Articles producció científica> Medicina i Cirurgia

Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19

  • Dades identificatives

    Identificador: imarina:9296704
    Handle: https://hdl.handle.net/20.500.11797/imarina9296704
    Autors:
    Matuozzo, DanielaTalouarn, EstelleMarchal, AstridZhang, PengManry, JeremySeeleuthner, YoannZhang, YuBolze, AlexandreChaldebas, MatthieuMilisavljevic, BaptisteGervais, AdrianBastard, PaulAsano, TakakiBizien, LucyBarzaghi, FedericaAbolhassani, HassanAbou Tayoun, AhmadAiuti, AlessandroAlavi Darazam, IladAllende, Luis MAlonso-Arias, RebecaArias, Andres AugustoAytekin, GokhanBergman, PeterBondesan, SimoneBryceson, Yenan TBustos, Ingrid GCabrera-Marante, OscarCarcel, SheilaCarrera, PaolaCasari, GiorgioChaibi, KhalilColobran, RogerCondino-Neto, AntonioCovill, Laura EDelmonte, Ottavia MEl Zein, LoubnaFlores, CarlosGregersen, Peter KGut, MartaHaerynck, FilomeenHalwani, RabihHancerli, SeldaHammarstroem, LennartHatipoglu, NevinKarbuz, AdemKeles, SevgiKyheng, ChristeleLeon-Lopez, RafaelFranco, Jose LuisMansouri, DavoodMartinez-Picado, JavierMetin Akcan, OzgeMigeotte, IsabelleMorange, Pierre-EmmanuelMorelle, GuillaumeMartin-Nalda, AndreaNovelli, GiuseppeNovelli, AntonioOzcelik, TayfunPalabiyik, FigenPan-Hammarstroem, Qiangde Diego, Rebeca PerezPlanas-Serra, LauraPleguezuelo, Daniel EPrando, CarolinaPujol, AuroraReyes, Luis FelipeRiviere, Jacques GRodriguez-Gallego, CarlosRojas, JulianRovere-Querini, PatriziaSchlueter, AgathaShahrooei, MohammadSobh, AliSoler-Palacin, PereTandjaoui-Lambiotte, YacineTipu, ImranTresoldi, CristinaTroya, Jesusvan de Beek, DiederikZatz, MayanaZawadzki, PawelAl-Muhsen, Saleh ZaidAlosaimi, Mohammed FarajAlsohime, Fahad MBaris-Feldman, HagitButte, Manish JConstantinescu, Stefan NCooper, Megan ADalgard, Clifton LFellay, JacquesHeath, James RLau, Yu-LungLifton, Richard PMani
    Resum:
    Abstract Background We previously reported that impaired type I IFN activity, due to inborn errors of TLR3- and TLR7-dependent type I interferon (IFN) immunity or to autoantibodies against type I IFN, account for 15–20% of cases of life-threatening COVID-19 in unvaccinated patients. Therefore, the determinants of life-threatening COVID-19 remain to be identified in?~?80% of cases. Methods We report here a genome-wide rare variant burden association analysis in 3269 unvaccinated patients with life-threatening COVID-19, and 1373 unvaccinated SARS-CoV-2-infected individuals without pneumonia. Among the 928 patients tested for autoantibodies against type I IFN, a quarter (234) were positive and were excluded. Results No gene reached genome-wide significance. Under a recessive model, the most significant gene with at-risk variants was TLR7, with an OR of 27.68 (95%CI 1.5–528.7, P?=?1.1?×?10?4) for biochemically loss-of-function (bLOF) variants. We replicated the enrichment in rare predicted LOF (pLOF) variants at 13 influenza susceptibility loci involved in TLR3-dependent type I IFN immunity (OR?=?3.70[95%CI 1.3–8.2], P?=?2.1?×?10?4). This enrichment was further strengthened by (1) adding the recently reported TYK2 and TLR7 COVID-19 loci, particularly under a recessive model (OR?=?19.65[

  • Altres:

    Autor segons l'article: Matuozzo, Daniela; Talouarn, Estelle; Marchal, Astrid; Zhang, Peng; Manry, Jeremy; Seeleuthner, Yoann; Zhang, Yu; Bolze, Alexandre; Chaldebas, Matthieu; Milisavljevic, Baptiste; Gervais, Adrian; Bastard, Paul; Asano, Takaki; Bizien, Lucy; Barzaghi, Federica; Abolhassani, Hassan; Abou Tayoun, Ahmad; Aiuti, Alessandro; Alavi Darazam, Ilad; Allende, Luis M; Alonso-Arias, Rebeca; Arias, Andres Augusto; Aytekin, Gokhan; Bergman, Peter; Bondesan, Simone; Bryceson, Yenan T; Bustos, Ingrid G; Cabrera-Marante, Oscar; Carcel, Sheila; Carrera, Paola; Casari, Giorgio; Chaibi, Khalil; Colobran, Roger; Condino-Neto, Antonio; Covill, Laura E; Delmonte, Ottavia M; El Zein, Loubna; Flores, Carlos; Gregersen, Peter K; Gut, Marta; Haerynck, Filomeen; Halwani, Rabih; Hancerli, Selda; Hammarstroem, Lennart; Hatipoglu, Nevin; Karbuz, Adem; Keles, Sevgi; Kyheng, Christele; Leon-Lopez, Rafael; Franco, Jose Luis; Mansouri, Davood; Martinez-Picado, Javier; Metin Akcan, Ozge; Migeotte, Isabelle; Morange, Pierre-Emmanuel; Morelle, Guillaume; Martin-Nalda, Andrea; Novelli, Giuseppe; Novelli, Antonio; Ozcelik, Tayfun; Palabiyik, Figen; Pan-Hammarstroem, Qiang; de Diego, Rebeca Perez; Planas-Serra, Laura; Pleguezuelo, Daniel E; Prando, Carolina; Pujol, Aurora; Reyes, Luis Felipe; Riviere, Jacques G; Rodriguez-Gallego, Carlos; Rojas, Julian; Rovere-Querini, Patrizia; Schlueter, Agatha; Shahrooei, Mohammad; Sobh, Ali; Soler-Palacin, Pere; Tandjaoui-Lambiotte, Yacine; Tipu, Imran; Tresoldi, Cristina; Troya, Jesus; van de Beek, Diederik; Zatz, Mayana; Zawadzki, Pawel; Al-Muhsen, Saleh Zaid; Alosaimi, Mohammed Faraj; Alsohime, Fahad M; Baris-Feldman, Hagit; Butte, Manish J; Constantinescu, Stefan N; Cooper, Megan A; Dalgard, Clifton L; Fellay, Jacques; Heath, James R; Lau, Yu-Lung; Lifton, Richard P; Maniatis, Tom; Mogensen, Trine H; von Bernuth, Horst; Lermine, Alban; Vidaud, Michel; Boland, Anne; Deleuze, Jean-Francois; Nussbaum, Robert; Kahn-Kirby, Amanda; Mentre, France; Tubiana, Sarah; Gorochov, Guy; Tubach, Florence; Hausfater, Pierre; Meyts, Isabelle; Puel, Anne; Notarangelo, Luigi D; Boisson-Dupuis, Stephanie; Su, Helen C; Boisson, Bertrand; Jouanguy, Emmanuelle; Casanova, Jean-Laurent; Zhang, Qian; Abel, Laurent; Cobat, Aurelie
    Departament: Medicina i Cirurgia
    Autor/s de la URV: Auguet Quintillà, Maria Teresa
    Paraules clau: Wide association Type i interferon Rare variants Immunity Covid-19 type i interferon npc2 immunity disease covid-19
    Resum: <jats:title>Abstract</jats:title><jats:sec> <jats:title>Background</jats:title> <jats:p>We previously reported that impaired type I IFN activity, due to inborn errors of TLR3- and TLR7-dependent type I interferon (IFN) immunity or to autoantibodies against type I IFN, account for 15–20% of cases of life-threatening COVID-19 in unvaccinated patients. Therefore, the determinants of life-threatening COVID-19 remain to be identified in?~?80% of cases.</jats:p> </jats:sec><jats:sec> <jats:title>Methods</jats:title> <jats:p>We report here a genome-wide rare variant burden association analysis in 3269 unvaccinated patients with life-threatening COVID-19, and 1373 unvaccinated SARS-CoV-2-infected individuals without pneumonia. Among the 928 patients tested for autoantibodies against type I IFN, a quarter (234) were positive and were excluded.</jats:p> </jats:sec><jats:sec> <jats:title>Results</jats:title> <jats:p>No gene reached genome-wide significance. Under a recessive model, the most significant gene with at-risk variants was <jats:italic>TLR7</jats:italic>, with an OR of 27.68 (95%CI 1.5–528.7, <jats:italic>P</jats:italic>?=?1.1?×?10<jats:sup>?4</jats:sup>) for biochemically loss-of-function (bLOF) variants. We replicated the enrichment in rare predicted LOF (pLOF) variants at 13 influenza susceptibility loci involved in TLR3-dependent type I IFN immunity (OR?=?3.70[95%CI 1.3–8.2], <jats:italic>P</jats:italic>?=?2.1?×?10<jats:sup>?4</jats:sup>). This enrichment was further strengthened by (1) adding the recently reported <jats:italic>TYK2</jats:italic> and <jats:italic>TLR7</jats:italic> COVID-19 loci, particularly under a recessive model (OR?=?19.65[95%CI 2.1–2635.4], <jats:italic>P</jats:italic>?=?3.4?×?10<jats:sup>?3</jats:sup>), and (2) considering as pLOF branchpoint variants with potentially strong impacts on splicing among the 15 loci (OR?=?4.40[9%CI 2.3–8.4], <jats:italic>P</jats:italic>?=?7.7?×?10<jats:sup>?8</jats:sup>). Finally, the patients with pLOF/bLOF variants at these 15 loci were significantly younger (mean age [SD]?=?43.3 [20.3] years) than the other patients (56.0 [17.3] years; <jats:italic>P</jats:italic>?=?1.68?×?10<jats:sup>?5</jats:sup>).</jats:p> </jats:sec><jats:sec> <jats:title>Conclusions</jats:title> <jats:p>Rare variants of TLR3- and TLR7-dependent type I IFN immunity genes can underlie life-threatening COVID-19, particularly with recessive inheritance, in patients under 60 years old.</jats:p> </jats:sec>
    Àrees temàtiques: Saúde coletiva Molecular medicine Molecular biology Medicina ii Medicina i Genetics (clinical) Genetics & heredity Genetics Ciências biológicas iii Ciências biológicas ii Ciências biológicas i
    Accès a la llicència d'ús: https://creativecommons.org/licenses/by/3.0/es/
    Adreça de correu electrònic de l'autor: mariateresa.auguet@urv.cat
    Identificador de l'autor: 0000-0003-0396-6428
    Data d'alta del registre: 2024-08-03
    Versió de l'article dipositat: info:eu-repo/semantics/publishedVersion
    Enllaç font original: https://genomemedicine.biomedcentral.com/articles/10.1186/s13073-023-01173-8
    URL Document de llicència: https://repositori.urv.cat/ca/proteccio-de-dades/
    Referència a l'article segons font original: Genome Medicine. 15 (1): 22-
    Referència de l'ítem segons les normes APA: Matuozzo, Daniela; Talouarn, Estelle; Marchal, Astrid; Zhang, Peng; Manry, Jeremy; Seeleuthner, Yoann; Zhang, Yu; Bolze, Alexandre; Chaldebas, Matthie (2023). Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19. Genome Medicine, 15(1), 22-. DOI: 10.1186/s13073-023-01173-8
    DOI de l'article: 10.1186/s13073-023-01173-8
    Entitat: Universitat Rovira i Virgili
    Any de publicació de la revista: 2023
    Tipus de publicació: Journal Publications

  • Paraules clau:

    Genetics,Genetics & Heredity,Genetics (Clinical),Molecular Biology,Molecular Medicine
    Wide association
    Type i interferon
    Rare variants
    Immunity
    Covid-19
    type i interferon
    npc2
    immunity
    disease
    covid-19
    Saúde coletiva
    Molecular medicine
    Molecular biology
    Medicina ii
    Medicina i
    Genetics (clinical)
    Genetics & heredity
    Genetics
    Ciências biológicas iii
    Ciências biológicas ii
    Ciências biológicas i

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