Deep sequencing on a genome-wide scale reveals diverse stage-specific microRNAs in cambium during dormancy-release induced by chilling in poplar.
Deep sequencing on a genome-wide scale reveals diverse stage-specific microRNAs in cambium during dormancy-release induced by chilling in poplar.
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全基因组范围内的深度测序揭示了杨树低温诱导的休眠释放过程中形成层中多种阶段特异性的 microRNA
DOI：
10.1186/s12870-014-0267-6
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发表时间：
2014-10-01
影响因子：
5.3
通讯作者：
He XQ
中科院分区：
文献类型：
--
作者：
Ding Q;Zeng J;He XQ
温带树木表现出周期性，通过活跃和休眠状态交替来适应环境条件。虽然发现植物激素和转录调控参与了生长停止和休眠转变，但对休眠-主动生长转变的机制，特别是休眠维持和释放的机制知之甚少。小rna是一组短的非编码rna，在植物发育和对环境胁迫的反应中，在转录后水平调控基因表达。目前还没有关于形成层分生组织中小rna在休眠-活跃生长转变过程中的表达谱的报道。结果从杨树形成层中获得3个小RNA文库，分别代表短日照诱导的内休眠、低温诱导的生态休眠和长日照诱导的活跃生长，并利用Illumina高通量测序技术进行了测序。这产生了123个已知的具有显著表达变化的microrna (mirna)，其中包括与发育、植物激素和应激相关的mirna。有趣的是，miR156和miR172在形成层休眠-活跃生长转变中表现出相反的表达模式。此外，参与生长素信号通路的miR160在低温释放内休眠过程中特异性表达。此外，在形成层区发现了275个新的mirna，其中34个具有高检测频率和独特的表达模式。最后，对这些新mirna的靶基因进行了预测，其中一些通过5'RACE进行了实验验证。结论我们的研究结果在全基因组水平上全面分析了形成层分生组织中休眠释放过程中的小rna，并提供了参与这一生物学过程调控的mirna的新证据。
BackgroundTrees in temperate zones show periodicity by alternating active and dormant states to adapt to environmental conditions. Although phytohormones and transcriptional regulation were found to be involved in growth cessation and dormancy transition, little is known about the mechanisms of the dormancy-active growth transition, especially dormancy maintenance and release. Small RNAs are a group of short non-coding RNAs regulating gene expressions at the post-transcriptional level during plant development and the responses to environmental stress. No report on the expression profiling of small RNAs in the cambial meristem during the dormancy-active growth transition has been reported to date.ResultsThree small RNA libraries from the cambium of poplar, representing endodormancy induced by short day conditions, ecodormancy induced by chilling and active growth induced by long day conditions, respectively, were generated and sequenced by Illumina high-throughput sequencing technology. This yielded 123 known microRNAs (miRNAs) with significant expression changes, which included developmental-, phytohormone- and stress-related miRNAs. Interestingly, miR156 and miR172 showed opposite expression patterns in the cambial dormancy-active growth transition. Additionally, miR160, which is involved in the auxin signaling pathway, was expressed specifically during endodormancy release by chilling. Furthermore, 275 novel miRNAs expressed in the cambial zone were identified, and 34 of them had high detection frequencies and unique expression patterns. Finally, the target genes of these novel miRNAs were predicted and some were validated experimentally by 5′RACE.ConclusionsOur results provided a comprehensive analysis of small RNAs in the cambial meristem during dormancy-release at the genome-wide level and novel evidence of miRNAs involved in the regulation of this biological process.
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影响因子：
56.9
作者：
Böhlenius, H;Huang, T;Nilsson, O
通讯作者：
Nilsson, O
Mirbase：MicroRNA基因组学的工具。
影响因子：
14.9
作者：
Griffiths-Jones, Sam;Saini, Harpreet Kaur;van Dongen, Stijn;Enright, Anton J.
通讯作者：
Enright, Anton J.
影响因子：
2.7
作者：
Donnelly, PM;Bonetta, D;Dengler, NG
通讯作者：
Dengler, NG
影响因子：
30.8
作者：
Chuck, George;Cigan, A. Mark;Hake, Sarah
通讯作者：
Hake, Sarah
DOI：
10.1016/j.bbrc.2011.12.070
发表时间：
2012-01-13
影响因子：
3.1
作者：
Chen, Lei;Zhang, Yiyun;Wang, Yanwei
通讯作者：
Wang, Yanwei