Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous Region (Guizhou University), Ministry of Education, Institute of Agro-bioengineering/College of Life Sciences, Guizhou University, Guiyang, 550025, Guizhou Province, P. R. China.
Centre for Bioinformatics Research, SRKR Engineering College, Chinna Amiram, Bhimavaram, West Godavari District, Andhra Pradesh, 534204, India.
Sci Rep. 2019 Feb 5;9(1):1406. doi: 10.1038/s41598-019-38932-w.
Plants have an amazing ability to cope with wide variety of stresses by regulating the expression of genes and thus by altering the physiological status. In the past few years, canonical microRNA variants (isomiRs) have been shown to play pivotal roles by acting as regulators of the transcriptional machinery. In the present research, we present Diff isomiRs, a web-based exploratory repository of differential isomiRs across 16 sequenced plant species representing a total of 433 datasets across 21 different stresses and 158 experimental states. Diff isomiRs provides the high-throughput detection of differential isomiRs using mapping-based and model-based differential analysis revealing a total of 16,157 and 2,028 differential isomiRs, respectively. Easy-to-use and web-based exploration of differential isomiRs provides several features such as browsing of the differential isomiRs according to stress or species, as well as association of the differential isomiRs to targets and plant endogenous target mimics (PeTMs). Diff isomiRs also provides the relationship between the canonical miRNAs, isomiRs and the miRNA-target interactions. This is the first web-based large-scale repository for browsing differential isomiRs and will facilitate better understanding of the regulatory role of the isomiRs with respect to the canonical microRNAs. Diff isomiRs can be accessed at: www.mcr.org.in/diffisomirs .
植物具有通过调节基因表达从而改变生理状态来应对各种压力的惊人能力。在过去的几年中，已证实规范的 microRNA 变体（isomiRs）通过作为转录机制的调节剂发挥着关键作用。在本研究中，我们提出了 Diff isomiRs，这是一个基于网络的探索性知识库，用于在 16 个已测序的植物物种中研究差异 isomiRs，这些物种共代表了 21 种不同胁迫和 158 种实验状态的 433 个数据集。Diff isomiRs 使用基于映射和基于模型的差异分析来进行高通量差异 isomiRs 的检测，分别揭示了总共 16157 个和 2028 个差异 isomiRs。易于使用且基于网络的差异 isomiRs 探索提供了许多功能，例如根据应激或物种浏览差异 isomiRs，以及将差异 isomiRs 与靶标和植物内源性靶标模拟物（PeTMs）关联。Diff isomiRs 还提供了规范的 miRNAs、isomiRs 和 miRNA 靶标相互作用之间的关系。这是第一个基于网络的大规模浏览差异 isomiRs 的知识库，将有助于更好地理解 isomiRs 相对于规范 microRNAs 的调节作用。可以在：www.mcr.org.in/diffisomirs 访问 Diff isomiRs。
