A dense single-nucleotide polymorphism-based genetic linkage map of grapevine (Vitis vinifera L.) anchoring pinot noir bacterial artificial chromosome contigs
A dense single-nucleotide polymorphism-based genetic linkage map of grapevine (Vitis vinifera L.) anchoring pinot noir bacterial artificial chromosome contigs
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DOI：
10.1534/genetics.106.067462
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发表时间：
2007-08-01
期刊：
影响因子：
3.3
通讯作者：
Velasco, Riccardo
中科院分区：
文献类型：
--
作者：
Troggio, Michela;Malacarne, Giulia;Velasco, Riccardo
构建了葡萄属酿酒葡萄的遗传图谱，并将其与BAC物理图谱锚定，该图谱包括994个位点，分布在19个连锁群上，对应于葡萄属的基本染色体数目。该图谱跨越1245 cM，相邻标记之间的平均距离为1.3 cM，从分离的483个单核苷酸多态性（SNP）为基础的遗传标记，132个简单序列重复（SSR），和379个AFLP标记的94个F-1个体来自品种西拉和黑比诺葡萄杂交的作图群体。在这些标记中，623个被锚定到包含在由黑比诺的相同克隆产生的物理图谱中的367个标记上，并且覆盖352 Mbp。基于含有两个或多个遗传标记的组合，提出了基于区域的物理距离和重组距离的估计。在这项研究中使用的标记，包括118个SSR共同的综合地图来自五个分离的葡萄种群。这些SSR标记在两张图谱中的位置在所有葡萄属连锁群中是保守的。基于SNP的标记的加入引入了易于数据库的多态性，对于进化研究是有用的，并且显著增加了图谱的密度。该图谱提供了迄今为止报道的葡萄属基因组的最全面的视图，并将与未来的结构和功能基因组学以及遗传改良研究相关。
The construction of a dense genetic map for Vitis vinifera and its anchoring to a BAC-based physical map is described: it includes 994 loci mapped onto 19 linkage groups, corresponding to the basic chromosome number of Vitis. Spanning 1245 cM with an average distance of 1.3 cM between adjacent markers, the map was generated from the segregation of 483 single-nucleotide polymorphism (SNP)-based genetic markers, 132 simple sequence repeats (SSRs), and 379 AFLP markers in a mapping population of 94 F-1 individuals derived from a V. vinifera cross of the cultivars Syrah and Pinot Noir. Of these markers, 623 were anchored to 367 configs that are included in a physical map produced from the same clone of Pinot Noir and covering 352 Mbp. On the basis of confgs containing two or more genetically mapped markers, region-dependent estimations of physical and recombinational distances are presented. The markers used in this study include 118 SSRs common to an integrated map derived from five segregating populations of V. vinifera. The positions of these SSR markers in the two maps are conserved across all Vitis linkage groups. The addition of SNP-based markers introduces polymorphisms that are easy to database, are useful for evolutionary studies, and significantly increase the density of the map. The map provides the most comprehensive view of the Vitis genome reported to date and will be relevant for future studies on structural and functional genomics and genetic improvement.