Journal Article

Mapping of Quantitative Trait Locus Related to Submergence Tolerance in Rice with Aid of Chromosome Walking

Wintai Kamolsukyunyong, Vinitchan Ruanjaichon, Meechai Siangliw, Shinji Kawasaki, Takuji Sasaki, Apichart Vanavichit and Somvong Tragoonrung

in DNA Research

Published on behalf of Kazusa DNA Research Institute

Volume 8, issue 4, pages 163-171
Published in print January 2001 | ISSN: 1340-2838
Published online January 2001 | e-ISSN: 1756-1663 | DOI: http://dx.doi.org/10.1093/dnares/8.4.163

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The major QTL for submergence tolerance was locate in the 5.9 cM interval between flanking RFLP markers. To narrow down this region, a physical map was constructed using YAC and BAC clones. A 400-kb YAC was identified in this region and later its end fragments were used to screen a rice BAC library. Through chromosome walking, 24 positive BAC clones formed two contigs around linked-RFLP markers, R1164 and RZ698. Using one YAC end, six BAC ends and three RFLP markers, a fine-scale map was constructed of the 6.8-cM interval of S10709-RZ698 on rice chromosome 9. The submergence tolerance and related trait were located in a small, well-defined region around BAC-end marker 180D1R and RFLP marker R1164. The physical-to-map distance ratio in this region is as small as 172.5 kb/cM, showing that this region is a hot spot for recombination in the rice genome.

Keywords: rice (Oryza sativa L.); submergence tolerance; positional cloning; physical mapping; bacterial artificial chromosome (BAC); yeast artificial chromosome (YAC)

Journal Article.  0 words. 

Subjects: Genetics and Genomics

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