Whole genome development of intron targeting (IT) markers specific for Dasypyrum villosum chromosomes based on next-generation sequencing technology
Whole genome development of intron targeting (IT) markers specific for Dasypyrum villosum chromosomes based on next-generation sequencing technology
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基于新一代测序技术的绒毛染色体特异内含子靶向（IT）标记的全基因组开发
DOI：
10.1007/s11032-017-0710-0
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发表时间：
2017-08
影响因子：
3.1
通讯作者：
Wang Haiyan
中科院分区：
文献类型：
--
作者：
Zhang Xiangdong;Wei Xing;Xiao Jin;Yuan Chunxia;Wu Yufeng;Cao Aizhong;Xing Liping;Chen Peidu;Zhang Shouzhong;Wang Xiue;Wang Haiyan
Dasypyrum villosum (Dv) 是小麦的野生近缘种，是小麦改良的重要且有用的基因资源。已经开发出大量含有完整 Dv 染色体或片段的小麦-Dv 非整倍体系。然而，缺乏足够的分子标记阻碍了 Dv 染色质的准确鉴定，特别是当渗入片段较小时。开发覆盖整个Dv基因组并均匀分布在不同染色体区域的分子标记不仅有助于检测小麦背景中渗入的外来染色质，而且还为同源染色体之间的同线性关系提供了证据。在本研究中，为了在单个 Dv 染色体上开发高密度且均匀分布的分子标记，对 Dv 叶片的基因组 DNA 进行了测序和组装。所有小麦染色体的序列组装首先用于鉴定外显子-外显子连接并定位 Dv 中的内含子。评估了适合设计内含子侧翼Dv引物的内含子长度多态性，并设计了总共1624个内含子靶向（IT）标记。利用中国春、硬粒小麦-Dv双倍体和Dv测序DNA文库，开发了841个Dv染色体特异性IT分子标记，最高效率可达51.79%。我们使用七个小麦-Dv染色体添加和替换系将841个IT标记分配给7个Dv染色体（1V-7V）：分别为135至1V、175至2V、120至3V、89至4V、140至5V、71至6V和111至7V。使用普通小麦-Dv端体和全臂易位系，将它们进一步定位在短或长染色体臂上。这些 Dv 个体染色体的特异性标记为表征涉及 Dv 个体染色体的结构变异以及在育种计划中选择位于个体 Dv 染色体上的有用基因提供了有效的工具。
Dasypyrum villosum (Dv), a wild relative of wheat, is an important and useful gene resource for wheat improvement. A large number of wheat-Dv aneuploid lines harboring whole or fragments of Dv chromosomes have been developed. However, the lack of sufficient molecular markers hindered accurate identification of Dv chromatin, especially when the introgressed fragments are small. Development of molecular markers covering the whole Dv genome and evenly distributed on different chromosome regions is not only useful for the detection of the introgressed alien chromatin in wheat background, but also provides evidence of the syntenic relationship between homoeologous chromosomes. In the present study, in order to develop high density and evenly distributed molecular markers on individual Dv chromosomes, genomic DNA of Dv leaves was sequenced and assembled. Sequence assemblies of all wheat chromosomes were first used to identify exon–exon junctions and localize introns in Dv. Intron length polymorphisms suitable for designing Dv primers flanking introns were evaluated, and a total of 1624 intron targeting (IT) markers was designed. By using the Chinese Spring, the Triticum durum-Dv amphiploid and the Dv sequenced DNA libraries, 841 IT molecular markers specific for Dv chromosomes were developed, with maximum efficiency up to 51.79%. We assigned the 841 IT markers to seven Dv chromosomes (1V–7V) using seven wheat–Dv chromosome addition and substitution lines: 135 to 1V, 175 to 2V, 120 to 3V, 89 to 4V, 140 to 5V, 71 to 6V, and 111 to 7V, respectively. Using T. aestivum-Dv telosomic and whole arm translocation lines, they were further located on the short or long chromosome arms. These specific markers for individual chromosomes of Dv provided efficient tools for the characterization of structural variation involving the individual chromosome of Dv, as well as for the selection of useful genes located on individual Dv chromosome in breeding programs.
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影响因子：
5.4
作者：
Zhang, Ruiqi;Cao, Aizhong;Chen, Peidu;Wang, Xiue
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DOI：
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发表时间：
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影响因子：
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影响因子：
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作者：
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通讯作者：
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影响因子：
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作者：
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通讯作者：
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