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United States Department of Agriculture

Agricultural Research Service

Title: Qtl Mapping of Milling Yield in Southern U.S. Rice with Amplified Fragment Length Polymorphism (Aflp) and Micro-Satellite (Ssr) Markers

item Kepiro, Joseph
item Fjellstrom, Robert
item McClung, Anna
item McClung, Anna

Submitted to: Plant and Animal Genome Conference Proceedings
Publication Type: Proceedings
Publication Acceptance Date: December 15, 2004
Publication Date: January 1, 2005
Citation: Kepiro, J.L., Fjellstrom, R.G., McClung, A.M. 2005. QTL mapping of milling yield in southern U.S. rice with amplified fragment length polymorphism (AFLP) and micro-satellite (SSR) markers. Plant and Animal Genome Conference Proceedings. p. 146.

Technical Abstract: Milling yield, defined as the percentage of whole rice kernels recovered after de-hulling rough rice and milling, is a critically important trait in rice. Milling yields vary considerably between cultivars, with low milling cultivars being rejected by rice growers. Molecular markers linked to milling yield will permit early and efficient selection for high milling yield in breeding lines. A 'Cypress' x 'Panda' population of 223 F11 lines was analyzed for milling yield over two years in order to map QTL for milling yield. Cypress has high and stable milling yield over a wide range of harvest moisture levels, whereas Panda does not. Using the first year's data, 60 lines with high and 60 lines with low milling yields were selected for genetic mapping. Multiplex PCR using IRD-labeled primers allowed efficient amplification and scoring of 68 AFLP primer combinations and generated over 650 polymorphic AFLP markers in the 120 lines utilizing a Li-Cor 4200 DNA Analyzer and Saga MX-AFLP® software. To anchor the AFLP markers onto chromosomes, 24 SSR markers of known location were scored with an ABI-3100 Genetic Analyzer. Linkage analysis was performed with JoinMap 3.0 and MapQTL 5.0 was used for QTL analysis of the 120 lines. The identified QTL will be verified in the full population of 223 families. Preliminary results of markers linked to the total and whole percentage of milled grain, days to heading and harvest, kernel length and width, as well as amylose content, alkali spreading value, height, test weight, and pubescence will be presented.

Last Modified: 4/22/2015
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