逆转录元件转录物的广义核定位。

IF 4.7 2区 生物学 Q1 GENETICS & HEREDITY
Simanti Das, Amanda E Jones, John M Abrams
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引用次数: 0

摘要

背景:LINE-1s、Alus和SVAs是人类唯一具有逆转录转座能力的元件。它们的动员和插入突变通常与疾病有关。除了这些罕见的整合事件外,由于炎症反应途径的诱导,逆转录转座中间体在细胞质中的积累具有潜在的致病性。尽管已经对LINE-1和Alu逆转录元件的逆转录转座进行了相当详细的研究,但对其RNA的定位仍有不同的观察结果。结果:我们采用了一种全面而公正的方法来分析逆转录元件的RNA定位,使用了常见的细胞系和包含亚细胞组分RNA测序数据的公开数据集。使用我们定制的分析管道,我们比较了逆转录元件和单拷贝蛋白质编码基因转录的RNA的定位模式。我们的结果证明了逆转录元件RNA核定位的普遍特征模式,该模式在逆转录元件类别以及进化上年轻和古老的元件中是保守的。在细胞系、体内和跨物种中一致观察到逆转录元件转录物的优先核富集。此外,逆转录元件RNA定位模式是动态的,在发育过程中会发生变化,如斑马鱼胚胎中所见。结论:来自古老和从头转录的逆转录元件的转录物的明显的核定位表明,这些转录物保留在细胞核中,而不是重新输入细胞核或在细胞质中降解。这增加了一种可能性,即存在与这种定位模式相关的对宿主、逆转录病毒或两者的适应性值。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Generalized nuclear localization of retroelement transcripts.

Background: LINE-1s, Alus and SVAs are the only retrotransposition competent elements in humans. Their mobilization followed by insertional mutagenesis is often linked to disease. Apart from these rare integration events, accumulation of retrotransposition intermediates in the cytoplasm is potentially pathogenic due to induction of inflammatory response pathways. Although the retrotransposition of LINE-1 and Alu retroelements has been studied in considerable detail, there are mixed observations about the localization of their RNAs.

Results: We undertook a comprehensive and unbiased approach to analyze retroelement RNA localization using common cell lines and publicly available datasets containing RNA-sequencing data from subcellular fractions. Using our customized analytic pipeline, we compared localization patterns of RNAs transcribed from retroelements and single-copy protein coding genes. Our results demonstrate a generalized characteristic pattern of retroelement RNA nuclear localization that is conserved across retroelement classes as well as evolutionarily young and ancient elements. Preferential nuclear enrichment of retroelement transcripts was consistently observed in cell lines, in vivo and across species. Moreover, retroelement RNA localization patterns were dynamic and subject to change during development, as seen in zebrafish embryos.

Conclusion: The pronounced nuclear localization of transcripts arising from ancient as well as de novo transcribed retroelements suggests that these transcripts are retained in the nucleus as opposed to being re-imported to the nucleus or degraded in the cytoplasm. This raises the possibility that there is adaptive value associated with this localization pattern to the host, the retroelements or possibly both.

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来源期刊
Mobile DNA
Mobile DNA GENETICS & HEREDITY-
CiteScore
8.20
自引率
6.10%
发文量
26
审稿时长
11 weeks
期刊介绍: Mobile DNA is an online, peer-reviewed, open access journal that publishes articles providing novel insights into DNA rearrangements in all organisms, ranging from transposition and other types of recombination mechanisms to patterns and processes of mobile element and host genome evolution. In addition, the journal will consider articles on the utility of mobile genetic elements in biotechnological methods and protocols.
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