well as other omics assisted applications. Genome-wide molecular markers are one of such availability that has exceptional importance in modern plant breeding. In the present study, a resource of intron-spanning primers (ISPs) was developed using whole genome sequence information of two rice subspecies, japonica (cv. Nipponbare) and indica (cv. 93-11). The ISPs were designed in a way that the PCR using a cDNA template will yield 60 to 100 base pair size amplicon ideal for the quantitative PCR analysis. Whereas, PCR using genomic DNA will amplify the introns, which are more prone to sequence variation. The sequence variation in the intron serves as an excellent marker resource. The application of ISPs was demonstrated by characterizing 12 diverse rice cultivars. A total of eight out of ten ISPs were found to be polymorphic. The resource will be helpful for the rice molecular biologist and breeder community.

引用

页码：499 / 502

页数：4

共 11 条

[1] Genome-wide generation and use of informative intron-spanning and intron-length polymorphism markers for high-throughput genetic analysis in rice [J].