Article

Molecular Breeding

, Volume 20, Issue 4, pp 349-358

Fine mapping of the qCTS4 locus associated with seedling cold tolerance in rice (Oryza sativa L.)

  • Virgilio C. AndayaAffiliated withUSDA-ARS Crops Pathology and Genetics Research Unit, Department of Plant Sciences, University of California Davis
  • , Thomas H. TaiAffiliated withUSDA-ARS Crops Pathology and Genetics Research Unit, Department of Plant Sciences, University of California Davis Email author 

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Abstract

Rice seedlings are sensitive to low temperatures (≤15°C) and under prolonged or repeated exposure, yellowing and stunting are commonly observed. Damage to seedlings results in poor stand establishment and delayed maturation, which can cause significant reductions in yield. In general, japonica rice varieties exhibit more cold tolerance than indica varieties. Earlier genetic analysis of the California rice variety M202 revealed several quantitative trait loci (QTL) that contribute to its tolerance to low temperatures in comparison to the indica rice variety IR50. Among these QTL, qCTS4 is associated with tolerance to yellowing and stunting of rice seedlings and accounts for 40% of the phenotypic variation. Here we report on the fine mapping of qCTS4 to a 128 kb region of chromosome 4, which is highly suppressed for recombination in our mapping populations. Our results provide the necessary foundation for identifying the gene(s) underlying qCTS4 and the markers developed here may be used to introgress this region into indica varieties to improve seedling tolerance to low temperatures.

Keywords

Abiotic stress Microsatellite markers QTL mapping Rice