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Clustering genomic organization of sea cucumber miRNAs impacts their evolution and expression
Genomics ( IF 4.4 ) Pub Date : 2021-08-08 , DOI: 10.1016/j.ygeno.2021.08.003
Chengzhang Liu 1 , Jianbo Yuan 2 , Xiaojun Zhang 2 , Songjun Jin 2 , Fuhua Li 3 , Jianhai Xiang 3
Affiliation  

Echinoderms are marine deuterostomes with fascinating adaptation features such as aestivation and organ regeneration. However, post-transcriptional gene regulation by microRNAs (miRNAs) underlying these features are largely unexplored. Here, using homology-based and de novo approaches supported by expression data, we provided a comprehensive annotation of miRNA genes in the sea cucumber Apostichopus japonicus. By linkage and phylogenic analyses, we characterized miRNA genomic organization, evolutionary history and expression regulation. The results showed that sea cucumbers evolved a large number of new miRNAs, which tended to form polycistronic clusters via tandem duplication that had been especially active in the echinoderms. Most new miRNAs were weakly expressed, but miRNA clustering increased the expression level of clustered new miRNAs. The most abundantly expressed new miRNAs were organized in a single tandem cluster (cluster n2), which was activated during aestivation and intestine regeneration. Overall, our analyses suggest that clustering of miRNAs is important for their evolutionary origin, expression control, and functional cooperation.



中文翻译:

海参 miRNA 的聚类基因组组织影响其进化和表达

棘皮动物是海洋氘核动物,具有迷人的适应特征,例如夏眠和器官再生。然而,这些特征背后的 microRNA (miRNA) 的转录后基因调控在很大程度上尚未得到探索。在这里,我们使用表达数据支持的基于同源性和从头方法,对海参刺参中的 miRNA 基因进行了全面的注释。. 通过连锁和系统发育分析,我们表征了 miRNA 基因组组织、进化历史和表达调控。结果表明,海参进化出大量新的miRNA,它们倾向于通过在棘皮动物中特别活跃的串联复制形成多顺反子簇。大多数新miRNA表达较弱,但miRNA聚类增加了聚集的新miRNA的表达水平。表达最丰富的新 miRNA 被组织成单个串联簇(簇 n2),该簇在夏眠和肠道再生期间被激活。总的来说,我们的分析表明,miRNA 的聚类对于它们的进化起源、表达控制和功能合作很重要。

更新日期:2021-08-27
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