Department of Soil, Plant and Food Sciences, University of Bari "Aldo Moro", Via Amendola 165/A, Bari 70126, Italy.
BMC Genet. 2013 Dec 5;14:114. doi: 10.1186/1471-2156-14-114.
The importance of wheat to the world economy, together with progresses in high-throughput next-generation DNA sequencing, have accelerated initiatives of genetic research for wheat improvement. The availability of high density linkage maps is crucial to identify genotype-phenotype associations, but also for anchoring BAC contigs to genetic maps, a strategy followed for sequencing the wheat genome.
Here we report a genetic linkage map in a durum wheat segregating population and the study of mapped DArT markers. The linkage map consists of 126 gSSR, 31 EST-SSR and 351 DArT markers distributed in 24 linkage groups for a total length of 1,272 cM. Through bioinformatic approaches we have analysed 327 DArT clones to reveal their redundancy, syntenic and functional aspects. The DNA sequences of 174 DArT markers were assembled into a non-redundant set of 60 marker clusters. This explained the generation of clusters in very small chromosome regions across genomes. Of these DArT markers, 61 showed highly significant (Expectation < E-10) BLAST similarity to gene sequences in public databases of model species such as Brachypodium and rice. Based on sequence alignments, the analysis revealed a mosaic gene conservation, with 54 and 72 genes present in rice and Brachypodium species, respectively.
In the present manuscript we provide a detailed DArT markers characterization and the basis for future efforts in durum wheat map comparing.
小麦对世界经济的重要性，以及高通量新一代 DNA 测序技术的进步，加速了小麦改良的遗传研究计划。高密度连锁图谱的可用性对于识别基因型-表型关联至关重要，但对于将 BAC 重叠群锚定到遗传图谱上也是如此，这是测序小麦基因组所采用的策略。
本文报告了一个硬粒小麦分离群体的遗传连锁图谱和映射 DArT 标记的研究。该连锁图谱由 126 个 gSSR、31 个 EST-SSR 和 351 个 DArT 标记组成，分布在 24 个连锁群中，总长度为 1272cM。通过生物信息学方法，我们分析了 327 个 DArT 克隆，以揭示它们的冗余性、同线性和功能方面。174 个 DArT 标记的 DNA 序列被组装成一个非冗余的 60 个标记簇集。这解释了在基因组中非常小的染色体区域产生簇的原因。在这些 DArT 标记中，有 61 个与拟南芥和水稻等模式物种的公共数据库中的基因序列具有高度显著的（期望<10E-10）BLAST 相似性。基于序列比对，分析显示了一个镶嵌基因保守性，在水稻和拟南芥物种中分别存在 54 个和 72 个基因。
在本研究中，我们提供了 DArT 标记的详细特征，并为今后硬粒小麦图谱比较的研究提供了基础。
