Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization
Dengue virus (DENV) infection manifests as a febrile illness with three distinct phases: early acute, late acute, and convalescent. Dengue can result in clinical manifestations with different degrees of severity, dengue fever, dengue hemorrhagic fever, and dengue shock syndrome. Interferons (IFNs) a...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-08-01
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| Series: | Frontiers in Immunology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fimmu.2023.1243516/full |
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| author | Júlia Nakanishi Usuda Desirée Rodrigues Plaça Dennyson Leandro M. Fonseca Alexandre H. C. Marques Igor Salerno Filgueiras Victor Gabriel Bastos Chaves Anny Silva Adri Amanda Torrentes-Carvalho Mario Hiroyuki Hirata Paula Paccielli Freire Paula Paccielli Freire Rusan Catar Gustavo Cabral-Miranda Lena F. Schimke Lena F. Schimke Lena F. Schimke Guido Moll Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques |
| author_facet | Júlia Nakanishi Usuda Desirée Rodrigues Plaça Dennyson Leandro M. Fonseca Alexandre H. C. Marques Igor Salerno Filgueiras Victor Gabriel Bastos Chaves Anny Silva Adri Amanda Torrentes-Carvalho Mario Hiroyuki Hirata Paula Paccielli Freire Paula Paccielli Freire Rusan Catar Gustavo Cabral-Miranda Lena F. Schimke Lena F. Schimke Lena F. Schimke Guido Moll Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques |
| author_sort | Júlia Nakanishi Usuda |
| collection | DOAJ |
| description | Dengue virus (DENV) infection manifests as a febrile illness with three distinct phases: early acute, late acute, and convalescent. Dengue can result in clinical manifestations with different degrees of severity, dengue fever, dengue hemorrhagic fever, and dengue shock syndrome. Interferons (IFNs) are antiviral cytokines central to the anti-DENV immune response. Notably, the distinct global signature of type I, II, and III interferon-regulated genes (the interferome) remains uncharacterized in dengue patients to date. Therefore, we performed an in-depth cross-study for the integrative analysis of transcriptome data related to DENV infection. Our systems biology analysis shows that the anti-dengue immune response is characterized by the modulation of numerous interferon-regulated genes (IRGs) enriching, for instance, cytokine-mediated signaling (e.g., type I and II IFNs) and chemotaxis, which is then followed by a transcriptional wave of genes associated with cell cycle, also regulated by the IFN cascade. The adjunct analysis of disease stratification potential, followed by a transcriptional meta-analysis of the interferome, indicated genes such as IFI27, ISG15, and CYBRD1 as potential suitable biomarkers of disease severity. Thus, this study characterizes the landscape of the interferome signature in DENV infection, indicating that interferome dynamics are a crucial and central part of the anti-dengue immune response. |
| first_indexed | 2024-03-12T15:23:06Z |
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| institution | Directory Open Access Journal |
| issn | 1664-3224 |
| language | English |
| last_indexed | 2024-03-12T15:23:06Z |
| publishDate | 2023-08-01 |
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| series | Frontiers in Immunology |
| spelling | doaj.art-b3cfd1064dac48e2a6ff3f7c7a0df98b2023-08-10T21:42:12ZengFrontiers Media S.A.Frontiers in Immunology1664-32242023-08-011410.3389/fimmu.2023.12435161243516Interferome signature dynamics during the anti-dengue immune response: a systems biology characterizationJúlia Nakanishi Usuda0Desirée Rodrigues Plaça1Dennyson Leandro M. Fonseca2Alexandre H. C. Marques3Igor Salerno Filgueiras4Victor Gabriel Bastos Chaves5Anny Silva Adri6Amanda Torrentes-Carvalho7Mario Hiroyuki Hirata8Paula Paccielli Freire9Paula Paccielli Freire10Rusan Catar11Gustavo Cabral-Miranda12Lena F. Schimke13Lena F. Schimke14Lena F. Schimke15Guido Moll16Otavio Cabral-Marques17Otavio Cabral-Marques18Otavio Cabral-Marques19Otavio Cabral-Marques20Otavio Cabral-Marques21Otavio Cabral-Marques22Department of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, BrazilDepartment of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, BrazilInterunit PostGraduate Program on Bioinformatics, Institute of Mathematics and Statistics, University of São Paulo, São Paulo, BrazilDepartament of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, BrazilDepartament of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, BrazilDepartment of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, BrazilDepartment of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, BrazilDepartament of Immunobiology, Institute of Biology, Federal Fluminense University, Niterói, BrazilDepartment of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, BrazilDepartment of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, BrazilDepartament of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, BrazilDepartament of Nephrology and Internal Intensive Care Medicine, Charité University Hospital, Berlin, GermanyDepartament of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, BrazilDepartament of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, BrazilDepartment of Medicine, Division of Molecular Medicine, University of São Paulo School of Medicine, São Paulo, BrazilLaboratory of Medical Investigation 29, University of São Paulo School of Medicine, São Paulo, BrazilDepartament of Nephrology and Internal Intensive Care Medicine, Charité University Hospital, Berlin, GermanyDepartment of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, BrazilInterunit PostGraduate Program on Bioinformatics, Institute of Mathematics and Statistics, University of São Paulo, São Paulo, BrazilDepartament of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, BrazilDepartment of Medicine, Division of Molecular Medicine, University of São Paulo School of Medicine, São Paulo, BrazilLaboratory of Medical Investigation 29, University of São Paulo School of Medicine, São Paulo, BrazilNetwork of Immunity in Infection, Malignancy, Autoimmunity (NIIMA), Universal Scientific Education and Research Network (USERN), São Paulo, SP, BrazilDengue virus (DENV) infection manifests as a febrile illness with three distinct phases: early acute, late acute, and convalescent. Dengue can result in clinical manifestations with different degrees of severity, dengue fever, dengue hemorrhagic fever, and dengue shock syndrome. Interferons (IFNs) are antiviral cytokines central to the anti-DENV immune response. Notably, the distinct global signature of type I, II, and III interferon-regulated genes (the interferome) remains uncharacterized in dengue patients to date. Therefore, we performed an in-depth cross-study for the integrative analysis of transcriptome data related to DENV infection. Our systems biology analysis shows that the anti-dengue immune response is characterized by the modulation of numerous interferon-regulated genes (IRGs) enriching, for instance, cytokine-mediated signaling (e.g., type I and II IFNs) and chemotaxis, which is then followed by a transcriptional wave of genes associated with cell cycle, also regulated by the IFN cascade. The adjunct analysis of disease stratification potential, followed by a transcriptional meta-analysis of the interferome, indicated genes such as IFI27, ISG15, and CYBRD1 as potential suitable biomarkers of disease severity. Thus, this study characterizes the landscape of the interferome signature in DENV infection, indicating that interferome dynamics are a crucial and central part of the anti-dengue immune response.https://www.frontiersin.org/articles/10.3389/fimmu.2023.1243516/fullDENVinterferontranscriptomeinterferomedengue |
| spellingShingle | Júlia Nakanishi Usuda Desirée Rodrigues Plaça Dennyson Leandro M. Fonseca Alexandre H. C. Marques Igor Salerno Filgueiras Victor Gabriel Bastos Chaves Anny Silva Adri Amanda Torrentes-Carvalho Mario Hiroyuki Hirata Paula Paccielli Freire Paula Paccielli Freire Rusan Catar Gustavo Cabral-Miranda Lena F. Schimke Lena F. Schimke Lena F. Schimke Guido Moll Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Otavio Cabral-Marques Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization Frontiers in Immunology DENV interferon transcriptome interferome dengue |
| title | Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization |
| title_full | Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization |
| title_fullStr | Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization |
| title_full_unstemmed | Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization |
| title_short | Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization |
| title_sort | interferome signature dynamics during the anti dengue immune response a systems biology characterization |
| topic | DENV interferon transcriptome interferome dengue |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2023.1243516/full |
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