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The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients

The ongoing COVID-19 pandemic caused by SARS-CoV-2 infections has quickly developed into a global public health threat. COVID-19 patients show distinct clinical features, and in some cases, during the severe stage of the condition, the disease severity leads to an acute respiratory disorder. In spit...

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Autores principales: Mukherjee, Sunanda Biswas, Detroja, Rajesh, Mukherjee, Sumit, Frenkel-Morgenstern, Milana
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9958880/
https://www.ncbi.nlm.nih.gov/pubmed/36851647
http://dx.doi.org/10.3390/v15020433
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author Mukherjee, Sunanda Biswas
Detroja, Rajesh
Mukherjee, Sumit
Frenkel-Morgenstern, Milana
author_facet Mukherjee, Sunanda Biswas
Detroja, Rajesh
Mukherjee, Sumit
Frenkel-Morgenstern, Milana
author_sort Mukherjee, Sunanda Biswas
collection PubMed
description The ongoing COVID-19 pandemic caused by SARS-CoV-2 infections has quickly developed into a global public health threat. COVID-19 patients show distinct clinical features, and in some cases, during the severe stage of the condition, the disease severity leads to an acute respiratory disorder. In spite of several pieces of research in this area, the molecular mechanisms behind the development of disease severity are still not clearly understood. Recent studies demonstrated that SARS-CoV-2 alters the host cell splicing and transcriptional response to overcome the host immune response that provides the virus with favorable conditions to replicate efficiently within the host cells. In several disease conditions, aberrant splicing could lead to the development of novel chimeric transcripts that could promote the functional alternations of the cell. As severe SARS-CoV-2 infection was reported to cause abnormal splicing in the infected cells, we could expect the generation and expression of novel chimeric transcripts. However, no study so far has attempted to check whether novel chimeric transcripts are expressed in severe SARS-CoV-2 infections. In this study, we analyzed several publicly available blood transcriptome datasets of severe COVID-19, mild COVID-19, other severe respiratory viral infected patients, and healthy individuals. We identified 424 severe COVID-19 -specific chimeric transcripts, 42 of which were recurrent. Further, we detected 189 chimeric transcripts common to severe COVID-19 and multiple severe respiratory viral infections. Pathway and gene enrichment analysis of the parental genes of these two subsets of chimeric transcripts reveals that these are potentially involved in immune-related processes, interferon signaling, and inflammatory responses, which signify their potential association with immune dysfunction leading to the development of disease severity. Our study provides the first detailed expression landscape of chimeric transcripts in severe COVID-19 and other severe respiratory viral infections.
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spelling pubmed-99588802023-02-26 The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients Mukherjee, Sunanda Biswas Detroja, Rajesh Mukherjee, Sumit Frenkel-Morgenstern, Milana Viruses Article The ongoing COVID-19 pandemic caused by SARS-CoV-2 infections has quickly developed into a global public health threat. COVID-19 patients show distinct clinical features, and in some cases, during the severe stage of the condition, the disease severity leads to an acute respiratory disorder. In spite of several pieces of research in this area, the molecular mechanisms behind the development of disease severity are still not clearly understood. Recent studies demonstrated that SARS-CoV-2 alters the host cell splicing and transcriptional response to overcome the host immune response that provides the virus with favorable conditions to replicate efficiently within the host cells. In several disease conditions, aberrant splicing could lead to the development of novel chimeric transcripts that could promote the functional alternations of the cell. As severe SARS-CoV-2 infection was reported to cause abnormal splicing in the infected cells, we could expect the generation and expression of novel chimeric transcripts. However, no study so far has attempted to check whether novel chimeric transcripts are expressed in severe SARS-CoV-2 infections. In this study, we analyzed several publicly available blood transcriptome datasets of severe COVID-19, mild COVID-19, other severe respiratory viral infected patients, and healthy individuals. We identified 424 severe COVID-19 -specific chimeric transcripts, 42 of which were recurrent. Further, we detected 189 chimeric transcripts common to severe COVID-19 and multiple severe respiratory viral infections. Pathway and gene enrichment analysis of the parental genes of these two subsets of chimeric transcripts reveals that these are potentially involved in immune-related processes, interferon signaling, and inflammatory responses, which signify their potential association with immune dysfunction leading to the development of disease severity. Our study provides the first detailed expression landscape of chimeric transcripts in severe COVID-19 and other severe respiratory viral infections. MDPI 2023-02-04 /pmc/articles/PMC9958880/ /pubmed/36851647 http://dx.doi.org/10.3390/v15020433 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Mukherjee, Sunanda Biswas
Detroja, Rajesh
Mukherjee, Sumit
Frenkel-Morgenstern, Milana
The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients
title The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients
title_full The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients
title_fullStr The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients
title_full_unstemmed The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients
title_short The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients
title_sort landscape of expressed chimeric transcripts in the blood of severe covid-19 infected patients
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9958880/
https://www.ncbi.nlm.nih.gov/pubmed/36851647
http://dx.doi.org/10.3390/v15020433
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