Chattopadhyay Partha, Mehta Priyanka, Mishra Pallavi, Chen Liu Chinky Shiu, Tarai Bansidhar, Budhiraja Sandeep, Pandey Rajesh
Division of Immunology and Infectious Disease Biology, INtegrative GENomics of HOst-PathogEn (INGEN-HOPE) laboratory, CSIR-Institute of Genomics and Integrative Biology (CSIR-IGIB), Mall Road, Delhi 110007, India.
Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India.
iScience. 2024 Apr 29;27(6):109846. doi: 10.1016/j.isci.2024.109846. eCollection 2024 Jun 21.
Both host and viral RNA editing plays a crucial role in host's response to infection, yet our understanding of host RNA editing remains limited. In this study of in-house generated RNA sequencing (RNA-seq) data of 211 hospitalized COVID-19 patients with PreVOC, Delta, and Omicron variants, we observed a significant differential editing frequency and patterns in long non-coding RNAs (lncRNAs), with Delta group displaying lower RNA editing compared to PreVOC/Omicron patients. Notably, multiple transcripts of and exhibited high editing frequencies. Expression of and differential abundance of repeats were possible modulators of differential editing across patient groups. We observed a shift in crucial infection-related pathways wherein the pathways were downregulated in Delta compared to PreVOC and Omicron. Our genomics-based evidence suggests that lncRNA editing influences stability, miRNA binding, and expression of both lncRNA and target genes. Overall, the study highlights the role of lncRNAs and how editing within host lncRNAs modulates the disease severity.
宿主和病毒的RNA编辑在宿主对感染的反应中都起着至关重要的作用，但我们对宿主RNA编辑的了解仍然有限。在这项对211名感染了PreVOC、Delta和Omicron变体的住院COVID-19患者的内部生成的RNA测序（RNA-seq）数据的研究中，我们观察到长链非编码RNA（lncRNA）的编辑频率和模式存在显著差异，与PreVOC/Omicron患者相比，Delta组的RNA编辑水平较低。值得注意的是， 和 的多个转录本表现出高编辑频率。 和重复序列的差异丰度的表达可能是不同患者组间差异编辑的调节因子。我们观察到关键感染相关途径的转变，其中与PreVOC和Omicron相比，Delta中的这些途径被下调。我们基于基因组学的证据表明，lncRNA编辑会影响lncRNA和靶基因的稳定性、miRNA结合及表达。总体而言，该研究突出了lncRNA的作用以及宿主lncRNA内的编辑如何调节疾病严重程度。
