Massive Analysis of Rice Small RNAs: Mechanistic Implications of Regulated MicroRNAs and Variants for Differential Target RNA Cleavage
Massive Analysis of Rice Small RNAs: Mechanistic Implications of Regulated MicroRNAs and Variants for Differential Target RNA Cleavage
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DOI：
10.1105/tpc.111.089045
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发表时间：
2011-12-01
期刊：
影响因子：
11.6
通讯作者：
Green, Pamela J.
中科院分区：
文献类型：
--
作者：
Jeong, Dong-Hoon;Park, Sunhee;Green, Pamela J.
小分子RNA在植物发育、胁迫反应和其他过程中具有多种重要作用。它们通过引导mRNA切割、翻译抑制和染色质修饰来发挥其影响。为了鉴定先前未知的水稻（Oryza sativa）microRNAs（miRNAs）和受环境胁迫调控的miRNAs，从水稻植物中构建了62个小RNA文库，并使用Illumina技术进行深度测序。文库代表来自对照植物和经受不同环境胁迫处理的植物的几种组织。获得了超过9400万个基因组匹配的读数，产生了超过1600万个不同的小RNA序列。这允许用当前标准评估类似于400个注释的miRNA，并且发现其中类似于150个具有小干扰RNA样特征。发现了76个新的miRNAs，并鉴定了响应水分胁迫、营养胁迫或温度胁迫的miRNAs。在miRNA调控的新例子中，有相同miRNA家族的成员在不同器官中受到差异性调控，并且具有不同的序列。这些不同的家族成员中的一些导致差异性靶切割，并提供了关于如何在穗中调控农业上重要的水稻表型的新见解。水稻miRNAs的这种高分辨率分析应该与一般植物miRNAs相关，特别是在禾本科中。
Small RNAs have a variety of important roles in plant development, stress responses, and other processes. They exert their influence by guiding mRNA cleavage, translational repression, and chromatin modification. To identify previously unknown rice (Oryza sativa) microRNAs (miRNAs) and those regulated by environmental stress, 62 small RNA libraries were constructed from rice plants and used for deep sequencing with Illumina technology. The libraries represent several tissues from control plants and plants subjected to different environmental stress treatments. More than 94 million genome-matched reads were obtained, resulting in more than 16 million distinct small RNA sequences. This allowed an evaluation of similar to 400 annotated miRNAs with current criteria and the finding that among these, similar to 150 had small interfering RNA-like characteristics. Seventy-six new miRNAs were found, and miRNAs regulated in response to water stress, nutrient stress, or temperature stress were identified. Among the new examples of miRNA regulation were members of the same miRNA family that were differentially regulated in different organs and had distinct sequences Some of these distinct family members result in differential target cleavage and provide new insight about how an agriculturally important rice phenotype could be regulated in the panicle. This high-resolution analysis of rice miRNAs should be relevant to plant miRNAs in general, particularly in the Poaceae.