Improved resolution in the position of drought-related QTLs in a single mapping population of rice by meta-analysis.
Improved resolution in the position of drought-related QTLs in a single mapping population of rice by meta-analysis.
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通过荟萃分析，在单个映射水稻中，在干旱相关QTL位置的分辨率提高了。
DOI：
10.1186/1471-2164-10-276
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发表时间：
2009-06-22
期刊：
影响因子：
4.4
通讯作者：
Price AH
中科院分区：
文献类型：
--
作者：
Khowaja FS;Norton GJ;Courtois B;Price AH
QTL的Meta分析结合了几个QTL检测研究的结果，为Meta-QTL提供了较窄的可信区间，从而使定位候选基因的识别变得更容易。它通常应用于多个作图群体，但也可以应用于一个群体。在这里，对Bala×Azucena作图群体中与干旱有关的QTL进行了荟萃分析，收集了13个实验和25个独立筛选的数据，提供了1,650个QTL，分为5个性状类别：干旱回避、株高、植物生物量、叶片形态和根性状。重叠的1LOD置信度区间的热图提供了QTL的分布概况。然后使用BioMercator程序对QTL群进行正式的荟萃分析，以说明QTL的荟萃分析在这一群体中的价值。热图以图形方式说明了水稻干旱相关性状的遗传复杂性。利用提供的额外文件1，QTL可以与它们在水稻基因组上的物理位置相关联。在第1号染色体上的形式荟萃分析表明，SD1半矮秆基因与一个株高元QTL重合，该元QTL不太可能与该基因相关，该元QTL不是多效性的，叶形态和根性状的元QTL也不是多效性的。在第5号染色体上，有证据表明，与叶片形态和植株生物量相关的避旱元QTL是多效性的，但与10 cm以下的根性状和株高不存在多效性。在9号染色体上可见的根QTL密集活动区，在35 cM的距离内被分成3个偏QTL。获得的偏QTL的可信区间为5.1~14.5 cM，平均为9.4 cM，相当于水稻中约180个基因。荟萃分析在分析性状的复杂遗传结构以及区分多效性和紧密连锁方面具有很高的价值。它还为定位候选基因的鉴定提供了相对较小的靶区。
Meta-analysis of QTLs combines the results of several QTL detection studies and provides narrow confidence intervals for meta-QTLs, permitting easier positional candidate gene identification. It is usually applied to multiple mapping populations, but can be applied to one. Here, a meta-analysis of drought related QTLs in the Bala × Azucena mapping population compiles data from 13 experiments and 25 independent screens providing 1,650 individual QTLs separated into 5 trait categories; drought avoidance, plant height, plant biomass, leaf morphology and root traits. A heat map of the overlapping 1 LOD confidence intervals provides an overview of the distribution of QTLs. The programme BioMercator is then used to conduct a formal meta-analysis at example QTL clusters to illustrate the value of meta-analysis of QTLs in this population. The heat map graphically illustrates the genetic complexity of drought related traits in rice. QTLs can be linked to their physical position on the rice genome using Additional file 1 provided. Formal meta-analysis on chromosome 1, where clusters of QTLs for all trait categories appear close, established that the sd1 semi-dwarfing gene coincided with a plant height meta-QTL, that the drought avoidance meta-QTL was not likely to be associated with this gene, and that this meta-QTL was not pleiotropic with close meta-QTLs for leaf morphology and root traits. On chromosome 5, evidence suggests that a drought avoidance meta-QTL was pleiotropic with leaf morphology and plant biomass meta-QTLs, but not with meta-QTLs for root traits and plant height 10 cM lower down. A region of dense root QTL activity graphically visible on chromosome 9 was dissected into three meta-QTLs within a space of 35 cM. The confidence intervals for meta-QTLs obtained ranged from 5.1 to 14.5 cM with an average of 9.4 cM, which is approximately 180 genes in rice. The meta-analysis is valuable in providing improved ability to dissect the complex genetic structure of traits, and distinguish between pleiotropy and close linkage. It also provides relatively small target regions for the identification of positional candidate genes.
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影响因子：
5.4
作者：
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通讯作者：
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作者：
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