Genome-wide mapping of polyadenylation sites in fission yeast reveals widespread alternative polyadenylation.
Genome-wide mapping of polyadenylation sites in fission yeast reveals widespread alternative polyadenylation.
复制标题
DOI：
10.4161/rna.25758
复制
发表时间：
2013-08
期刊：
影响因子：
4.1
通讯作者：
Mata J
中科院分区：
文献类型：
--
作者：
Mata J
真核mRNA的3 '非翻译区（UTRs）中的调控元件影响mRNA的定位、翻译和稳定性。3 ' -UTR长度由mrna被切割和聚腺苷化的位置决定。替代聚腺苷化位点的使用是常见的，并且可以在不同的情况下进行调节。我提出了一种在全基因组水平上识别切割和聚腺苷化位点（CSs）的新方法。该方法具有链特异性，避免了可能引入序列特异性偏差的RNA酶修饰步骤，并使用独特的分子标识符来确保所有鉴定的CS来自单个RNA分子。我应用这种方法创建了裂变酵母裂糖酵母（Schizosaccharomyces pombe）的第一个完整的聚腺苷化位点全基因组图谱，包括对定义8,883个CSs的2,021,000个mrna的分析。90%的编码基因和50%的ncrna被鉴定出CSs。选择性多聚腺苷化在两组中普遍存在，分别有41%和45%的检测基因显示不止一个CS。切割反应的特异性是基因特异性的，导致3 ' -UTR长度的异质性高度可变。最后，我表明，无论是编码基因还是非编码基因，在裂变酵母中与CSs相关的最常见的调控基序是典型的人类AAUAAA序列。
Regulatory elements in the 3′ untranslated regions (UTRs) of eukaryotic mRNAs influence mRNA localization, translation, and stability. 3′-UTR length is determined by the location at which mRNAs are cleaved and polyadenylated. The use of alternative polyadenylation sites is common, and can be regulated in different situations. I present a new method to identify cleavage and polyadenylation sites (CSs) at the genome-wide level. The approach is strand-specific, avoids RNA enzymatic modification steps that can introduce sequence-specific biases, and uses unique molecular identifiers to ensure that all identified CS originates from individual RNA molecules. I applied this method to create the first comprehensive genome-wide map of polyadenylation sites of the fission yeast Schizosaccharomyces pombe, comprising the analysis of 2,021,000 individual mRNAs that defined 8,883 CSs. CSs were identified for 90% of coding genes and 50% of ncRNAs. Alternative polyadenylation was prevalent in both groups, with 41% and 45% of all detected genes, respectively, displaying more than one CS. The specificity of the cleavage reaction was gene-specific, resulting in highly variable levels of heterogeneity in 3′-UTR lengths. Finally, I show that for both coding and non-coding genes, the most common regulatory motif associated with CSs in fission yeast is the canonical human AAUAAA sequence.
登录
查看更多内容
影响因子：
16.8
作者：
Sherstnev, Alexander;Duc, Celine;Cole, Christian;Zacharaki, Vasiliki;Hornyik, Csaba;Ozsolak, Fatih;Milos, Patrice M.;Barton, Geoffrey J.;Simpson, Gordon G.
通讯作者：
Simpson, Gordon G.
影响因子：
64.5
作者：
Mayr C;Bartel DP
通讯作者：
Bartel DP
影响因子：
4.5
作者：
Shepard, Peter J.;Choi, Eun-A;Shi, Yongsheng
通讯作者：
Shi, Yongsheng
影响因子：
64.5
作者：
Ozsolak F;Kapranov P;Foissac S;Kim SW;Fishilevich E;Monaghan AP;John B;Milos PM
通讯作者：
Milos PM
DOI：
10.1073/pnas.0900028106
发表时间：
2009-04-28
影响因子：
11.1
作者：
Ji, Zhe;Lee, Ju Youn;Tian, Bin
通讯作者：
Tian, Bin