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United States Department of Agriculture

Agricultural Research Service

Research Project: RESPONSE OF DIVERSE RICE GERMPLASM TO BIOTIC AND ABIOTIC STRESSES Title: A “Rice Diversity Panel” Evaluated For Variation In Agro-Morphological And Grain Quality Traits Among The Genetically Defined Subpopulations

item Ali, M. Liakat -
item Eizenga, Georgia
item Jia, Melissa
item McClung, Anna
item McClung, Anna
item Mccouch, Susan -

Submitted to: Plant and Animal Genome Conference Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: November 30, 2009
Publication Date: December 11, 2009
Citation: Ali, ML, Eizenga GC, Jia MH, McClung AM, McCouch SR. 2010. A “Rice Diversity Panel” Evaluated for variation in agro-morphological and grain quality traits among the genetically defined subpopulations. 2010. In: Proc. of the Plant & Animal Genomes XVIII Conf. 9-13 Jan. 2010. San Diego, California. Available at:

Technical Abstract: A “Rice Diversity Panel” composed of 409 purified accessions originating from 79 countries was evaluated for 18 agro-morphological traits and two quality traits, amylose content and alkali spreading value (ASV) which is a measure of gelatinization temperature (gel temp). This panel was also screened with Intron1 and RM190, DNA markers associated with amylose content and the Alk marker associated with ASV. The panel includes five ancestral subpopulations, aus (59 accessions), indica (90), temperate japonica (104), tropical japonica (108) and aromatic/GroupV (15). Canonical discriminant analysis identified agronomic traits such as, plant height, panicle number per plant, flag leaf width, panicle length, panicle branch number and grain traits (length, width, weight and volume) as the main discriminatory traits between the subpopulations. Aus had the highest amylose content whereas temperate japonica had the lowest. Aus had alleles for Intron1 associated with high/intermediate amylose content while 75% of temperate japonica had the allele associated with low amylose. Similarly, for RM190, 96% of aus had alleles associated with high amylose while 95% of temperate japonica had alleles associated with low amylose. Temperate japonica and indica were classified as having low gel temp whereas aus and tropical japonica had intermediate gel temp. Sixty percent of temperate japonica had alleles associated with low gel temp whereas all the aus and 88% of tropical japonica had alleles for intermediate/high gel temp. These results are being explored in more depth by an association mapping analysis using the genotypes generated from a 44K SNP Chip. Online reference.

Last Modified: 7/23/2016