We present a major update of MirGeneDB (3.0), the manually curated animal microRNA gene database. Beyond moving to a new server and the creation of a computational mirror, we have expanded the database with the addition of 33 invertebrate species, including representatives of 5 previously unsampled phyla, and 6 mammal species. MirGeneDB now contains entries for 21 822 microRNA genes (5160 of these from the new species) belonging to 1743 microRNA families. The inclusion of these new species allowed us to refine both the evolutionary node of appearance of a number of microRNA genes/families, as well as MirGeneDB’s phylogenetically informed nomenclature system. Updated covariance models of all microRNA families, along with all smallRNA read data are now downloadable. These enhanced annotations will allow researchers to analyze microRNA properties such as secondary structure and features of their biogenesis within a robust phylogenetic context and without the database plagued with numerous false positives and false negatives. In light of these improvements, MirGeneDB 3.0 will assume the responsibility for naming conserved novel metazoan microRNAs. MirGeneDB is part of RNAcentral and Elixir Norway and is publicly and freely available at mirgenedb.org.

中文翻译：

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MirGeneDB 3.0：改进的分类学采样、新型保守 microRNA 家族的统一命名和更新的协方差模型


我们介绍了 MirGeneDB （3.0） 的重大更新，这是手动整理的动物 microRNA 基因数据库。除了迁移到新服务器和创建计算镜像之外，我们还扩展了数据库，增加了 33 种无脊椎动物，包括 5 个以前未采样的门和 6 种哺乳动物的代表。MirGeneDB 现在包含属于 1743 个 microRNA 家族的 21822 个 microRNA 基因（其中 5160 个来自新物种）的条目。这些新物种的加入使我们能够改进许多 microRNA 基因/家族的进化出现节点，以及 MirGeneDB 的系统发育信息命名系统。所有 microRNA 家族的更新协方差模型以及所有 smallRNA 读取数据现在都可以下载。这些增强的注释将使研究人员能够在强大的系统发育背景下分析 microRNA 特性，例如其生物发生的二级结构和特征，而不会使数据库受到大量假阳性和假阴性的困扰。鉴于这些改进，MirGeneDB 3.0 将负责命名保守的新型后生动物 microRNA。MirGeneDB 是 RNAcentral 和 Elixir Norway 的一部分，可在 mirgenedb.org 上公开免费获得。