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Investigation into the miRNA/5' isomiRNAs function and drought-mediated miRNA processing in rice.
Functional & Integrative Genomics ( IF 2.9 ) Pub Date : 2020-01-10 , DOI: 10.1007/s10142-020-00731-2
Sonia Balyan 1 , Shaji V Joseph 1 , Rashmi Jain 1 , Roseeta Devi Mutum 1 , Saurabh Raghuvanshi 1
Affiliation  

MicroRNAs lie at the core of biological regulatory networks in plants. The recent discovery of isomiRs that are length variants of the annotated mature miRNAs has further unveiled the complexity of miRNome. Delineation of their functional relevance is critical to understand the complete functional spectrum of the miRNome. To apprehend the role of 5′ isomiRs in rice, we performed a comprehensive analysis of the annotated miRNA pool using 8 deep-sequencing datasets from flag leaf and spikelet tissues from two cultivars of rice viz. N22 and PB1 grown under control and drought conditions. The products of the 5′ start site variability termed as “5' isomiRs” were found to be widespread in all the datasets. It was possible to identify several 5′ isomiRs that were highly distinct and abundant and supported by more than 90% of the tags that map in the region. Majority of miRNA/5′ isomiR pair share similar tissue and drought-mediated expression dynamics. Analysis of the degradome data identified targets for several of these 5′ isomiRs, thereby confirming their biological activity. Since the isomiRs are length variants at the 5′ end, the target sites were found to be accordingly shifted as compared to the target site of the annotated miRNA. Further we also observed that drought affects the processing accuracy of several miRNAs across all tissues of both the cultivars leading to differential accumulation of 5′ isomiR/miRNA pair.

中文翻译:

对水稻中miRNA / 5'isomiRNA功能和干旱介导的miRNA加工的研究。

MicroRNA位于植物生物调控网络的核心。作为已注释的成熟miRNA长度变异体的isomiRs的最新发现进一步揭示了miRNome的复杂性。描绘它们的功能相关性对于理解miRNome的完整功能范围至关重要。为了了解5'isomiRs在水稻中的作用,我们使用来自两个水稻品种的旗叶和小穗组织的8个深度测序数据集对带注释的miRNA库进行了全面分析。N22和PB1在控制和干旱条件下生长。5'起始位点变异性的乘积称为“ 5 发现isomiRs在所有数据集中都很普遍。可以确定几个高度不同和丰富的5'异构体,并由该区域90%以上的标签支持。大多数miRNA / 5'isomiR对具有相似的组织和干旱介导的表达动力学。对降解组数据的分析确定了这些5'异构体中的几个的靶标,从而证实了它们的生物学活性。由于isomiR是5'端的长度变异体,因此与注释的miRNA的靶位点相比,靶位点被相应地移位。此外,我们还观察到干旱影响两个品种所有组织中几个miRNA的加工精度,导致5'isomiR / miRNA对差异积累。
更新日期:2020-01-10
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