3′Untranslated regions (3′UTRs) are essential portions of genes containing elements necessary for pre-mRNA 3′end processing and are involved in post-transcriptional gene regulation. Despite their importance, they remain poorly characterized in eukaryotes. Here, we have used a multi-pronged approach to extract and curate 3′UTR data from 11533 publicly available datasets, corresponding to the entire collection of Caenorhabditis elegans transcriptomes stored in the NCBI repository from 2009 to 2023. We have also performed high throughput cloning pipelines to identify and validate rare 3′UTR isoforms and incorporated and manually curated 3′UTR isoforms from previously published datasets. This updated C. elegans 3′UTRome (v3) is the most comprehensive resource in any metazoan to date, covering 97.4% of the 20362 experimentally validated protein-coding genes with refined and updated 3′UTR boundaries for 23489 3′UTR isoforms. We also used this novel dataset to identify and characterize sequence elements involved in pre-mRNA 3′end processing and update miRNA target predictions. This resource provides important insights into the 3′UTR formation, function, and regulation in eukaryotes.

中文翻译：

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秀丽隐杆线虫 3′UTR 的综合分析


3'非翻译区 (3'UTR) 是基因的重要部分，含有前 mRNA 3' 末端加工所需的元件，并参与转录后基因调控。尽管它们很重要，但它们在真核生物中的特征仍然很少。在这里，我们使用多管齐下的方法从 11533 个公开数据集中提取和整理 3'UTR 数据，这些数据对应于 2009 年至 2023 年存储在 NCBI 存储库中的整个线虫转录组集合。我们还进行了高通量克隆识别和验证罕见 3'UTR 同种型的管道，并从先前发布的数据集中合并和手动管理 3'UTR 同种型。这个更新的线虫 3'UTRome (v3) 是迄今为止所有后生动物中最全面的资源，涵盖了 20362 个经过实验验证的蛋白质编码基因的 97.4%，并针对 23489 个 3'UTR 亚型进行了细化和更新的 3'UTR 边界。我们还使用这个新颖的数据集来识别和表征参与前 mRNA 3' 末端处理的序列元件并更新 miRNA 目标预测。该资源提供了有关真核生物 3'UTR 形成、功能和调控的重要见解。