Ultra-deep sequencing of ribosome-associated poly-adenylated RNA in early Drosophila embryos reveals hundreds of conserved translated sORFs.
Ultra-deep sequencing of ribosome-associated poly-adenylated RNA in early Drosophila embryos reveals hundreds of conserved translated sORFs.
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对早期果蝇胚胎中核糖体相关聚腺苷酸 RNA 的超深度测序揭示了数百个保守的翻译 sORF
DOI：
10.1093/dnares/dsw040
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发表时间：
2016-12
期刊：
影响因子：
--
通讯作者：
Shao Z
中科院分区：
文献类型：
--
作者：
Li H;Hu C;Bai L;Li H;Li M;Zhao X;Czajkowsky DM;Shao Z
越来越多的人认识到编码短于100个氨基酸的肽的小开放阅读框（sORF）是真核基因组中一类重要的功能元件，其中几个已经被鉴定为在生长、发育和疾病中起关键作用。然而，由于限制其注释的重大技术挑战，我们对其生物学重要性的理解受到阻碍。在这里，我们将核糖体相关多聚腺苷酸化RNA的超深度测序与严格的保守性分析相结合，以确定在早期果蝇胚胎发育过程中翻译的sORF的全面群体。总共，我们确定了399个sORF，包括那些以前注释，但没有翻译能力的证据，那些发现在转录本以前归类为非编码，和那些以前不知道被转录。此外，我们发现，第一次，翻译的许多sORF与不同的亚型的证据，表明他们的监管是复杂的较长的ORF。此外，许多sORFs被发现不与核糖体在后期果蝇S2细胞，这表明许多翻译的sORFs可能有阶段特异性的功能在胚胎发生。因此，这些结果提供了第一个全面的注释的sORFs存在于早期果蝇胚胎发育，一个必要的基础，详细描绘其功能在胚胎发育和其他生物过程。
There is growing recognition that small open reading frames (sORFs) encoding peptides shorter than 100 amino acids are an important class of functional elements in the eukaryotic genome, with several already identified to play critical roles in growth, development, and disease. However, our understanding of their biological importance has been hindered owing to the significant technical challenges limiting their annotation. Here we combined ultra-deep sequencing of ribosome-associated poly-adenylated RNAs with rigorous conservation analysis to identify a comprehensive population of translated sORFs during early Drosophila embryogenesis. In total, we identify 399 sORFs, including those previously annotated but without evidence of translational capacity, those found within transcripts previously classified as non-coding, and those not previously known to be transcribed. Further, we find, for the first time, evidence for translation of many sORFs with different isoforms, suggesting their regulation is as complex as longer ORFs. Furthermore, many sORFs are found not associated with ribosomes in late-stage Drosophila S2 cells, suggesting that many of the translated sORFs may have stage-specific functions during embryogenesis. These results thus provide the first comprehensive annotation of the sORFs present during early Drosophila embryogenesis, a necessary basis for a detailed delineation of their function in embryogenesis and other biological processes.
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核糖体分析揭示了果蝇果蝇中普遍存在的终止密码子读取。
影响因子：
7.7
作者：
Dunn JG;Foo CK;Belletier NG;Gavis ER;Weissman JS
通讯作者：
Weissman JS
DOI：
10.4161/trla.28387
发表时间：
2014
期刊：
Translation (Austin, Tex.)
影响因子：
--
作者：
Asano K
通讯作者：
Asano K
影响因子：
56.9
作者：
Cheng, J;Kapranov, P;Gingeras, TR
通讯作者：
Gingeras, TR
影响因子：
64.8
作者：
通讯作者：
--
影响因子：
64.8
作者：
Carrieri, Claudia;Cimatti, Laura;Gustincich, Stefano
通讯作者：
Gustincich, Stefano