Department of Plant Sciences, University of Saskatchewan, 51 Campus Drive, Saskatoon, SK S7N 5A8, Canada.
Plant Gene Resources of Canada, Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon, SK S7N 0X2, Canada.
Int J Mol Sci. 2018 Aug 31;19(9):2587. doi: 10.3390/ijms19092587.
Molecular characterization of unsequenced plant species with complex genomes is now possible by genotyping-by-sequencing (GBS) using recent next generation sequencing technologies. This study represents the first use of GBS application to sample genome-wide variants of crested wheatgrass [ (L.) Gaertn.] and assess the genetic diversity present in 192 genotypes from 12 tetraploid lines. Bioinformatic analysis identified 45,507 single nucleotide polymorphism (SNP) markers in this outcrossing grass species. The model-based Bayesian analysis revealed four major clusters of the samples assayed. The diversity analysis revealed 15.8% of SNP variation residing among the 12 lines, and 12.1% SNP variation present among four genetic clusters identified by the Bayesian analysis. The principal coordinates analysis and dendrogram were able to distinguish four lines of Asian origin from Canadian cultivars and breeding lines. These results serve as a valuable resource for understanding genetic variability, and will aid in the genetic improvement of this outcrossing polyploid grass species for forage production. These findings illustrate the potential of GBS application in the characterization of non-model polyploid plants with complex genomes.
通过使用最新的下一代测序技术进行测序（GBS），现在可以对具有复杂基因组的未测序植物物种进行分子特征分析。本研究代表了 GBS 应用于对穗状小麦草[（L.）Gaertn.]的全基因组变异进行采样并评估来自 12 个四倍体品系的 192 个基因型的遗传多样性的首次应用。生物信息学分析在这种异交草物种中鉴定出了 45,507 个单核苷酸多态性（SNP）标记。基于模型的贝叶斯分析显示，检测到的样本有四个主要的聚类。多样性分析表明，12 条品系之间存在 15.8%的 SNP 变异，贝叶斯分析鉴定的四个遗传聚类之间存在 12.1%的 SNP 变异。主坐标分析和聚类树状图能够区分出四个源自亚洲的品系与加拿大品种和育种系。这些结果为了解遗传变异性提供了有价值的资源，并将有助于为饲料生产而对这种异交多倍体草物种进行遗传改良。这些发现说明了 GBS 应用于复杂基因组的非模式多倍体植物特征分析的潜力。
