Cargando…

In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation

Influenza virus is a persistent threat to human health; indeed, the deadliest modern pandemic was in 1918 when an H1N1 virus killed an estimated 50 million people globally. The intent of this work is to better understand influenza from an RNA-centric perspective to provide local, structural motifs w...

Descripción completa

Detalles Bibliográficos
Autores principales: Peterson, Jake M., O’Leary, Collin A., Moss, Walter N.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8748542/
https://www.ncbi.nlm.nih.gov/pubmed/35013354
http://dx.doi.org/10.1038/s41598-021-03767-x
_version_ 1784631032108023808
author Peterson, Jake M.
O’Leary, Collin A.
Moss, Walter N.
author_facet Peterson, Jake M.
O’Leary, Collin A.
Moss, Walter N.
author_sort Peterson, Jake M.
collection PubMed
description Influenza virus is a persistent threat to human health; indeed, the deadliest modern pandemic was in 1918 when an H1N1 virus killed an estimated 50 million people globally. The intent of this work is to better understand influenza from an RNA-centric perspective to provide local, structural motifs with likely significance to the influenza infectious cycle for therapeutic targeting. To accomplish this, we analyzed over four hundred thousand RNA sequences spanning three major clades: influenza A, B and C. We scanned influenza segments for local secondary structure, identified/modeled motifs of likely functionality, and coupled the results to an analysis of evolutionary conservation. We discovered 185 significant regions of predicted ordered stability, yet evidence of sequence covariation was limited to 7 motifs, where 3—found in influenza C—had higher than expected amounts of sequence covariation.
format Online
Article
Text
id pubmed-8748542
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Nature Publishing Group UK
record_format MEDLINE/PubMed
spelling pubmed-87485422022-01-11 In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation Peterson, Jake M. O’Leary, Collin A. Moss, Walter N. Sci Rep Article Influenza virus is a persistent threat to human health; indeed, the deadliest modern pandemic was in 1918 when an H1N1 virus killed an estimated 50 million people globally. The intent of this work is to better understand influenza from an RNA-centric perspective to provide local, structural motifs with likely significance to the influenza infectious cycle for therapeutic targeting. To accomplish this, we analyzed over four hundred thousand RNA sequences spanning three major clades: influenza A, B and C. We scanned influenza segments for local secondary structure, identified/modeled motifs of likely functionality, and coupled the results to an analysis of evolutionary conservation. We discovered 185 significant regions of predicted ordered stability, yet evidence of sequence covariation was limited to 7 motifs, where 3—found in influenza C—had higher than expected amounts of sequence covariation. Nature Publishing Group UK 2022-01-10 /pmc/articles/PMC8748542/ /pubmed/35013354 http://dx.doi.org/10.1038/s41598-021-03767-x Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Peterson, Jake M.
O’Leary, Collin A.
Moss, Walter N.
In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation
title In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation
title_full In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation
title_fullStr In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation
title_full_unstemmed In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation
title_short In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation
title_sort in silico analysis of local rna secondary structure in influenza virus a, b and c finds evidence of widespread ordered stability but little evidence of significant covariation
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8748542/
https://www.ncbi.nlm.nih.gov/pubmed/35013354
http://dx.doi.org/10.1038/s41598-021-03767-x
work_keys_str_mv AT petersonjakem insilicoanalysisoflocalrnasecondarystructureininfluenzavirusabandcfindsevidenceofwidespreadorderedstabilitybutlittleevidenceofsignificantcovariation
AT olearycollina insilicoanalysisoflocalrnasecondarystructureininfluenzavirusabandcfindsevidenceofwidespreadorderedstabilitybutlittleevidenceofsignificantcovariation
AT mosswaltern insilicoanalysisoflocalrnasecondarystructureininfluenzavirusabandcfindsevidenceofwidespreadorderedstabilitybutlittleevidenceofsignificantcovariation