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Stability of RNA sequences derived from the coronavirus genome in human cells

Most viruses inhibit the innate immune system and/or the RNA degradation processes of host cells to construct an advantageous intracellular environment for their survival. Characteristic RNA sequences within RNA virus genomes or RNAs transcribed from DNA virus genomes contribute toward this inhibiti...

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Autores principales: Wakida, Hiroyasu, Kawata, Kentaro, Yamaji, Yuta, Hattori, Emi, Tsuchiya, Takaho, Wada, Youichiro, Ozaki, Haruka, Akimitsu, Nobuyoshi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier Inc. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7200376/
https://www.ncbi.nlm.nih.gov/pubmed/32446559
http://dx.doi.org/10.1016/j.bbrc.2020.05.008
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author Wakida, Hiroyasu
Kawata, Kentaro
Yamaji, Yuta
Hattori, Emi
Tsuchiya, Takaho
Wada, Youichiro
Ozaki, Haruka
Akimitsu, Nobuyoshi
author_facet Wakida, Hiroyasu
Kawata, Kentaro
Yamaji, Yuta
Hattori, Emi
Tsuchiya, Takaho
Wada, Youichiro
Ozaki, Haruka
Akimitsu, Nobuyoshi
author_sort Wakida, Hiroyasu
collection PubMed
description Most viruses inhibit the innate immune system and/or the RNA degradation processes of host cells to construct an advantageous intracellular environment for their survival. Characteristic RNA sequences within RNA virus genomes or RNAs transcribed from DNA virus genomes contribute toward this inhibition. In this study, we developed a method called “Fate-seq” to comprehensively identify the RNA sequences derived from RNA and DNA viruses, contributing RNA stability in the cells. We examined the stabilization activity of 5,924 RNA fragments derived from 26 different viruses (16 RNA viruses and 10 DNA viruses) using next-generation sequencing of these RNAs fused 3′ downstream of GFP reporter RNA. With the Fate-seq approach, we detected multiple virus-derived RNA sequences that stabilized GFP reporter RNA, including sequences derived from severe acute respiratory syndrome-related coronavirus (SARS-CoV). Comparative genomic analysis revealed that these RNA sequences and their predicted secondary structures are highly conserved between SARS-CoV and the novel coronavirus, SARS-CoV-2, which is responsible for the global outbreak of the coronavirus-associated disease that emerged in December 2019 (COVID-19). These sequences have the potential to enhance the stability of viral RNA genomes, thereby augmenting viral replication efficiency and virulence.
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spelling pubmed-72003762020-05-06 Stability of RNA sequences derived from the coronavirus genome in human cells Wakida, Hiroyasu Kawata, Kentaro Yamaji, Yuta Hattori, Emi Tsuchiya, Takaho Wada, Youichiro Ozaki, Haruka Akimitsu, Nobuyoshi Biochem Biophys Res Commun Article Most viruses inhibit the innate immune system and/or the RNA degradation processes of host cells to construct an advantageous intracellular environment for their survival. Characteristic RNA sequences within RNA virus genomes or RNAs transcribed from DNA virus genomes contribute toward this inhibition. In this study, we developed a method called “Fate-seq” to comprehensively identify the RNA sequences derived from RNA and DNA viruses, contributing RNA stability in the cells. We examined the stabilization activity of 5,924 RNA fragments derived from 26 different viruses (16 RNA viruses and 10 DNA viruses) using next-generation sequencing of these RNAs fused 3′ downstream of GFP reporter RNA. With the Fate-seq approach, we detected multiple virus-derived RNA sequences that stabilized GFP reporter RNA, including sequences derived from severe acute respiratory syndrome-related coronavirus (SARS-CoV). Comparative genomic analysis revealed that these RNA sequences and their predicted secondary structures are highly conserved between SARS-CoV and the novel coronavirus, SARS-CoV-2, which is responsible for the global outbreak of the coronavirus-associated disease that emerged in December 2019 (COVID-19). These sequences have the potential to enhance the stability of viral RNA genomes, thereby augmenting viral replication efficiency and virulence. Elsevier Inc. 2020-07-05 2020-05-06 /pmc/articles/PMC7200376/ /pubmed/32446559 http://dx.doi.org/10.1016/j.bbrc.2020.05.008 Text en © 2020 Elsevier Inc. All rights reserved. Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.
spellingShingle Article
Wakida, Hiroyasu
Kawata, Kentaro
Yamaji, Yuta
Hattori, Emi
Tsuchiya, Takaho
Wada, Youichiro
Ozaki, Haruka
Akimitsu, Nobuyoshi
Stability of RNA sequences derived from the coronavirus genome in human cells
title Stability of RNA sequences derived from the coronavirus genome in human cells
title_full Stability of RNA sequences derived from the coronavirus genome in human cells
title_fullStr Stability of RNA sequences derived from the coronavirus genome in human cells
title_full_unstemmed Stability of RNA sequences derived from the coronavirus genome in human cells
title_short Stability of RNA sequences derived from the coronavirus genome in human cells
title_sort stability of rna sequences derived from the coronavirus genome in human cells
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7200376/
https://www.ncbi.nlm.nih.gov/pubmed/32446559
http://dx.doi.org/10.1016/j.bbrc.2020.05.008
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