Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, 43400 Serdang, Selangor, Malaysia.
Laboratory of Climate-Smart Food Crop Production, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia, 43400 Serdang, Selangor, Malaysia.
Molecules. 2018 Feb 13;23(2):399. doi: 10.3390/molecules23020399.
Microsatellites, or simple sequence repeats (SSRs), are one of the most informative and multi-purpose genetic markers exploited in plant functional genomics. However, the discovery of SSRs and development using traditional methods are laborious, time-consuming, and costly. Recently, the availability of high-throughput sequencing technologies has enabled researchers to identify a substantial number of microsatellites at less cost and effort than traditional approaches. Illumina is a noteworthy transcriptome sequencing technology that is currently used in SSR marker development. Although 454 pyrosequencing datasets can be used for SSR development, this type of sequencing is no longer supported. This review aims to present an overview of the next generation sequencing, with a focus on the efficient use of de novo transcriptome sequencing (RNA-Seq) and related tools for mining and development of microsatellites in plants.
微卫星或简单重复序列 (SSR) 是植物功能基因组学中应用最广泛、信息量最大的遗传标记之一。然而，利用传统方法发现和开发 SSR 既费力、耗时又昂贵。最近，高通量测序技术的出现使得研究人员能够以比传统方法更少的成本和精力来识别大量的微卫星。Illumina 是一种值得注意的转录组测序技术，目前用于 SSR 标记的开发。虽然 454 焦磷酸测序数据集可用于 SSR 开发，但这种类型的测序已不再受支持。本综述旨在介绍下一代测序技术，并重点介绍从头转录组测序 (RNA-Seq) 的有效利用以及相关工具在植物微卫星挖掘和开发中的应用。
