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United States Department of Agriculture

Agricultural Research Service

Title: Development of DNA Markers to Distinguish Commercial U.S. Rice Cultivars

Authors
item Fjellstrom, Robert
item MCCLUNG, ANNA
item MCCLUNG, ANNA

Submitted to: Rice Technical Working Group Meeting Proceedings
Publication Type: Proceedings
Publication Acceptance Date: December 1, 2001
Publication Date: June 1, 2002
Citation: FJELLSTROM, R.G., MCCLUNG, A.M. DEVELOPMENT OF DNA MARKERS TO DISTINGUISH COMMERCIAL U.S. RICE CULTIVARS. RICE TECHNICAL WORKING GROUP MEETING PROCEEDINGS. 2002. p. 60.

Technical Abstract: Biotechnology offers new tools that will help in rice cultivar identity preservation and verification. This is becoming a significant issue as the number of commercial cultivars that are available to the U.S. rice industry increases. Some cultivars may have special properties that are important to niche markets whereas others may possess proprietary technology. Moreover, many U.S. breeding programs utilize a relatively narrow germplasm base making it difficult to phenotypically distinguish some cultivars. Having a set of molecular markers which differentiate U.S. cultivars will benefit rice researchers, producers, seedsmen, mills and end-users that desire seed purity and identity preservation. Over 30 commercial rice varieties representing conventional long, medium, and short grains from across the U.S. as well as several specialty rices were obtained for analysis. DNA markers that mapped to each of the twelve chromosomes in the rice genome were evaluated for their ability to distinguish cultivars. Several markers are located near important genes like Sd1 on chromosome 1, Pi-b on chromosome 2, Waxy on chromosome 6, and Pi-k on chromosome 11. DNA was extracted from leaf tissue and PCR analysis was performed using a capillary electrophoresis genetic analyzer. Although we did not use enough markers to clearly fingerprint all cultivars, our results indicate that a relatively small set of molecular markers can be used to distinguish most common U.S. rice cultivars that are commercially grown. These markers can be used to verify the identity of seedlots, production fields, and rice samples and can be performed using leaf tissue or rough, brown, or milled forms of rice grain. A summary of the cultivars used and their distinguishing molecular markers will be presented.

Last Modified: 8/19/2014