Variant- and vaccination-specific alternative splicing profiles in SARS-CoV-2 infections
- PMID: 38414855
- PMCID: PMC10897911
- DOI: 10.1016/j.isci.2024.109177
Variant- and vaccination-specific alternative splicing profiles in SARS-CoV-2 infections
Abstract
The COVID-19 pandemic, driven by the SARS-CoV-2 virus and its variants, highlights the important role of understanding host-viral molecular interactions influencing infection outcomes. Alternative splicing post-infection can impact both host responses and viral replication. We analyzed RNA splicing patterns in immune cells across various SARS-CoV-2 variants, considering immunization status. Using a dataset of 190 RNA-seq samples from our prior studies, we observed a substantial deactivation of alternative splicing and RNA splicing-related genes in COVID-19 patients. The alterations varied significantly depending on the infecting variant and immunization history. Notably, Alpha or Beta-infected patients differed from controls, while Omicron-infected patients displayed a splicing profile closer to controls. Particularly, vaccinated Omicron-infected individuals showed a distinct dynamic in alternative splicing patterns not widely shared among other groups. Our findings underscore the intricate interplay between SARS-CoV-2 variants, vaccination-induced immunity, and alternative splicing, emphasizing the need for further investigations to deepen understanding and guide therapeutic development.
Keywords: Immunology; Molecular biology; Virology.
Conflict of interest statement
The authors declare no competing interests.
Figures
![None](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/10897911/bin/fx1.gif)
![Figure 1](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/10897911/bin/gr1.gif)
![Figure 2](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/10897911/bin/gr2.gif)
![Figure 3](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/10897911/bin/gr3.gif)
![Figure 4](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/10897911/bin/gr4.gif)
Update of
-
Variant- and Vaccination-Specific Alternative Splicing Profiles in SARS-CoV-2 Infections.bioRxiv [Preprint]. 2023 Nov 27:2023.11.24.568603. doi: 10.1101/2023.11.24.568603. bioRxiv. 2023. Update in: iScience. 2024 Feb 08;27(3):109177. doi: 10.1016/j.isci.2024.109177. PMID: 38076812 Free PMC article. Updated. Preprint.
Similar articles
-
Variant- and Vaccination-Specific Alternative Splicing Profiles in SARS-CoV-2 Infections.bioRxiv [Preprint]. 2023 Nov 27:2023.11.24.568603. doi: 10.1101/2023.11.24.568603. bioRxiv. 2023. Update in: iScience. 2024 Feb 08;27(3):109177. doi: 10.1016/j.isci.2024.109177. PMID: 38076812 Free PMC article. Updated. Preprint.
-
A Quick Displacement of the SARS-CoV-2 variant Delta with Omicron: Unprecedented Spike in COVID-19 Cases Associated with Fewer Admissions and Comparable Upper Respiratory Viral Loads.medRxiv [Preprint]. 2022 Jan 28:2022.01.26.22269927. doi: 10.1101/2022.01.26.22269927. medRxiv. 2022. Update in: EBioMedicine. 2022 May;79:104008. doi: 10.1016/j.ebiom.2022.104008. PMID: 35118480 Free PMC article. Updated. Preprint.
-
Different Neutralization Profiles After Primary SARS-CoV-2 Omicron BA.1 and BA.2 Infections.Front Immunol. 2022 Jul 19;13:946318. doi: 10.3389/fimmu.2022.946318. eCollection 2022. Front Immunol. 2022. PMID: 35928813 Free PMC article.
-
The Biological Functions and Clinical Significance of SARS-CoV-2 Variants of Corcern.Front Med (Lausanne). 2022 May 20;9:849217. doi: 10.3389/fmed.2022.849217. eCollection 2022. Front Med (Lausanne). 2022. PMID: 35669924 Free PMC article. Review.
-
A Complementary Union of SARS-CoV2 Natural and Vaccine Induced Immune Responses.Front Immunol. 2022 Jul 13;13:914167. doi: 10.3389/fimmu.2022.914167. eCollection 2022. Front Immunol. 2022. PMID: 35911696 Free PMC article. Review.
References
-
- Liang W.H., Guan W.J., Li C.C., Li Y.M., Liang H.R., Zhao Y., Liu X.Q., Sang L., Chen R.C., Tang C.L., et al. Clinical characteristics and outcomes of hospitalised patients with COVID-19 treated in Hubei (epicentre) and outside Hubei (non-epicentre): a nationwide analysis of China. Eur. Respir. J. 2020;55 doi: 10.1183/13993003.00562-2020. - DOI - PMC - PubMed
-
- Zhou F., Yu T., Du R., Fan G., Liu Y., Liu Z., Xiang J., Wang Y., Song B., Gu X., et al. Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study. Lancet. 2020;395:1054–1062. doi: 10.1016/S0140-6736(20)30566-3. - DOI - PMC - PubMed
LinkOut - more resources
Full Text Sources
Miscellaneous