Integration of physical and genetic maps of common bean through BAC-derived microsatellite markers.
Integration of physical and genetic maps of common bean through BAC-derived microsatellite markers.
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DOI：
10.1186/1471-2164-11-436
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发表时间：
2010-07-16
期刊：
影响因子：
4.4
通讯作者：
Blair MW
中科院分区：
文献类型：
--
作者：
Córdoba JM;Chavarro C;Schlueter JA;Jackson SA;Blair MW
菜豆（Phaseolus vulgaris L.）大豆是人类直接食用的最重要的豆科植物，本研究的目的是利用基因型G19833和重组自交系群体DOR 364 × G19833的BAC文库，将最近构建的大豆物理图谱与基于微卫星的遗传图谱整合起来。我们从物理图谱中搜索89，017个BAC末端序列（BES）中的简单重复序列（SSR），并将任何多态性BES-SSR遗传映射到遗传图谱上。在BES中，有可能确定623个重叠群连锁的SSR，其中大多数是高度AT丰富。从这些BAC中提取的230对SSR引物在作图亲本上进行了检测，其中176个单拷贝位点和114个多态性标记。其中，99个成功整合到基因图谱中。遗传图谱和物理图谱之间的99个连锁对应于含有总共5，055个BAC克隆的相等数量的重叠群。在BES中，II类微卫星比较长的I类微卫星更常见。这两种类型的标记被证明是有价值的BAC克隆的遗传图谱，并成功地放置在所有11个连锁群。菜豆物理图谱和遗传图谱的整合是比较基因组分析的重要组成部分，也是定位克隆菜豆重要农艺基因的前奏。
Common bean (Phaseolus vulgaris L.) is the most important legume for direct human consumption and the goal of this study was to integrate a recently constructed physical map for the species with a microsatellite based genetic map using a BAC library from the genotype G19833 and the recombinant inbred line population DOR364 × G19833. We searched for simple sequence repeats (SSRs) in the 89,017 BAC-end sequences (BES) from the physical map and genetically mapped any polymorphic BES-SSRs onto the genetic map. Among the BES it was possible to identify 623 contig-linked SSRs, most of which were highly AT-rich. A subgroup of 230 di-nucleotide and tri-nucleotide based SSR primer pairs from these BACs was tested on the mapping parents with 176 single copy loci and 114 found to be polymorphic markers. Of these, 99 were successfully integrated into the genetic map. The 99 linkages between the genetic and physical maps corresponded to an equal number of contigs containing a total of 5,055 BAC clones. Class II microsatellites were more common in the BES than longer class I microsatellites. Both types of markers proved to be valuable for linking BAC clones to the genetic map and were successfully placed across all 11 linkage groups. The integration of common bean physical and genetic maps is an important part of comparative genome analysis and a prelude to positional cloning of agronomically important genes for this crop.
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