Multi-parent advanced generation inter-cross in barley: high-resolution quantitative trait locus mapping for flowering time as a proof of concept
Multi-parent advanced generation inter-cross in barley: high-resolution quantitative trait locus mapping for flowering time as a proof of concept
复制标题
DOI：
10.1007/s11032-015-0284-7
复制
发表时间：
2015-03-01
影响因子：
3.1
通讯作者：
Leon, Jens
中科院分区：
文献类型：
--
作者：
Sannemann, Wiebke;Huang, Bevan Emma;Leon, Jens
作图群体的选择是理解复杂性状遗传效应的关键因素之一，决定了数量性状基因座（QTL）作图的功效和精度。我们展示了大麦（Hordeum vulgare ssp. vulgare）中第一个八路多亲先进代间杂交（MAGIC）双单倍体（DH）群体的结果，该群体应用于绘制复杂性状。大麦 MAGIC 群体内遗传结构的结果允许使用 SAS v9.2 中新开发的混合线性模型对具有 4,550 个单核苷酸多态性 (SNP) 的 533 个 DH 品系进行 QTL 定位，结合多位点分析和开花时间交叉验证。两种 QTL 作图方法，即广泛用于 QTL 和关联作图的二元方法 (BA) 和一种新型单倍型方法 (HA)，根据其 QTL 检测和遗传效应估计的效率、精度进行了比较。分析检测到 17 个 QTL，其中 5 个在两种方法之间共享； BA 和 HA 方法分别特别发现了 5 个和 2 个。两种作图方法的结合可以实现开花时间的高精度 QTL 作图。 QTL 对应于主要开花时间基因 Vrn-H1、Vrn-H3、HvGI、Ppd-H1、HvFT2、HvFT4、Co1 和株高连锁基因 (sdw1) 的基因组区域。这些结果证实了多亲群体中 QTL 作图的概念证明，突出了优势，并证明大麦 MAGIC DH 系与先进的 QTL 作图方法相结合是绘制复杂性状的宝贵资源。
The choice of mapping population is one of the key factors in understanding the genetic effects of complex traits and determines the power and precision of quantitative trait locus (QTL) mapping. We present the results of the first eight-way multi-parent advanced generation inter-cross (MAGIC) doubled haploid (DH) population in barley (Hordeum vulgare ssp. vulgare) applied to mapping complex traits. The results of the genetic architecture within the barley MAGIC population allowed QTL mapping in 533 DH lines with 4,550 single nucleotide polymorphisms (SNPs) with a newly developed mixed linear model in SAS v9.2, incorporating multi-locus analysis and cross validation for flowering time. Two QTL mapping approaches, the binary approach (BA), which is widely used in QTL and association mapping, and a novel haplotype approach (HA) were compared based on their efficiency, precision for QTL detection and estimation of genetic effects. The analysis detected 17 QTLs, five of which were shared between the two approaches; five and two were specifically found with the BA and HA approaches, respectively. The combination of the two mapping approaches enabled high-precision QTL mapping for flowering time. The QTLs corresponded to the genomic regions of major flowering-time genes Vrn-H1, Vrn-H3, HvGI, Ppd-H1, HvFT2, HvFT4, Co1 and linked genes for plant height (sdw1). These results confirm the proof of concept of QTL mapping in a multi-parent population, highlight the advantages and demonstrate that the barley MAGIC DH lines in combination with an advanced QTL mapping approach are valuable resources for mapping complex traits.