Evolutionary and functional insights into the Ski2-like helicase family in Archaea: a comparison of Thermococcales ASH-Ski2 and Hel308 activities.

IF 4 Q1 GENETICS & HEREDITY NAR Genomics and Bioinformatics Pub Date : 2024-03-18 eCollection Date: 2024-03-01 DOI:10.1093/nargab/lqae026
Manon Batista, Petra Langendijk-Genevaux, Marta Kwapisz, Isabelle Canal, Duy Khanh Phung, Laura Plassart, Régine Capeyrou, Yann Moalic, Mohamed Jebbar, Didier Flament, Gwennaele Fichant, Marie Bouvier, Béatrice Clouet-d'Orval
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Abstract

RNA helicases perform essential housekeeping and regulatory functions in all domains of life by binding and unwinding RNA molecules. The Ski2-like proteins are primordial helicases that play an active role in eukaryotic RNA homeostasis pathways, with multiple homologs having specialized functions. The significance of the expansion and diversity of Ski2-like proteins in Archaea, the third domain of life, has not yet been established. Here, by studying the phylogenetic diversity of Ski2-like helicases among archaeal genomes and the enzymatic activities of those in Thermococcales, we provide further evidence of the function of this protein family in archaeal metabolism of nucleic acids. We show that, in the course of evolution, ASH-Ski2 and Hel308-Ski2, the two main groups of Ski2-like proteins, have diverged in their biological functions. Whereas Hel308 has been shown to mainly act on DNA, we show that ASH-Ski2, previously described to be associated with the 5'-3' aRNase J exonuclease, acts on RNA by supporting an efficient annealing activity, but also an RNA unwinding with a 3'-5' polarity. To gain insights into the function of Ski2, we also analyse the transcriptome of Thermococcus barophilus ΔASH-Ski2 mutant strain and provide evidence of the importance of ASH-Ski2 in cellular metabolism pathways related to translation.

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古菌中 Ski2 样螺旋酶家族的进化和功能研究:热球菌 ASH-Ski2 和 Hel308 活性的比较。
RNA 螺旋酶通过结合和解开 RNA 分子,在生命的各个领域发挥着重要的内务管理和调控功能。Ski2 样蛋白是在真核生物 RNA 平衡途径中发挥积极作用的原始螺旋酶,其多个同源物具有专门的功能。类 Ski2 蛋白在古生菌(生命的第三领域)中的扩展和多样性的意义尚未确定。在这里,我们通过研究类 Ski2 螺旋酶在古细菌基因组中的系统发育多样性以及在热球菌中的酶活性,进一步证明了该蛋白家族在古细菌核酸代谢中的功能。我们发现,在进化过程中,ASH-Ski2 和 Hel308-Ski2 这两大类 Ski2 样蛋白在生物学功能上出现了分化。Hel308 主要作用于 DNA,而 ASH-Ski2 之前被描述为与 5'-3' aRNase J 外切酶相关,我们发现它不仅支持高效的退火活性,还支持具有 3'-5' 极性的 RNA 解旋,从而作用于 RNA。为了深入了解 Ski2 的功能,我们还分析了嗜热球菌 ΔASH-Ski2 突变株的转录组,并提供了 ASH-Ski2 在与翻译有关的细胞代谢途径中的重要性的证据。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
CiteScore
8.00
自引率
2.20%
发文量
95
审稿时长
15 weeks
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