Small RNA and PARE sequencing in flower bud reveal the involvement of sRNAs in endodormancy release of Japanese pear (Pyrus pyrifolia 'Kosui').
Small RNA and PARE sequencing in flower bud reveal the involvement of sRNAs in endodormancy release of Japanese pear (Pyrus pyrifolia 'Kosui').
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DOI：
10.1186/s12864-016-2514-8
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发表时间：
2016-03-15
期刊：
影响因子：
4.4
通讯作者：
Moriguchi T
中科院分区：
文献类型：
--
作者：
Bai S;Saito T;Ito A;Tuan PA;Xu Y;Teng Y;Moriguchi T
在多年生木本植物中，包括落叶果树，如梨，内休眠是一种生存寒冷冬季的策略。更好地了解内休眠相变的机制对于制定应对全球变暖影响的对策是必要的。本研究采用RNA-seq和降解组测序技术，分析了两个季节日本梨花在休眠期和生态期花蕾的sRNAome。我们鉴定了137个保守或不太保守的mirna和50个梨特异性mirna。然而，保守的microrna和梨特异的microrna在内休眠和生态休眠阶段没有差异表达。相比之下，在218050个产生srna的位点中，有1540个位点在内休眠和生态休眠之间存在差异表达，这表明它们可能在内休眠到生态优势的过渡过程中发挥作用。我们还鉴定了一个多功能miRNA前体MIR168，它产生两个功能性MIR168转录物，即miR168.1和miR168.2；切割事件主要由非保守变异miR168.2介导，而非保守变异miR168.1介导。最后，通过对分阶段siRNA位点的分析，我们发现TAS3反式siRNA在其靶基因之一生长素反应因子4的ORF内触发分阶段siRNA，表明siRNA能够在梨中触发分阶段siRNA。分析了梨花蕾在休眠阶段的sRNAome。我们的工作描述了梨冬芽在休眠阶段转变的sRNA谱，表明休眠释放是一个高度协调的生理过程，涉及sRNA的调节。本文的在线版本（doi:10.1186/s12864-016-2514-8）包含补充材料，可供授权用户使用。
In woody perennial plants, including deciduous fruit trees, such as pear, endodormancy is a strategy for surviving the cold winter. A better understanding of the mechanism underlying the endodormancy phase transition is necessary for developing countermeasures against the effects of global warming. In this study, we analyzed the sRNAome of Japanese pear flower buds in endodormant and ecodormant stages over two seasons by implementing of RNA-seq and degradome-sequencing. We identified 137 conserved or less conserved miRNAs and 50 pear-specific miRNAs. However, none of the conserved microRNAs or pear-specific miRNAs was differentially expressed between endodormancy and ecodormancy stages. On the contrast, 1540 of 218,050 loci that produced sRNAs were differentially expressed between endodormancy and ecodormancy, suggesting their potential roles on the phase transition from endodormancy to ecodomancy. We also characterized a multifunctional miRNA precursor MIR168, which produces two functional miR168 transcripts, namely miR168.1 and miR168.2; cleavage events were predominantly mediated by the non-conserved variant miR168.2 rather than the conserved variant miR168.1. Finally, we showed that a TAS3 trans-acting siRNA triggered phased siRNA within the ORF of one of its target genes, AUXIN RESPONSE FACTOR 4, via the analysis of phased siRNA loci, indicating that siRNAs are able to trigger phased siRNAs in pear. We analyzed the sRNAome of pear flower bud during dormant phase transition. Our work described the sRNA profiles of pear winter buds during dormant phase transition, showing that dormancy release is a highly coordinated physiological process involving the regulation of sRNAs. The online version of this article (doi:10.1186/s12864-016-2514-8) contains supplementary material, which is available to authorized users.