Identification of drought-responsive and novel Populus trichocarpa microRNAs by high-throughput sequencing and their targets using degradome analysis.
Identification of drought-responsive and novel Populus trichocarpa microRNAs by high-throughput sequencing and their targets using degradome analysis.
复制标题
通过高通量测序鉴定干旱响应和新型毛果杨 microRNA 及其使用降解组分析的靶标
DOI：
10.1186/1471-2164-14-233
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发表时间：
2013-04-09
期刊：
影响因子：
4.4
通讯作者：
Xia X
中科院分区：
文献类型：
--
作者：
Shuai P;Liang D;Zhang Z;Yin W;Xia X
背景
MicroRNA (miRNA) 是内源性小 RNA (sRNA)，在植物发育和胁迫反应中具有广泛的调节功能。尽管已经研究了与植物耐旱性相关的 miRNA，但使用高通量测序可以更深入地了解 miRNA。干旱是限制植物生长的常见胁迫。为了更深入地了解 miRNA 在干旱胁迫中的作用，对毛果杨 sRNA 进行了 Illumina 测序。
结果
通过杨树叶片对照和干旱胁迫处理的测序数据构建了两个 sRNA 文库。从两个 sRNA 文库中总共检测到 207 个毛果松保守 miRNA。此外，还发现了274个潜在的候选miRNA；其中，65个具有星号序列的候选者被选为新颖的miRNA。九个保守的 miRNA 和三个新的 miRNA 的表达在干旱胁迫下表现出显着的变化。这也通过定量实时聚合酶链式反应实验得到证实。为了通过实验确认 miRNA 的靶标，构建了两种处理的两个降解组文库。根据降解组测序结果，分别鉴定出 53 个和 19 个基因作为保守 miRNA 和新 miRNA 的靶标。这些 miRNA 靶点的功能分析表明它们参与重要的活动，例如转录因子的调节、应激反应和脂质代谢。
结论
我们发现了响应干旱胁迫的 5 个上调 miRNA 和 7 个下调 miRNA。通过降解组测序共检测到72个相关靶基因。这些发现揭示了毛果松中miRNA调控机制的重要信息，并促进了对干旱响应过程中miRNA功能的理解。
Background
MicroRNAs (miRNAs) are endogenous small RNAs (sRNAs) with a wide range of regulatory functions in plant development and stress responses. Although miRNAs associated with plant drought stress tolerance have been studied, the use of high-throughput sequencing can provide a much deeper understanding of miRNAs. Drought is a common stress that limits the growth of plants. To obtain more insight into the role of miRNAs in drought stress, Illumina sequencing of Populus trichocarpa sRNAs was implemented.
Results
Two sRNA libraries were constructed by sequencing data of control and drought stress treatments of poplar leaves. In total, 207 P. trichocarpa conserved miRNAs were detected from the two sRNA libraries. In addition, 274 potential candidate miRNAs were found; among them, 65 candidates with star sequences were chosen as novel miRNAs. The expression of nine conserved miRNA and three novel miRNAs showed notable changes in response to drought stress. This was also confirmed by quantitative real time polymerase chain reaction experiments. To confirm the targets of miRNAs experimentally, two degradome libraries from the two treatments were constructed. According to degradome sequencing results, 53 and 19 genes were identified as targets of conserved and new miRNAs, respectively. Functional analysis of these miRNA targets indicated that they are involved in important activities such as the regulation of transcription factors, the stress response, and lipid metabolism.
Conclusions
We discovered five upregulated miRNAs and seven downregulated miRNAs in response to drought stress. A total of 72 related target genes were detected by degradome sequencing. These findings reveal important information about the regulation mechanism of miRNAs in P. trichocarpa and promote the understanding of miRNA functions during the drought response.
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影响因子：
3.7
作者：
Ferreira TH;Gentile A;Vilela RD;Costa GG;Dias LI;Endres L;Menossi M
通讯作者：
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影响因子：
9.2
作者：
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通讯作者：
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影响因子：
9.4
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通讯作者：
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影响因子：
5.8
作者：
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通讯作者：
Axtell, Michael J.
影响因子：
4
作者：
Bacelar, EA;Correia, CM;Torres-Pereira, JMG
通讯作者：
Torres-Pereira, JMG