Abstract
Oryza sativa ssp. javanica rice varieties exhibit a wide variation in the phenotypes of several important agronomic traits, including grain quality, grain shape, plant architecture, disease resistance, and high adaption to an unfavorable environment, indicating a great potential for rice improvement. DNA molecular markers are basic and critical tools in genetic analysis and gene mining. However, only a few whole-genome variation analyses have been performed in Oryza sativa ssp. Javanica (tropical japonica rice), and this has hampered the utilization of such an important resource. In this study, the length of insertions/deletions variation greater larger than 10 bp from 10 Oryza sativa ssp. indica rice and 10 Oryza sativa ssp. tropical japonica rice were extracted by using the Nipponbare genome as a reference. A total of 118 primer pairs which were almost evenly distributed on each chromosome corresponding to the loci of InDels were designed by the Primer 5 program. We confirmed 85 InDel markers from 60 rice varieties, including indica and tropical japonica, by running polyacrylamide gels. The InDel markers function like SSRs in identifying hybrids, calculating genetic distance, constructing the genetic linkage map, and gene mining. The InDel markers developed in this study might help in genetic studies and to investigate the tropical japonica rice varieties.
Funder
Jiangxi Provincial Agricultural Science and Technology Innovation Project
the earmarked fund for China Agriculture Research System
Publisher
Public Library of Science (PLoS)
Reference40 articles.
1. Origin, dispersal, cultivation and variation of rice;G.S. Khush;Plant Mol Biol,1997
2. RFLP mapping of genes conferring complete and partial resistance to blast in a durably resistant rice cultivar;G.L. Wang;Genetics,1994
3. NAL1 allele from a rice landrace greatly increases yield in modern indica cultivars;D. Fujita;Proc Natl Acad Sci U S A,2013
4. Studies on Ancient Rice—Where Botanists, Agronomists, Archeologists, Linguists, and Ethnologists Meet;J.-s. Hsieh;Rice,2011
5. Prospects of utilization of inter-subspecific heterosis between indica and japonica rice;G.-q Zhang;Journal of Integrative Agriculture,2020
Cited by
1 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献