Abundant and dynamically expressed miRNAs, piRNAs, and other small RNAs in the vertebrate Xenopus tropicalis
Abundant and dynamically expressed miRNAs, piRNAs, and other small RNAs in the vertebrate Xenopus tropicalis
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DOI：
10.1101/gr.093054.109
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发表时间：
2009-10-01
期刊：
影响因子：
7
通讯作者：
Miska, Eric A.
中科院分区：
文献类型：
--
作者：
Armisen, Javier;Gilchrist, Michael J.;Miska, Eric A.
最近，小型调控RNA已成为真核基因表达的关键调控因子。在这里，我们使用高通量测序来确定非洲爪蛙生殖系和胞体中的小RNA种群。我们鉴定了一些在雌性生殖系中表达的miRNAs。MiRNA表达谱显示miR-202-5p是一种卵母细胞丰富的miRNA。我们鉴定了两个在胞体中表达的新miRNAs。此外，我们还对大量的Piwi相关RNAs(PiRNAs)和其他内源小RNA进行了测序，可能代表了内源siRNAs(Endo-siRNAs)。其中，只有piRNAs被限制在生殖系中，这表明在脊椎动物soma中，endo-siRNAs是一类丰富的小RNA。在种系中，内源小RNA和pIRNA都定位到许多高拷贝数的基因座上。此外，内源小RNA在胞体和胚系中都映射到相同的重复元件的特定子集，这表明这些RNA可能起到沉默两个隔室中重复元件的作用。这里提供的数据表明miRNAs在脊椎动物种系中具有保守的作用。此外，本研究还为一个重要的脊椎动物模型系统中的小调控RNA的功能分析提供了基础。
Small regulatory RNAs have recently emerged as key regulators of eukaryotic gene expression. Here we used high-throughput sequencing to determine small RNA populations in the germline and soma of the African clawed frog Xenopus tropicalis. We identified a number of miRNAs that were expressed in the female germline. miRNA expression profiling revealed that miR-202-5p is an oocyte-enriched miRNA. We identified two novel miRNAs that were expressed in the soma. In addition, we sequenced large numbers of Piwi-associated RNAs (piRNAs) and other endogenous small RNAs, likely representing endogenous siRNAs (endo-siRNAs). Of these, only piRNAs were restricted to the germline, suggesting that endo-siRNAs are an abundant class of small RNAs in the vertebrate soma. In the germline, both endogenous small RNAs and piRNAs mapped to many high copy number loci. Furthermore, endogenous small RNAs mapped to the same specific subsets of repetitive elements in both the soma and the germline, suggesting that these RNAs might act to silence repetitive elements in both compartments. Data presented here suggest a conserved role for miRNAs in the vertebrate germline. Furthermore, this study provides a basis for the functional analysis of small regulatory RNAs in an important vertebrate model system.