1. Joint ancestry and association test indicate two distinct pathogenic pathways involved in classical dengue fever and dengue shock syndrome
- Author
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Bruno Cavadas, Luísa Pereira, Fanny Koeth, Etienne Simon-Loriere, Marisa Oliveira, Isabelle Casademont, Worachart Lert-itthiporn, Prida Malasit, Orlando Anunciação, Prapat Suriyaphol, Marina Penova, Richard Paul, Fumihiko Matsuda, Chiea Chuen Khor, Ampaiwan Chuansumrit, Kanchana Tangnararatchakit, Anavaj Sakuntabhai, Verónica Fernandes, Instituto de Investigação e Inovação em Saúde (I3S), Universidade do Porto, Siriraj Hospital, Mahidol University, Mahidol University [Bangkok], Génétique fonctionnelle des Maladies infectieuses - Functional Genetics of Infectious Diseases, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Pasteur Kyoto International Joint Research Unit for Integrative Vaccinomics [Kyoto, Japan], Institut Pasteur [Paris], Department of Pediatrics, Faculty of Medicine, Mahidol University [Bangkok]-Ramathibodi Hospital, National University of Singapore (NUS), French National Research Agency (ANR-10–INSB–04, Investments for the Future)., ANR-10-INBS-0004,France-BioImaging,Développment d'une infrastructure française distribuée coordonnée(2010), Instituto de Investigação e Inovação em Saúde, Centre National de la Recherche Scientifique (CNRS)-Institut Pasteur [Paris], Universidade do Porto = University of Porto, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Institut Pasteur [Paris] (IP), Universidade do Porto [Porto], Genome Institute of Singapore (GIS), Génétique fonctionnelle des maladies infectieuses - Functional Genetics of Infectious Diseases, Centre National de Génotypage (CNG), and Commissariat à l'énergie atomique et aux énergies alternatives (CEA)
- Subjects
Male ,Heredity ,Basic Helix-Loop-Helix Transcription Factors / genetics ,Thai People ,Viral Nonstructural Proteins / genetics ,MESH: Asia, Southeastern ,Genome-wide association study ,Genome, Viral / genetics ,Dengue virus ,MESH: Dengue Virus ,Biochemistry ,MESH: Genotype ,0302 clinical medicine ,MESH: Basic Helix-Loop-Helix Transcription Factors ,Odds Ratio ,Ethnicities ,Protein Phosphatase 2 ,MESH: Nerve Tissue Proteins ,ComputingMilieux_MISCELLANEOUS ,[SDV.MHEP.ME]Life Sciences [q-bio]/Human health and pathology/Emerging diseases ,MESH: Asian Continental Ancestry Group ,MESH: Protein Phosphatase 2 ,Genomics ,Genomic Databases ,Severe Dengue / ethnology ,MESH: Infant ,[SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] ,3. Good health ,MESH: Repressor Proteins ,MESH: Young Adult ,Child, Preschool ,[SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology ,Metabolic Pathways ,Carrier Proteins / genetics ,MESH: Cell Nucleus ,MESH: Gene Expression ,Genotype ,Bioinformatics ,lcsh:RC955-962 ,Single-nucleotide polymorphism ,MESH: Severe Dengue ,MESH: Carrier Proteins ,Serogroup ,03 medical and health sciences ,Viral Proteins ,Asian People ,Sequence Motif Analysis ,Cell Nucleus / virology ,Genetic predisposition ,Genetics ,Xenobiotic Metabolism ,Humans ,MESH: Adolescent ,MESH: Humans ,[SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE] ,Haplotype ,MESH: Child, Preschool ,Public Health, Environmental and Occupational Health ,Biology and Life Sciences ,Computational Biology ,Infant ,MESH: Adult ,lcsh:RA1-1270 ,Dengue Virus ,medicine.disease ,Tropical Diseases ,MESH: Sulfotransferases ,MESH: Cell Line ,030104 developmental biology ,Severe Dengue / genetics ,MESH: Genome-Wide Association Study ,MESH: Viral Nonstructural Proteins ,Population Groupings ,[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM] ,Carrier Proteins ,MESH: Female ,030217 neurology & neurosurgery ,0301 basic medicine ,Viral Diseases ,Gene Expression ,Repressor Proteins / genetics ,MESH: Dengue ,Viral Nonstructural Proteins ,medicine.disease_cause ,Dengue fever ,Dengue Fever ,Geographical Locations ,Dengue ,Cohort Studies ,Database and Informatics Methods ,Medicine and Health Sciences ,Basic Helix-Loop-Helix Transcription Factors ,Nerve Tissue Proteins / genetics ,MESH: Cohort Studies ,Asia, Southeastern ,Type C Phospholipases / genetics ,lcsh:Public aspects of medicine ,MESH: Genetic Predisposition to Disease ,Thailand ,Phenotype ,Europe ,Genetic Mapping ,Infectious Diseases ,Dengue Virus / genetics ,Asian Continental Ancestry Group / genetics ,Female ,Sulfotransferases ,MESH: Genome, Viral ,MESH: Type C Phospholipases ,Sequence Analysis ,Research Article ,Neglected Tropical Diseases ,Adult ,lcsh:Arctic medicine. Tropical medicine ,Adolescent ,Dengue / virology ,Dengue / genetics ,Nerve Tissue Proteins ,Genome, Viral ,Biology ,Genetic Predisposition ,Research and Analysis Methods ,Cell Line ,Young Adult ,medicine ,Viral Proteins / genetics ,Genetic Predisposition to Disease ,[SDV.MP.PAR]Life Sciences [q-bio]/Microbiology and Parasitology/Parasitology ,Severe Dengue ,MESH: Thailand ,Cell Nucleus ,Protein Phosphatase 2 / genetics ,MESH: Serogroup ,Genome Analysis ,MESH: Viral Proteins ,MESH: Male ,MESH: Odds Ratio ,Repressor Proteins ,Biological Databases ,Metabolism ,Haplotypes ,[SDV.GEN.GH]Life Sciences [q-bio]/Genetics/Human genetics ,Type C Phospholipases ,People and Places ,Genetics of Disease ,[SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie ,Genome-Wide Association Study - Abstract
Ethnic diversity has been long considered as one of the factors explaining why the severe forms of dengue are more prevalent in Southeast Asia than anywhere else. Here we take advantage of the admixed profile of Southeast Asians to perform coupled association-admixture analyses in Thai cohorts. For dengue shock syndrome (DSS), the significant haplotypes are located in genes coding for phospholipase C members (PLCB4 added to previously reported PLCE1), related to inflammation of blood vessels. For dengue fever (DF), we found evidence of significant association with CHST10, AHRR, PPP2R5E and GRIP1 genes, which participate in the xenobiotic metabolism signaling pathway. We conducted functional analyses for PPP2R5E, revealing by immunofluorescence imaging that the coded protein co-localizes with both DENV1 and DENV2 NS5 proteins. Interestingly, only DENV2-NS5 migrated to the nucleus, and a deletion of the predicted top-linking motif in NS5 abolished the nuclear transfer. These observations support the existence of differences between serotypes in their cellular dynamics, which may contribute to differential infection outcome risk. The contribution of the identified genes to the genetic risk render Southeast and Northeast Asian populations more susceptible to both phenotypes, while African populations are best protected against DSS and intermediately protected against DF, and Europeans the best protected against DF but the most susceptible against DSS., Author summary Dengue fever is endemic in tropical and subtropical areas of East Asia and America, but globalization and climate changes are introducing vector and virus to the naïve regions of Europe and North America. In this work we conducted a statistically robust, coupled association-admixture test in two dengue cohorts from Thailand (classical dengue fever, DF, and dengue shock syndrome, DSS) and a published Vietnamese (DSS only) cohort. We identified new candidate genes associated with DF risk and confirmed known gene family association with DSS risk. In DF, phosphatase control is crucial, including through binding to viral proteins, as we showed for PPP2R5E protein co-localization with DENV1 and DENV2-NS5 proteins within liver cells and differential cellular localizations along time. In DSS, cytokine dynamics, inflammation and activation of vascular endothelium cells are dominant features. The particular genetic risk conferred by these genes indicates that Southeast and Northeast Asians are highly susceptible to both phenotypes, while Africans are best protected against DSS, and Europeans best protected against DF but the most susceptible against DSS.
- Published
- 2018