High-throughput sequencing of small RNA transcriptome reveals salt stress regulated microRNAs in sugarcane.
High-throughput sequencing of small RNA transcriptome reveals salt stress regulated microRNAs in sugarcane.
复制标题
DOI：
10.1371/journal.pone.0059423
复制
发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Ferreira PC
中科院分区：
文献类型：
--
作者：
Carnavale Bottino M;Rosario S;Grativol C;Thiebaut F;Rojas CA;Farrineli L;Hemerly AS;Ferreira PC
盐胁迫是全世界农作物损失的主要原因，它一直是深入研究的主题，以揭示耐盐性的复杂机制。 MicroRNA 参与许多发育过程和对各种非生物胁迫的反应，在植物适应中发挥着关键作用。选择深度测序技术来确定在盐水条件下生长的甘蔗品种的小RNA转录组。我们构建了四个小 RNA 文库，这些文库是由在 170 mM 氯化钠溶液培养中生长的植物制备的，并在 1 小时、6 小时和 24 小时后收获。每个文库均单独测序，总共生成超过 5000 万个短读段。通过生物信息学鉴定出 98 个保守 miRNA 和 33 个 miRNA*。一些 microRNA 在四个文库中表现出相当大的表达差异。为了证实基于生物信息学的分析结果，我们研究了用 170 mM NaCl 处理的植物和用 340 mM NaCl 严格处理的植物中 10 种最丰富的 miRNA 和 1 种 miRNA* 的表达。结果显示，与轻度盐处理的样品相比，11 个选定的 miRNA 在重度盐处理的样品中表达量更高。我们还研究了在 170 mM NaCl 处理的土壤上生长的四个品种芽中相同 miRNA 的调节。可以根据响应盐胁迫的 miRNA 表达对品种进行分组。此外，大多数预测的靶基因与其相应的 microRNA 存在反向调节。这些靶标编码多种蛋白质，包括转录因子、代谢酶和涉及激素信号传导的基因，可能有助于植物发展对盐度的耐受性。我们的工作提供了对 miRNA 调控功能的见解，从而扩展了我们对潜在盐胁迫调控基因的了解。
Salt stress is a primary cause of crop losses worldwide, and it has been the subject of intense investigation to unravel the complex mechanisms responsible for salinity tolerance. MicroRNA is implicated in many developmental processes and in responses to various abiotic stresses, playing pivotal roles in plant adaptation. Deep sequencing technology was chosen to determine the small RNA transcriptome of Saccharum sp cultivars grown on saline conditions. We constructed four small RNAs libraries prepared from plants grown on hydroponic culture submitted to 170 mM NaCl and harvested after 1 h, 6 hs and 24 hs. Each library was sequenced individually and together generated more than 50 million short reads. Ninety-eight conserved miRNAs and 33 miRNAs* were identified by bioinformatics. Several of the microRNA showed considerable differences of expression in the four libraries. To confirm the results of the bioinformatics-based analysis, we studied the expression of the 10 most abundant miRNAs and 1 miRNA* in plants treated with 170 mM NaCl and in plants with a severe treatment of 340 mM NaCl. The results showed that 11 selected miRNAs had higher expression in samples treated with severe salt treatment compared to the mild one. We also investigated the regulation of the same miRNAs in shoots of four cultivars grown on soil treated with 170 mM NaCl. Cultivars could be grouped according to miRNAs expression in response to salt stress. Furthermore, the majority of the predicted target genes had an inverse regulation with their correspondent microRNAs. The targets encode a wide range of proteins, including transcription factors, metabolic enzymes and genes involved in hormone signaling, probably assisting the plants to develop tolerance to salinity. Our work provides insights into the regulatory functions of miRNAs, thereby expanding our knowledge on potential salt-stressed regulated genes.
登录
查看更多内容
影响因子：
3.7
作者：
Fahlgren N;Howell MD;Kasschau KD;Chapman EJ;Sullivan CM;Cumbie JS;Givan SA;Law TF;Grant SR;Dangl JL;Carrington JC
通讯作者：
Carrington JC
影响因子：
7.3
作者：
Liang, MX;Haroldsen, V;Wu, YJ
通讯作者：
Wu, YJ
拟南芥 MIR168a 和 ARGONAUTE1 稳态在脱落酸和非生物胁迫反应中的转录调控
影响因子：
7.4
作者：
Li, Wei;Cui, Xiao;Liang, Wanqi
通讯作者：
Liang, Wanqi
影响因子：
4.3
作者：
Liang, Mingxiang;Davis, Elizabeth;Wu, Yajun
通讯作者：
Wu, Yajun
影响因子：
4
作者：
Gu, RS;Fonseca, S;Pais, MS
通讯作者：
Pais, MS