piRNAclusterDB 2.0:piRNA 簇数据库的更新与扩展。

piRNAclusterDB 2.0: update and expansion of the piRNA cluster database.

机构信息

Institute of Organismic and Molecular Evolution, Anthropology, Johannes Gutenberg University, Mainz 55099, Germany.

Senckenberg Centre for Human Genetics, Facharztzentrum Frankfurt-Nordend gGmbH, Frankfurt am Main 60314, Germany.

出版信息

Nucleic Acids Res. 2022 Jan 7;50(D1):D259-D264. doi: 10.1093/nar/gkab622.

Abstract

PIWI-interacting RNAs (piRNAs) and their partnering PIWI proteins defend the animal germline against transposable elements and play a crucial role in fertility. Numerous studies in the past have uncovered many additional functions of the piRNA pathway, including gene regulation, anti-viral defense, and somatic transposon repression. Further, comparative analyses across phylogenetic groups showed that the PIWI/piRNA system evolves rapidly and exhibits great evolutionary plasticity. However, the presence of so-called piRNA clusters as the major source of piRNAs is common to nearly all metazoan species. These genomic piRNA-producing loci are highly divergent across taxa and critically influence piRNA populations in different evolutionary lineages. We launched the initial version of the piRNA cluster database to facilitate research on regulation and evolution of piRNA-producing loci across tissues und species. In recent years the amount of small RNA sequencing data that was generated and the abundance of species that were studied has grown rapidly. To keep up with this recent progress, we have released a major update for the piRNA cluster database (https://www.smallrnagroup.uni-mainz.de/piRNAclusterDB), expanding it from 12 to a total of 51 species with hundreds of new datasets, and revised its overall structure to enable easy navigation through this large amount of data.

摘要

PIWI 相互作用 RNA(piRNAs)及其伴侣 PIWI 蛋白可保护动物生殖细胞免受转座元件的侵害,并在生育能力中发挥关键作用。过去的许多研究揭示了 piRNA 通路的许多其他功能,包括基因调控、抗病毒防御和体转座子抑制。此外,跨进化群的比较分析表明,PIWI/piRNA 系统进化迅速,表现出很强的进化可塑性。然而,所谓的 piRNA 簇作为 piRNAs 的主要来源存在于几乎所有后生动物物种中。这些基因组 piRNA 产生的位点在分类群之间高度多样化,并对不同进化谱系中的 piRNA 群体产生重大影响。我们推出了 piRNA 簇数据库的初始版本,以促进对组织和物种之间的 piRNA 产生位点的调控和进化的研究。近年来,生成的小 RNA 测序数据量和研究的物种丰富度迅速增长。为了跟上这一最新进展,我们对 piRNA 簇数据库进行了重大更新(https://www.smallrnagroup.uni-mainz.de/piRNAclusterDB),将其从 12 个扩展到总共 51 个物种,包含数百个新数据集,并对其整体结构进行了修订,以便能够轻松浏览大量数据。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f23d/8728273/1b4436c93d7e/gkab622fig1.jpg

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