Genetic structure and association mapping of cold tolerance in improved japonica rice germplasm at the booting stage
Genetic structure and association mapping of cold tolerance in improved japonica rice germplasm at the booting stage
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DOI：
10.1007/s10681-013-0935-x
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发表时间：
2013-10-01
期刊：
影响因子：
1.9
通讯作者：
Han, Long-zhi
中科院分区：
文献类型：
--
作者：
Cui, Di;Xu, Chang-ying;Han, Long-zhi
孕穗期耐冷性是决定水稻产量稳定的主要因素之一。在许多高海拔或高纬度地区。了解耐冷性的遗传基础对于通过育种提高耐冷性至关重要。本研究利用不同的统计模型对347份水稻材料进行了关联分析，以确定与孕穗期耐冷性状相关的遗传标记位点/QTL。在云南自然低温和吉林冷水灌溉条件下对各性状进行了耐冷性评价。148个SSR用于基因分型。人口结构分析确定了三个主要亚群的加入，对应于主要的地理来源。亲属关系分析显示，大多数个体对的关系很弱或没有关系。模型比较结果表明，同时控制群体结构（Q）和亲缘关系（K）的Q+K模型在关联图绘制中的表现优于其他模型。共鉴定出24个与耐冷性显著相关的标记，其中云南标记5个，吉林标记19个。此外，RM 282、RM 252、RM 335和RM 6824在多个环境或年份中被识别。这些标记大多位于已报道的孕穗期耐冷性QTL所在区域或附近。这些结果为进一步的研究提供了目标区域，并可能用于后续的育种计划中，通过MAS追踪和选择有用的等位基因。
Cold tolerance at booting stage is one of the major determinants for a stable yield of rice (Oryza sativa L.) in many high elevation or high latitude regions. Understanding the genetic basis of cold tolerance is crucial for the improvement of cold tolerance through breeding. In this study, association mapping was performed in 347 rice accessions worldwide with different statistical models in order to identify the genetic marker loci/QTL associated with cold tolerance traits at the booting stage. The evaluation of cold tolerance for all the traits was conducted under natural low temperature in Yunnan and cold water irrigation in Jilin. The 148 SSRs were used for the genotyping. Population structure analysis identified three main subpopulations for the accessions that corresponded to major geographic origins. The relative kinship analysis revealed a weak or no relationship for most of the individual pairs. Model comparisons indicated that the Q+K model controlling both population structure (Q) and the relative kinship (K) was performed better than other models in association mapping. In total, 24 markers were identified that were significantly associated with cold tolerance, including five markers in Yunnan and 19 markers in Jilin. Moreover, RM282, RM252, RM335 and RM6824 were identified in multiple environments or years. Many of these identified markers were located either in or nearby the regions where the QTLs have been reported for cold tolerance at booting stage. These results highlighted the targeted regions for future studies and might be subsequently used in breeding programs to trace and select the useful alleles by MAS.