MicroRNAs in Amoebozoa: Deep sequencing of the small RNA population in the social amoeba Dictyostelium discoideum reveals developmentally regulated microRNAs
MicroRNAs in Amoebozoa: Deep sequencing of the small RNA population in the social amoeba Dictyostelium discoideum reveals developmentally regulated microRNAs
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DOI：
10.1261/rna.033175.112
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发表时间：
2012-10-01
期刊：
影响因子：
4.5
通讯作者：
Soderbom, Fredrik
中科院分区：
文献类型：
--
作者：
Avesson, Lotta;Reimegard, Johan;Soderbom, Fredrik
自从原核生物发散以来，RNA干扰机制一直是真核基因组的监护人。尽管基本组件具有共同的起源，但小型RNA指导的沉默途径在不同的真核谱系的不同方向上演变出来。微（MI）RNA调节蛋白质编码基因并在动植物中起着至关重要的作用，但对它们在其他生物中的功能知之甚少。在这里，我们首次报道了社交变形虫迪斯特尔迪斯特尔的小型RNA的深入测序。测序了生长的单细胞变形虫以及两个多细胞发育阶段的RNA。计算分析结合实验数据揭示了miRNA的表达，其中一些在发育过程中表现出不同的表达模式。据我们所知，这是Amoebozoa超级组中miRNA的第一份报告。我们还表明，过表达的miRNA前体会产生miRNA，在大多数情况下，miRNA*序列的生物发生取决于丁香样蛋白DRNB，进一步支持D. discoideum中miRNA的存在。此外，我们发现从源自内含子以及一类重复元素的发夹结构中处理的miRNA。我们认为，这些重复的元素是新进化的miRNA的来源。
The RNA interference machinery has served as a guardian of eukaryotic genomes since the divergence from prokaryotes. Although the basic components have a shared origin, silencing pathways directed by small RNAs have evolved in diverse directions in different eukaryotic lineages. Micro (mi)RNAs regulate protein-coding genes and play vital roles in plants and animals, but less is known about their functions in other organisms. Here, we report, for the first time, deep sequencing of small RNAs from the social amoeba Dictyostelium discoideum. RNA from growing single-cell amoebae as well as from two multicellular developmental stages was sequenced. Computational analyses combined with experimental data reveal the expression of miRNAs, several of them exhibiting distinct expression patterns during development. To our knowledge, this is the first report of miRNAs in the Amoebozoa supergroup. We also show that overexpressed miRNA precursors generate miRNAs and, in most cases, miRNA* sequences, whose biogenesis is dependent on the Dicer-like protein DrnB, further supporting the presence of miRNAs in D. discoideum. In addition, we find miRNAs processed from hairpin structures originating from an intron as well as from a class of repetitive elements. We believe that these repetitive elements are sources for newly evolved miRNAs.