MirGeneDB 2.0: the metazoan microRNA complement
MirGeneDB 2.0: the metazoan microRNA complement
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DOI：
10.1093/nar/gkz885
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发表时间：
2020-01-08
影响因子：
14.9
通讯作者：
Peterson, Kevin J.
中科院分区：
文献类型：
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作者：
Fromm, Bastian;Domanska, Diana;Peterson, Kevin J.
小非编码 RNA 由于其在动物发育和人类疾病中的作用而受到广泛关注。其中，microRNA 很特殊，因为单个基因序列在整个动物界都是保守的。此外，独特且机制上易于理解的特征可以清楚地区分真正的 miRNA 与细胞产生的无数其他小 RNA。然而，进行这种区分并不常见，因此，可用 miRNA 互补物的异质性已成为 microRNA 研究的主要关注点，这一点并不奇怪。为了解决这个问题，我们将我们精心策划的 microRNA 基因数据库 - MirGeneDB - 广泛扩展到 45 个生物体，涵盖了动物进化的广泛系统发育范围。通过对这些生物体中的 10,899 个 microRNA 基因进行一致注释和命名，我们发现以前的 microRNA 注释不仅包含许多误报，而且令人惊讶的是缺乏超过 2000 个真正的 microRNA。事实上，密切相关的生物体的 microRNA 互补体非常相似，可用于重建祖先 miRNA 库。 MirGeneDB 代表了基于 microRNA 的研究的强大平台，为 miRNA 的生物学和进化以及生物医学和生物标志物研究提供了更深入、更重要的见解。
Small non-coding RNAs have gained substantial attention due to their roles in animal development and human disorders. Among them, microRNAs are special because individual gene sequences are conserved across the animal kingdom. In addition, unique and mechanistically well understood features can clearly distinguish bona fide miRNAs from the myriad other small RNAs generated by cells. However, making this distinction is not a common practice and, thus, not surprisingly, the heterogeneous quality of available miRNA complements has become a major concern in microRNA research. We addressed this by extensively expanding our curated microRNA gene database - MirGeneDB - to 45 organisms, encompassing a wide phylogenetic swath of animal evolution. By consistently annotating and naming 10,899 microRNA genes in these organisms, we show that previous microRNA annotations contained not only many false positives, but surprisingly lacked >2000 bona fide microRNAs. Indeed, curated microRNA complements of closely related organisms are very similar and can be used to reconstruct ancestral miRNA repertoires. MirGeneDB represents a robust platform for microRNA-based research, providing deeper and more significant insights into the biology and evolution of miRNAs as well as biomedical and biomarker research.