Multi-omics analysis reveals COVID-19 vaccine induced attenuation of inflammatory responses during breakthrough … – Nature.com

HomeCorona Virus VaccineMulti-omics analysis reveals COVID-19 vaccine induced attenuation of inflammatory responses during breakthrough … – Nature.com
April 28, 2024

Watson, O. J. et al. Global impact of the first year of COVID-19 vaccination: a mathematical modelling study. Lancet Infect Dis. https://doi.org/10.1016/S1473-3099(22)00320-6 (2022).

World Health Organization. WHO Coronavirus (COVID-19) Dashboard, https://covid19.who.int/ (2023).

Honda-Okubo, Y. et al. Severe acute respiratory syndrome-associated coronavirus vaccines formulated with delta inulin adjuvants provide enhanced protection while ameliorating lung eosinophilic immunopathology. J Virol 89, 29953007 (2015).

Article CAS PubMed Google Scholar

Liu, L. et al. Anti-spike IgG causes severe acute lung injury by skewing macrophage responses during acute SARS-CoV infection. JCI Insight 4. https://doi.org/10.1172/jci.insight.123158 (2019).

Shinde, V. et al. Efficacy of NVX-CoV2373 Covid-19 Vaccine against the B.1.351 variant. N. Engl. J. Med. 384, 18991909 (2021).

Article CAS PubMed PubMed Central Google Scholar

Voysey, M. et al. Safety and efficacy of the ChAdOx1 nCoV-19 vaccine (AZD1222) against SARS-CoV-2: An interim analysis of four randomised controlled trials in Brazil, South Africa, and the UK. Lancet 397, 99111 (2021).

Article CAS PubMed PubMed Central Google Scholar

Logunov, D. Y. et al. Safety and immunogenicity of an rAd26 and rAd5 vector-based heterologous prime-boost COVID-19 vaccine in two formulations: two open, non-randomised phase 1/2 studies from Russia. Lancet 396, 887897 (2020).

Article CAS PubMed PubMed Central Google Scholar

Baden, L. R. et al. Efficacy and safety of the mRNA-1273 SARS-CoV-2 vaccine. N. Engl. J. Med. 384, 403416 (2021).

Article CAS PubMed Google Scholar

Polack, F. P. et al. Safety and efficacy of the BNT162b2 mRNA Covid-19 vaccine. N. Engl. J. Med. 383, 26032615 (2020).

Article CAS PubMed Google Scholar

Sadoff, J. et al. Interim results of a phase 1-2a trial of Ad26.COV2.S Covid-19 vaccine. N. Engl. J. Med. https://doi.org/10.1101/2021.04.07.21255081 (2021).

Hitchings, M. D. T. et al. Effectiveness of CoronaVac in the setting of high SARS-CoV-2 P.1 variant transmission in Brazil: A test-negative case-control study. medRxiv, 2021.2004.2007.21255081. https://doi.org/10.1101/2021.04.07.21255081 (2021).

Antonelli, M. et al. Risk factors and disease profile of post-vaccination SARS-CoV-2 infection in UK users of the COVID Symptom Study app: a prospective, community-based, nested, case-control study. Lancet Infect Dis 22, 4355 (2022).

Article CAS PubMed PubMed Central Google Scholar

Tan, S. T. et al. Infectiousness of SARS-CoV-2 breakthrough infections and reinfections during the Omicron wave. Nat Med. https://doi.org/10.1038/s41591-022-02138-x (2023).

Schulte-Schrepping, J. et al. Severe COVID-19 is marked by a dysregulated myeloid cell compartment. Cell 182, 14191440.e1423 (2020).

Article CAS PubMed PubMed Central Google Scholar

Arunachalam, P. S. et al. Systems biological assessment of immunity to mild versus severe COVID-19 infection in humans. Science. https://doi.org/10.1126/science.abc6261 (2020).

Ren, X. et al. COVID-19 immune features revealed by a large-scale single-cell transcriptome atlas. Cell 184, 18951913.e1819 (2021).

Article CAS PubMed PubMed Central Google Scholar

Ahern, D. J. et al. A blood atlas of COVID-19 defines hallmarks of disease severity and specificity. Cell 185, 916938.e958 (2022).

Article Google Scholar

Maaske, J. et al. Robust humoral and cellular recall responses to AZD1222 attenuate breakthrough SARS-CoV-2 infection compared to unvaccinated. Front Immunol 13, 1062067 (2022).

Article CAS PubMed Google Scholar

Folegatti, P. M. et al. Safety and immunogenicity of the ChAdOx1 nCoV-19 vaccine against SARS-CoV-2: a preliminary report of a phase 1/2, single-blind, randomised controlled trial. Lancet https://doi.org/10.1016/S0140-6736(20)31604-4 (2020).

Ramasamy, M. N. et al. Safety and immunogenicity of ChAdOx1 nCoV-19 vaccine administered in a prime-boost regimen in young and old adults (COV002): a single-blind, randomised, controlled, phase 2/3 trial. Lancet. https://doi.org/10.1016/S0140-6736(20)32466-1 (2020).

Gao, S. et al. Structural basis of oligomerisation in the stalk region of dynamin-like MxA. Nature 465, 502506 (2010).

Article ADS CAS PubMed Google Scholar

Gu, Y. et al. Receptome profiling identifies KREMEN1 and ASGR1 as alternative functional receptors of SARS-CoV-2. Cell Res. 32, 2437 (2022).

Silvin, A. et al. Elevated calprotectin and abnormal myeloid cell subsets discriminate severe from mild COVID-19. Cell 182, 14011418.e1418 (2020).

Article CAS PubMed PubMed Central Google Scholar

Kanehisa, M. & Goto, S. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28, 2730 (2000).

Article CAS PubMed PubMed Central Google Scholar

Kanehisa, M. Toward understanding the origin and evolution of cellular organisms. Protein Sci. 28, 19471951 (2019).

Article CAS PubMed PubMed Central Google Scholar

Kanehisa, M., Furumichi, M., Sato, Y., Kawashima, M. & Ishiguro-Watanabe, M. KEGG for taxonomy-based analysis of pathways and genomes. Nucleic Acids Res. 51, D587D592 (2023).

Article CAS PubMed Google Scholar

Bibert, S. et al. Transcriptomic signature differences between SARS-CoV-2 and influenza virus infected patients. Front Immunol 12, 666163 (2021).

Article CAS PubMed PubMed Central Google Scholar

McMahan, K. et al. Correlates of protection against SARS-CoV-2 in rhesus macaques. Nature 590, 630634 (2021).

Article ADS CAS PubMed Google Scholar

Del Valle, D. M. et al. An inflammatory cytokine signature predicts COVID-19 severity and survival. Nat Med. 26, 16361643 (2020).

Article PubMed PubMed Central Google Scholar

Keddie, S. et al. Laboratory biomarkers associated with COVID-19 severity and management. Clin. Immunol 221, 108614 (2020).

Article CAS PubMed PubMed Central Google Scholar

Haller, O., Staeheli, P. & Kochs, G. Interferon-induced Mx proteins in anti-viral host defense. Biochimie 89, 812818 (2007).

Article CAS PubMed Google Scholar

Lee, J. S. & Shin, E. C. The type I interferon response in COVID-19: implications for treatment. Nat. Rev. Immunol 20, 585586 (2020).

Article CAS PubMed PubMed Central Google Scholar

Lucas, C. et al. Longitudinal analyses reveal immunological misfiring in severe COVID-19. Nature 584, 463469 (2020).

Article CAS PubMed PubMed Central Google Scholar

Hadjadj, J. et al. Impaired type I interferon activity and inflammatory responses in severe COVID-19 patients. Science 369, 718724 (2020).

Article ADS CAS PubMed PubMed Central Google Scholar

Zhang, Q. et al. Inborn errors of type I IFN immunity in patients with life-threatening COVID-19. Science 370 https://doi.org/10.1126/science.abd4570 (2020).

Kalil, A. C. et al. Efficacy of interferon beta-1a plus remdesivir compared with remdesivir alone in hospitalised adults with COVID-19: a double-bind, randomised, placebo-controlled, phase 3 trial. Lancet Respir. Med. 9, 13651376 (2021).

Article CAS PubMed PubMed Central Google Scholar

Pan, H. et al. Repurposed anti-viral drugs for Covid-19 - interim WHO solidarity trial results. N. Engl. J. Med. 384, 497511 (2021).

Article CAS PubMed Google Scholar

Ewer, K. J. et al. T cell and antibody responses induced by a single dose of ChAdOx1 nCoV-19 (AZD1222) vaccine in a phase 1/2 clinical trial. Nat. Med. 27, 270278 (2021).

Article CAS PubMed Google Scholar

Hurwitz, J. L. Respiratory syncytial virus vaccine development. Expert Rev. Vaccines 10, 14151433 (2011).

Article PubMed PubMed Central Google Scholar

Connors, M. et al. Pulmonary histopathology induced by respiratory syncytial virus (RSV) challenge of formalin-inactivated RSV-immunized BALB/c mice is abrogated by depletion of CD4+ T cells. J. Virol 66, 74447451 (1992).

Article CAS PubMed PubMed Central Google Scholar

De Swart, R. L. et al. Immunisation of macaques with formalin-inactivated respiratory syncytial virus (RSV) induces interleukin-13-associated hypersensitivity to subsequent RSV infection. J. Virol 76, 1156111569 (2002).

Article PubMed PubMed Central Google Scholar

Graham, B. S. et al. Priming immunisation determines T helper cytokine mRNA expression patterns in lungs of mice challenged with respiratory syncytial virus. J. Immunol 151, 20322040 (1993).

Article CAS PubMed Google Scholar

Chin, J., Magoffin, R. L., Shearer, L. A., Schieble, J. H. & Lennette, E. H. Field evaluation of a respiratory syncytial virus vaccine and a trivalent parainfluenza virus vaccine in a pediatric population. Am. J. Epidemiol 89, 449463 (1969).

Article CAS PubMed Google Scholar

Zhao, Y. et al. Hand-foot-and-mouth disease virus receptor KREMEN1 binds the canyon of Coxsackie Virus A10. Nat. Commun 11, 38 (2020).

Article ADS CAS PubMed PubMed Central Google Scholar

Brutigam, K. et al. Comprehensive analysis of SARS-CoV-2 receptor proteins in human respiratory tissues identifies alveolar macrophages as potential virus entry site. Histopathology. https://doi.org/10.1111/his.14871 (2023).

Veras, F. P. et al. SARS-CoV-2-triggered neutrophil extracellular traps mediate COVID-19 pathology. J. Exp. Med. 217 https://doi.org/10.1084/jem.20201129 (2020).

Lebourgeois, S. et al. Differential activation of human neutrophils by SARS-CoV-2 variants of concern. Front Immunol 13, 1010140 (2022).

Article CAS PubMed PubMed Central Google Scholar

Killingley, B. et al. Safety, tolerability and viral kinetics during SARS-CoV-2 human challenge in young adults. Nat. Med. 28, 10311041 (2022).

Article CAS PubMed Google Scholar

Raadsen, M. et al. Thrombocytopenia in Virus Infections. J. Clin. Med. 10 https://doi.org/10.3390/jcm10040877 (2021).

Pascutti, M. F., Erkelens, M. N. & Nolte, M. A. Impact of viral infections on hematopoiesis: From beneficial to detrimental effects on bone marrow output. Front Immunol 7, 364 (2016).

Article PubMed PubMed Central Google Scholar

Li, C., Hu, X., Li, L. & Li, J. H. Differential microRNA expression in the peripheral blood from human patients with COVID-19. J. Clin. Lab. Anal. 34, e23590 (2020).

Article CAS PubMed PubMed Central Google Scholar

Togami, Y. et al. Significance of interferon signaling based on mRNA-microRNA integration and plasma protein analyses in critically ill COVID-19 patients. Mol. Ther. Nucleic Acids 29, 343353 (2022).

Article CAS PubMed PubMed Central Google Scholar

Najafipour, R. et al. Screening for differentially expressed microRNAs in BALF and blood samples of infected COVID-19 ARDS patients by small RNA deep sequencing. J. Clin. Lab. Anal. 36, e24672 (2022).

Article CAS PubMed PubMed Central Google Scholar

Chen, Y. M. et al. Blood molecular markers associated with COVID-19 immunopathology and multi-organ damage. EMBO J. 39, e105896 (2020).

Article CAS PubMed PubMed Central Google Scholar

Duecker, R. P. et al. The MiR-320 Family Is Strongly Downregulated in Patients with COVID-19 Induced Severe Respiratory Failure. Int. J. Mol. Sci. 22 https://doi.org/10.3390/ijms221910351 (2021).

Liu, X. et al. SARS-CoV-2 causes a significant stress response mediated by small RNAs in the blood of COVID-19 patients. Mol. Ther. Nucleic Acids 27, 751762 (2022).

Article MathSciNet CAS PubMed Google Scholar

Tang, H. et al. The non-coding and coding transcriptional landscape of the peripheral immune response in patients with COVID-19. Clin. Transl. Med. 10, e200 (2020).

Article MathSciNet CAS PubMed PubMed Central Google Scholar

Parray, A. et al. SnoRNAs and miRNAs networks underlying COVID-19 disease severity. Vaccines (Basel). 9 https://doi.org/10.3390/vaccines9101056 (2021).

See the original post here:

Multi-omics analysis reveals COVID-19 vaccine induced attenuation of inflammatory responses during breakthrough ... - Nature.com

Related Posts
Tags:
➤