pre-miRNA profiles obtained through application of locked nucleic acids and deep sequencing reveals complex 5'/3' arm variation including concomitant cleavage and polyuridylation patterns.
pre-miRNA profiles obtained through application of locked nucleic acids and deep sequencing reveals complex 5'/3' arm variation including concomitant cleavage and polyuridylation patterns.
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DOI：
10.1093/nar/gkr903
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发表时间：
2012-02
影响因子：
14.9
通讯作者：
Hayashizaki Y
中科院分区：
文献类型：
--
作者：
Burroughs AM;Kawano M;Ando Y;Daub CO;Hayashizaki Y
最近的研究暗示 pre-miRNA 加工和调控的复杂性被低估了。 pre-miRNA 的全局分析及其增强对 pre-miRNA 景观了解的潜力因与其他非编码 (nc) RNA 的高表达类别重叠而受到阻碍。在这里，我们提出了一个数据集，在通过锁核酸（LNA）测序之前排除了这些 RNA，大大增加了 pre-miRNA 序列计数，而对 pre-miRNA 或成熟 miRNA 测序没有明显影响。对总细胞、核细胞和细胞质细胞组分中产生的谱图的分析表明，pre-miRNA 受到广泛的调控过程的影响，涉及基因座特异性 3'- 和 5'- 末端变异，从而导致复杂的切割模式和同时发生的多尿苷化。此外，对 pre-miRNA 的核富集侧翼序列（特别是那些源自多顺反子 miRNA 转录本的序列）的检查，可以深入了解 miRNA 和 miRNA 偏移 (moRNA) 的产生，特别是识别可能充当 moRNA 前体的新型 RNA 类别。我们的研究结果指出let-7家族在许多方面的特别复杂的调控，让人想起不依赖于DICER1的、类似pre-mir-451的加工，引入新颖且统一已知形式的pre-miRNA调控和加工，并为被忽视的miRNA加工途径的产物提供新的线索。
Recent research hints at an underappreciated complexity in pre-miRNA processing and regulation. Global profiling of pre-miRNA and its potential to increase understanding of the pre-miRNA landscape is impeded by overlap with highly expressed classes of other non coding (nc) RNA. Here, we present a data set excluding these RNA before sequencing through locked nucleic acids (LNA), greatly increasing pre-miRNA sequence counts with no discernable effect on pre-miRNA or mature miRNA sequencing. Analysis of profiles generated in total, nuclear and cytoplasmic cell fractions reveals that pre-miRNAs are subject to a wide range of regulatory processes involving loci-specific 3′- and 5′-end variation entailing complex cleavage patterns with co-occurring polyuridylation. Additionally, examination of nuclear-enriched flanking sequences of pre-miRNA, particularly those derived from polycistronic miRNA transcripts, provides insight into miRNA and miRNA-offset (moRNA) production, specifically identifying novel classes of RNA potentially functioning as moRNA precursors. Our findings point to particularly intricate regulation of the let-7 family in many ways reminiscent of DICER1-independent, pre-mir-451-like processing, introduce novel and unify known forms of pre-miRNA regulation and processing, and shed new light on overlooked products of miRNA processing pathways.
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影响因子：
14.9
作者：
Hamada M;Yamada K;Sato K;Frith MC;Asai K
通讯作者：
Asai K
影响因子：
2.7
作者：
Carninci, P;Nakamura, M;Brownstein, MJ
通讯作者：
Brownstein, MJ
影响因子：
7
作者：
Berezikov, Eugene;Robine, Nicolas;Lai, Eric C.
通讯作者：
Lai, Eric C.
影响因子：
64.5
作者：
Han, Jinju;Lee, Yoontae;Kim, V. Narry
通讯作者：
Kim, V. Narry
影响因子：
10.5
作者：
Babiarz, Joshua E.;Ruby, J. Graham;Blelloch, Robert
通讯作者：
Blelloch, Robert