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TRANSCRIPTOMIC ANALYSIS, GENIC SSR DEVELOPMENT, AND GENETIC DIVERSITY OF PROSO MILLET (PANICUM MILIACEUM; POACEAE)

文献类型： 外文期刊

作者： Hou, Siyu 1 ; Sun, Zhaoxia 1 ; Li, Yaoshen 1 ; Wang, Yijie 1 ; Ling, Hubin 1 ; Xing, Guofang 1 ; Han, Yuanhuai 1 ; Li, Ho 1 ;

作者机构： 1.Shanxi Agr Univ, Coll Agr, Inst Agr Bioengn, Taigu 030801, Shanxi, Peoples R China

2.Shanxi Key Lab Genet Resources & Genet Improvemen, Taigu 030801, Shanxi, Peoples R China

3.Shanxi Acad Agr Sci, Inst Crop Genet Resources, Key Lab Crop Gene Resources & Germplasm Enhanceme, Inst Crop Genet Resources, Taiyuan 030031, Shanxi, Peoples R China

关键词： de novo transcriptome;genetic diversity;genic SSR;germplasm resources;Panicum miliaceum;Poaceae;proso millet

期刊名称：APPLICATIONS IN PLANT SCIENCES （ 影响因子：1.936； 五年影响因子：1.929 ）

ISSN： 2168-0450

年卷期： 2017 年 5 卷 7 期

页码：

收录情况： SCI

摘要： Premise of the study: Proso millet (Panicum miliaceum; Poaceae) is a minor crop with good nutritional qualities and strong tolerance to drought stress and soil infertility. However, studies on genetic diversity have been limited due to a lack of efficient genetic markers. Methods: Illumina sequencing technology was used to generate short read sequences of proso millet, and de novo transcriptome assemblies were used to develop a de novo assembly of proso millet. Genic simple sequence repeat (SSR) markers were identified and used to detect polymorphism among 56 accessions. Population structure and genetic similarity coefficient were estimated. Results: In total, 25,341 unique gene sequences and 4724 SSR loci were obtained from the transcriptome, of which 229 pairs of SSR primers were validated, which resulted in 14 polymorphic genic SSR primers exhibiting 43 total alleles. According to the ratio of polymorphic markers (6.1%, 14/229), there are potentially 288 polymorphic genic SSR markers available for genetic assay development in the future. Bayesian population analyses showed that the 56 accessions comprised two distinct groups. Discussion: A genetic structure and cluster assay indicated that the accessions from the Loess Plateau of China shared a high genetic similarity coefficient with those from other regions and that there was no correlation between genetic diversity and geographic origin. The transcriptome sequencing data and millet-specific SSR markers developed in this study establish an excellent resource for gene discovery and may improve the development of breeding programs in proso millet in the future.

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