Identification of novel miRNAs from drought tolerant rice variety Nagina 22.
Identification of novel miRNAs from drought tolerant rice variety Nagina 22.
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DOI：
10.1038/srep30786
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发表时间：
2016-08-08
影响因子：
4.6
通讯作者：
Raghuvanshi S
中科院分区：
文献类型：
--
作者：
Mutum RD;Kumar S;Balyan S;Kansal S;Mathur S;Raghuvanshi S
微小RNA调节植物和动物的一系列发育和生化过程。因此，了解整个miRNome对于理解任何生物体的完整调控模式至关重要。目前的研究试图解开水稻中尚未发现的miRNA基因。对来自耐旱水稻品种纳吉纳22（N22）不同组织的小RNA文库的分析鉴定出71个新的miRNAs。这些基于前体发夹结构、小RNA作图模式、“星星”序列、基于降解组数据的靶点的保守性和鉴定进行了验证。虽然一些新的miRNA在其他单子叶植物和双子叶植物中是保守的，但大多数似乎是谱系特异性的。基于与经典miRNA定义的接近程度，将它们分为两个不同的类别。有趣的是，即使对于超出经典定义的miRNA，也发现了miRNA样切割的证据。几种新的miRNA显示组织富集和/或干旱响应表达。从N22沿着的degradome数据的生成和分析与公开可用的degradome一起鉴定了涉及基本过程（如开花和胁迫响应）的调节的几个高置信度靶标。因此，这些新的miRNAs的发现大大扩展了水稻中miRNAs介导的调控的维度。
MicroRNAs regulate a spectrum of developmental and biochemical processes in plants and animals. Thus, knowledge of the entire miRNome is essential to understand the complete regulatory schema of any organism. The current study attempts to unravel yet undiscovered miRNA genes in rice. Analysis of small RNA libraries from various tissues of drought-tolerant ‘aus’ rice variety Nagina 22 (N22) identified 71 novel miRNAs. These were validated based on precursor hairpin structure, small RNA mapping pattern, ‘star’ sequence, conservation and identification of targets based on degradome data. While some novel miRNAs were conserved in other monocots and dicots, most appear to be lineage-specific. They were segregated into two different classes based on the closeness to the classical miRNA definition. Interestingly, evidence of a miRNA-like cleavage was found even for miRNAs that lie beyond the classical definition. Several novel miRNAs displayed tissue-enriched and/or drought responsive expression. Generation and analysis of the degradome data from N22 along with publicly available degradome identified several high confidence targets implicated in regulation of fundamental processes such as flowering and stress response. Thus, discovery of these novel miRNAs considerably expands the dimension of the miRNA-mediated regulation in rice.