Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3' trailers.
Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3' trailers.
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DOI：
10.1371/journal.pone.0010563
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发表时间：
2010-05-14
期刊：
影响因子：
3.7
通讯作者：
Qu LH
中科院分区：
文献类型：
--
作者：
Liao JY;Ma LM;Guo YH;Zhang YC;Zhou H;Shao P;Chen YQ;Qu LH
MicroRNA（miRNAs）是一类长度为22个核苷酸的非编码小分子调控RNA，通常被认为在转录后水平调控细胞质中基因的表达。然而，最近的研究报道，一些miRNA定位于细胞核并在细胞核中发挥作用。为了确定定位于细胞核的miRNA的数量，我们通过对来自人类细胞的18- 30个核苷酸sRNA的细胞核和细胞质池进行独立的深度测序，系统地研究了小RNA（sRNA）的亚细胞分布。我们鉴定了339个细胞核和324个细胞质已知的miRNAs，其中300个重叠，这表明大多数miRNAs被导入细胞核。除了少数miRNA明显富集在细胞核库中，如mir-29 b外，细胞核部分与细胞质部分中的miRNA丰度比在一定程度上变化。此外，我们的研究结果表明，大量的tRNA 3′末端从细胞核中输出，并积累在细胞质中。这些tRNA 3′-trailers在多种细胞类型中积累，这意味着tRNA 3′-trailers的生物发生是保守的，并且它们在脊椎动物细胞中具有潜在的功能作用。我们的研究结果提供了第一个不同sRNA亚细胞分布的全面视图，并对细胞中miRNA和tRNA 3′ trailers的作用提供了新的见解。
MicroRNAs (miRNAs) are ∼22-nt small non-coding regulatory RNAs that have generally been considered to regulate gene expression at the post-transcriptional level in the cytoplasm. However, recent studies have reported that some miRNAs localize to and function in the nucleus. To determine the number of miRNAs localized to the nucleus, we systematically investigated the subcellular distribution of small RNAs (sRNAs) by independent deep sequencing sequenced of the nuclear and cytoplasmic pools of 18- to 30-nucleotide sRNAs from human cells. We identified 339 nuclear and 324 cytoplasmic known miRNAs, 300 of which overlap, suggesting that the majority of miRNAs are imported into the nucleus. With the exception of a few miRNAs evidently enriched in the nuclear pool, such as the mir-29b, the ratio of miRNA abundances in the nuclear fraction versus in the cytoplasmic fraction vary to some extent. Moreover, our results revealed that a large number of tRNA 3′trailers are exported from the nucleus and accumulate in the cytoplasm. These tRNA 3′ trailers accumulate in a variety of cell types, implying that the biogenesis of tRNA 3′ trailers is conserved and that they have a potential functional role in vertebrate cells. Our results provide the first comprehensive view of the subcellular distribution of diverse sRNAs and new insights into the roles of miRNAs and tRNA 3′ trailers in the cell.
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DOI：
10.1073/pnas.0808830105
发表时间：
2008-10-21
影响因子：
11.1
作者：
Kim, Daniel H.;Saetrom, Pal;Rossi, John J.
通讯作者：
Rossi, John J.
影响因子：
1.8
作者：
HOFACKER, IL;FONTANA, W;SCHUSTER, P
通讯作者：
SCHUSTER, P
影响因子：
16.8
作者：
Janowski, Bethany A.;Huffman, Kenneth E.;Corey, David R.
通讯作者：
Corey, David R.
DOI：
10.1126/science.1157647
发表时间：
2008-07-25
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Guang S;Bochner AF;Pavelec DM;Burkhart KB;Harding S;Lachowiec J;Kennedy S
通讯作者：
Kennedy S
DOI：
10.1073/pnas.0800334105
发表时间：
2008-06-10
影响因子：
11.1
作者：
Azuma-Mukai, Asuka;Oguri, Hideo;Siomi, Mikiko C.
通讯作者：
Siomi, Mikiko C.