Identification of QTLs for Rice Appearance Quality Traits Across Different Ecological Sites

doi:10.3969/j.issn.1001-7216.2011.01.007

Abstract

Abstract: Two rice varieties, Nipponbare (japonica) and 9311 (indica), whose whole genomes have been sequenced, were used as parents to create a recombinant inbred lines population consisting of 190 lines by single seed descent method. The genetic linkage map was constructed with 178 SSR, CAP, and STS markers. Quantitative trait loci (QTLs) were identified for six rice appearance quality traits including chalky grain rate (CGR), chalky area (CA), chalkiness degree (CD), grain length (GL), grain width (GW), grain lengthwidth ratio (GLW) by composite interval mapping method in three different ecological sites (Lingshui, Hefei and Huaiyuan). A total of 39 QTLs were identified, with 6 to 7 for each trait, indicating that rice appearance quality traits were controlled by multiple genes. Eight QTLs were detected at 2 or 3 sites, among which qCD1 and qCD3 (explaining 288% and 321% of variance) were detected in all the three sites. Eleven QTLs were found to have pleiotropy in which a single QTL controlled 2 to 6 traits, and the interval of RM16-RM143 on chromosome 3 controlled the 6 traits. The comparison of QTL identification among the three sites showed that the environment effects were trait dependant. The QTLs for GLW and CD were comparatively stable across sites, whereas those for GW were sensitive to environment.

Key words: rice, appearance quality, quantitative trait locus, grain shape, chalkiness, environment effect, gene pleiotropy

摘要： 利用两个已测序品种9311和日本晴为亲本，采取单粒传法创建由190个家系组成的重组自交系群体，并构建了包含178个SSR、CAP和STS标记的遗传连锁图谱。采用复合区间作图方法，在3个不同生态地点(陵水、合肥和怀远)对垩白(垩白率、垩白大小、垩白度)、粒形(粒长、粒宽、长宽比)等6个外观品质的数量性状基因座（QTL)进行了定位分析。共定位到39个QTL，单个性状QTL数目在6~7个，说明垩白和粒形是多基因控制的数量性状。8个QTL可在2个以上地点检测到，其中,两个垩白度相关QTL qCD1、qCD3(贡献率分别为288%、321%)在3个地点同时检测到；11个QTL具有一因多效性，单个QTL位点控制的性状为2~6个，如第3染色体RM16-RM143区段控制垩白率、垩白大小、垩白度、粒长、粒宽和长宽比等6个性状。比较3个地点的检测结果，发现外观品质性状的QTL定位都受环境影响，但不同性状受影响的程度不同。长宽比和垩白度受环境影响较小，粒宽受环境影响较大。

关键词: 水稻, 外观品质, 数量性状基因座, 粒形性状, 垩白性状, 环境效应, 基因多效性

YANG Ya-chun,NI Da-hu,SONG Feng-shun,LI Ze-fu,YI Cheng-xin,YANG Jian-bo. Identification of QTLs for Rice Appearance Quality Traits Across Different Ecological Sites[J]. Chinese Journal of Rice Science, DOI: 10.3969/j.issn.1001-7216.2011.01.007 .

杨亚春 ,倪大虎,宋丰顺,李泽福,易成新,杨剑波,. 不同生态地点下稻米外观品质性状的QTL定位分析 [J]. 中国水稻科学, DOI: 10.3969/j.issn.1001-7216.2011.01.007 .

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