Genomic epidemiology uncovers the timing and origin of the emergence of mpox in humans.

Autor:	Parker E; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria.; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA, USA., Omah IF; Institute of Ecology and Evolution, University of Edinburgh, The King's Buildings, Edinburgh EH9 3FL, UK.; Department of Parasitology and Entomology, Nnamdi Azikiwe University, Awka, Nigeria., Varilly P; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Magee A; Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA., Ayinla AO; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Sijuwola AE; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Ahmed MI; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Ope-Ewe OO; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Ogunsanya OA; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Olono A; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Eromon P; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Tomkins-Tinch CH; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Otieno JR; Theiagen Genomics, Highlands Ranch, CO, USA., Akanbi O; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Egwuenu A; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Ehiakhamen O; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Chukwu C; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Suleiman K; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Akinpelu A; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Ahmad A; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Imam KI; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Ojedele R; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Oripenaye V; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Ikeata K; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Adelakun S; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Olajumoke B; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Djuicy DD; Virology Service, Centre Pasteur du Cameroun, 451 Rue 2005, Yaounde 2, P.O. Box 1274., Essengue LLM; Virology Service, Centre Pasteur du Cameroun, 451 Rue 2005, Yaounde 2, P.O. Box 1274., Yifomnjou MHM; Virology Service, Centre Pasteur du Cameroun, 451 Rue 2005, Yaounde 2, P.O. Box 1274., Zeller M; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA, USA., Gangavarapu K; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA, USA., O'Toole Á; Institute of Ecology and Evolution, University of Edinburgh, The King's Buildings, Edinburgh EH9 3FL, UK., Park DJ; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Mboowa G; Africa Centres for Disease Control and Prevention, P.O. Box 3243, Addis Ababa, Ethiopia., Tessema SK; Africa Centres for Disease Control and Prevention, P.O. Box 3243, Addis Ababa, Ethiopia., Tebeje YK; Africa Centres for Disease Control and Prevention, P.O. Box 3243, Addis Ababa, Ethiopia., Folarin O; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria.; Department of Biological Sciences, Faculty of Natural Sciences, Redeemer's University, Ede, Osun State, Nigeria., Happi A; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria., Lemey P; Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium., Suchard MA; Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA.; Department of Biomathematics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA.; Department of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA 90095, USA., Andersen KG; Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA, USA.; Scripps Research Translational Institute, La Jolla, CA 92037, USA., Sabeti P; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; Department of Immunology and Infectious Diseases, Harvard T H Chan School of Public Health, Boston, MA 02115., Rambaut A; Institute of Ecology and Evolution, University of Edinburgh, The King's Buildings, Edinburgh EH9 3FL, UK., Njoum R; Virology Service, Centre Pasteur du Cameroun, 451 Rue 2005, Yaounde 2, P.O. Box 1274., Ihekweazu C; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Jide I; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Adetifa I; Nigeria Centre for Disease Control and Prevention, Abuja, Nigeria., Happi CT; African Center of Excellence for Genomics of Infectious Diseases, Redeemer's University, Ede, Osun State, Nigeria.; Department of Biological Sciences, Faculty of Natural Sciences, Redeemer's University, Ede, Osun State, Nigeria.; Department of Immunology and Infectious Diseases, Harvard T H Chan School of Public Health, Boston, MA 02115.
Jazyk:	angličtina
Zdroj:	MedRxiv : the preprint server for health sciences [medRxiv] 2024 Jun 19. Date of Electronic Publication: 2024 Jun 19.
DOI:	10.1101/2024.06.18.24309104
Abstrakt:	Five years before the 2022-2023 global mpox outbreak Nigeria reported its first cases in nearly 40 years, with the ongoing epidemic since driven by sustained human-to-human transmission. However, limited genomic data has left questions about the timing and origin of the mpox virus' (MPXV) emergence. Here we generated 112 MPXV genomes from Nigeria from 2021-2023. We identify the closest zoonotic outgroup to the human epidemic in southern Nigeria, and estimate that the lineage transmitting from human-to-human emerged around July 2014, circulating cryptically until detected in September 2017. The epidemic originated in Southern Nigeria, particularly Rivers State, which also acted as a persistent and dominant source of viral dissemination to other states. We show that APOBEC3 activity increased MPXV's evolutionary rate twenty-fold during human-to-human transmission. We also show how Delphy, a tool for near-real-time Bayesian phylogenetics, can aid rapid outbreak analytics. Our study sheds light on MPXV's establishment in West Africa before the 2022-2023 global outbreak and highlights the need for improved pathogen surveillance and response. Competing Interests: Competing interest declaration MAS receives grants and contracts from the U.S. Food & Drug Administration, the U.S. Department of Veterans Affairs and Johnson & Johnson all outside the scope of this work.
Databáze:	MEDLINE
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