Aligned genetic linkage maps of apple rootstock cultivar 'JM7' and Malus sieboldii 'Sanashi 63' constructed with novel EST-SSRs
Aligned genetic linkage maps of apple rootstock cultivar 'JM7' and Malus sieboldii 'Sanashi 63' constructed with novel EST-SSRs
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DOI：
10.1007/s11295-011-0458-3
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发表时间：
2012-08-01
影响因子：
2.4
通讯作者：
Abe, Kazuyuki
中科院分区：
文献类型：
--
作者：
Moriya, Shigeki;Iwanami, Hiroshi;Abe, Kazuyuki
识别与感兴趣基因相关的标记和数量性状基因座(QTL)，结合高密度遗传连锁图谱，可以通过实现标记辅助选择(MAS)来帮助减少劳动力和成本。本研究以矮化苹果砧木品种‘JM7’和野生苹果‘三石63’为材料，构建了遗传连锁图谱。在这里，一个物种首次被用作全基因组图谱研究的目标物种。我们还开发并定位了137个新的表达序列标签-简单序列重复(EST-SSR)标记。‘JM7’和‘三系63’的遗传连锁图谱长度分别为998.0 cM和981.8 cM，与苹果‘发现’的参考图谱相当。BLASTN搜索显示，本研究中使用的所有EST-SSR序列与一个或多个先前描述的苹果基因组重叠群具有很高的同源性。虽然89个EST-SSR的同源性最高的重叠群位于作图分析所确定的相同的连锁群(LGs)中，但另外48个EST-SSR被比对成位于不同LG中的重叠群，而不是定位所确定的LGs。当搜索标准扩展到包括每个EST-SSR的五个最同源的重叠群时，这48个EST-SSR中的15个的前五个重叠群中至少有一个与通过作图获得的LG相对应。‘JM7’和‘三系63’的图谱可用于分析重要的砧木性状和识别标记。
Identification of markers associated with genes of interest and quantitative trait loci (QTLs), combined with high-density genetic linkage maps, can help reduce labor and costs by enabling marker-assisted selection (MAS). In this study, a dwarfing apple rootstock cultivar 'JM7' (Malus prunifolia x Malus pumila 'Malling 9') and wild apple Malus sieboldii 'Sanashi 63' (section Sorbomalus) were used for constructing genetic linkage maps. Here, a species from section Sorbomalus was used for the first time as a target species in a genome-wide mapping study. We also developed and mapped 137 novel-expressed sequence tag-simple sequence repeat (EST-SSR) markers. The genetic linkage maps of 'JM7' and 'Sanashi 63' consisted of 415 and 310 loci and spanned 998.0 and 981.8 cM, respectively, comparable to the reference map of Malus x domestica 'Discovery'. A BLASTN search revealed that all of the EST-SSR sequences used in this study exhibited very high homology to one or more previously characterized apple genome contigs. Although the most homologous contigs of 89 EST-SSRs were located within the same linkage groups (LGs) identified by mapping analysis, the other 48 EST-SSRs were aligned into contigs positioned in different LGs than those identified by mapping. When search criteria were expanded to include the five most homologous contigs of each EST-SSR, at least one of the top five contigs for 15 of these 48 EST-SSRs corresponded to the LG obtained by mapping. The maps of 'JM7' and 'Sanashi 63' may be useful for analyzing important rootstock characteristics and identifying markers for MAS.