Author | Brito, Anderson Fernandes de | |
Author | Semenova, Elizaveta | |
Author | Dudas, Gytis | |
Author | Hassler, Gabriel W. | |
Author | Kalinich, Chaney C. | |
Author | Kraemer, Moritz U.G. | |
Author | Ho, Joses | |
Author | Tegally, Houriiyah | |
Author | Githinji, George | |
Author | Agoti, Charles N. | |
Author | Matkin, Lucy E. | |
Author | Whittaker, Charles | |
Author | Howden, Benjamin P. | |
Author | Sintchenko, Vitali | |
Author | Zuckerman, Neta S. | |
Author | Mor, Orna | |
Author | Blankenship, Heather M. | |
Author | Oliveira, Tulio de | |
Author | Lyn, Raymond T. P | |
Author | Siqueira, Marilda Agudo Mendonça Teixeira de | |
Author | Resende, Paola Cristina | |
Author | Vasconcelos, Ana Tereza R. | |
Author | Spilki, Fernando R. | |
Author | Aguiar, Renato Santana | |
Author | Alexiev, Ivailo | |
Author | Ivanov, Ivan N. | |
Author | Philipova, Ivva | |
Author | Carrington, Christine V. F. | |
Author | Sahadeo, Nikita S. D. | |
Author | Gurry, Céline | |
Author | Maurer-Stroh, Sebastian | |
Author | Naidoo, Dhamari | |
Author | Eije, Karin J. von | |
Author | Perkins, Mark D. | |
Author | Kerkhove, Maria van | |
Author | Hill, Sarah C. | |
Author | Sabino, Ester C. | |
Author | Pybus, Oliver G. | |
Author | Dye, Christopher | |
Author | Bhatt, Samir | |
Author | Flaxman, Seth | |
Author | Suchard, Marc A. | |
Author | Grubaugh, Nathan D. | |
Author | Baele, Guy | |
Author | Faria, Nuno R. | |
Access date | 2022-03-15T19:01:55Z | |
Available date | 2022-03-15T19:01:55Z | |
Document date | 2021 | |
Citation | BRITO, Anderson Fernandes de et al. Global disparities in SARS-CoV-2 genomic surveillance. medRxiv, p. 1-24, 9 Dec. 2021. | |
URI | https://www.arca.fiocruz.br/handle/icict/51701 | |
Language | eng | pt_BR |
Publisher | medRxiv | |
Later version | https://www.arca.fiocruz.br/handle/icict/62379 | |
Rights | open access | |
Subject in Portuguese | Vigilância genômica | pt_BR |
Subject in Portuguese | SARS-CoV-2 | pt_BR |
Subject in Portuguese | Disparidades globais | pt_BR |
Subject in Portuguese | Desigualdades socioeconômicas | pt_BR |
Title | Global disparities in SARS-CoV-2 genomic surveillance | en_US |
Type | Preprint | |
DOI | 10.1101/2021.08.21.21262393 | |
Abstract | Genomic sequencing provides critical information to track the evolution and spread of SARS-CoV-2, optimize molecular tests, treatments and vaccines, and guide public health responses. To investigate the spatiotemporal heterogeneity in the global SARS-CoV-2 genomic surveillance, we estimated the impact of sequencing intensity and turnaround times (TAT) on variant detection in 167 countries. Most countries submit 5 genomes >21 days after sample collection, and 77% of low and middle income countries sequenced <0.5% of their cases. We found that sequencing at least 0.5% of the cases, with a TAT <21 days, could be a benchmark for SARS-CoV-2 genomic surveillance efforts. Socioeconomic inequalities substantially impact our ability to quickly detect SARS-CoV-2 variants, and undermine the global pandemic preparedness. | en_US |
Affilliation | Department of Epidemiology of Microbial Diseases. Yale School of Public Health, New Haven. Connecticut, USA / Instituto Todos pela Saúde. São Paulo, SP, Brasil. | pt_BR |
Affilliation | Department of Epidemiology of Microbial Diseases. Yale School of Public Health. New Haven, Connecticut, USA / Department of Mathematics. Imperial College London. London, UK. | pt_BR |
Affilliation | Department of Epidemiology of Microbial Diseases. Yale School of Public Health. New Haven, Connecticut, USA / Gothenburg Global Biodiversity Centre. Gothenburg, Sweden. | pt_BR |
Affilliation | Department of Computational Medicine. David Geffen School of Medicine. University of California Los Angeles. Los Angeles, California, USA. | pt_BR |
Affilliation | Department of Epidemiology of Microbial Diseases. Yale School of Public Health. New Haven, Connecticut, USA / Yale School of Medicine. Yale University. New Haven, Connecticut, USA. | pt_BR |
Affilliation | Department of Zoology. University of Oxford. Oxford, United Kingdom. | pt_BR |
Affilliation | GISAID Global Data Science Initiative. Munich, Germany / Bioinformatics Institute & ID Labs. Agency for Science Technology and Research. Singapore, Singapore. | pt_BR |
Affilliation | KwaZulu–Natal Research Innovation and Sequencing Platform. School of Laboratory Medicine and Medical Sciences. University of KwaZulu–Natal. Durban, South Africa. | pt_BR |
Affilliation | KEMRI-Wellcome Trust Research Programme. Kenya / Department of Biochemistry and Biotechnology. Pwani University. Kenya. | pt_BR |
Affilliation | KEMRI-Wellcome Trust Research Programme. Kenya. | pt_BR |
Affilliation | Department of Zoology. University of Oxford. Oxford, United Kingdom, | pt_BR |
Affilliation | MRC Centre for Global Infectious Disease Analysis. School of Public Health, Imperial College London. London, United Kingdom / The Abdul Latif Jameel Institute for Disease and Emergency Analytics. School of Public Health. Imperial College London. London, United Kingdom. | pt_BR |
Affilliation | Microbiological Diagnostic Unit Public Health Laboratory. Department of Microbiology and Immunology. The University of Melbourne. Peter Doherty Institute for Infection and Immunity. Melbourne, VIC, Australia. | pt_BR |
Affilliation | Sydney Institute for Infectious Diseases. The University of Sydney. Sydney, New South Wales, Australia / Institute of Clinical Pathology and Medical Research. NSW Health Pathology. Westmead, New South Wales, Australia. | pt_BR |
Affilliation | Central Virology Laboratory. Israel Ministry of Health. Sheba Medical Center. Israel. | pt_BR |
Affilliation | Central Virology Laboratory. Israel Ministry of Health. Sheba Medical Center. Israel. | pt_BR |
Affilliation | Michigan Department of Health and Human Services. Bureau of Laboratories. Lansing, Michigan, USA. | pt_BR |
Affilliation | KwaZulu–Natal Research Innovation and Sequencing Platform. School of Laboratory Medicine and Medical Sciences. University of KwaZulu–Natal. Durban, South Africa / Centre for Epidemic Response and Innovation. School of Data Science and Computational Thinking. Stellenbosch University. Stellenbosch, South Africa / Centre for the AIDS Programme of Research in South Africa. Durban, South Africa / Department of Global Health. University of Washington. Seattle, Washington, USA. | pt_BR |
Affilliation | National Centre for Infectious Diseases. Singapore. | pt_BR |
Affilliation | Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil. | pt_BR |
Affilliation | Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil. | pt_BR |
Affilliation | Laboratório Nacional de Computação Científica. Laboratório de Bioinformática. Petrópolis, RJ, Brasil. | pt_BR |
Affilliation | Feevale Universidade. Instituto de Ciências da Saúde. Novo Hamburgo, RS, Brasil. | pt_BR |
Affilliation | Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Departamento de Genética, Ecologia e Evolução. Laboratório de Biologia Integrativa. Belo Horizonte, MG, Brasil / Instituto D’Or de Pesquisa e Ensino. Rio de Janeiro, RJ, Brasil. | pt_BR |
Affilliation | National Center of Infectious and Parasitic Diseases. Sofia, Bulgaria. | pt_BR |
Affilliation | National Center of Infectious and Parasitic Diseases. Sofia, Bulgaria. | pt_BR |
Affilliation | National Center of Infectious and Parasitic Diseases. Sofia, Bulgaria. | pt_BR |
Affilliation | Department of Preclinical Sciences. Faculty of Medical Sciences. The University of the West Indies. St. Augustine, Trinidad and Tobago. | pt_BR |
Affilliation | Department of Preclinical Sciences. Faculty of Medical Sciences. The University of the West Indies. St. Augustine, Trinidad and Tobago. | pt_BR |
Affilliation | GISAID Global Data Science Initiative. Munich, Germany. | pt_BR |
Affilliation | GISAID Global Data Science Initiative. Munich, Germany / Bioinformatics Institute & ID Labs. Agency for Science Technology and Research. Singapore, Singapore / National Centre for Infectious Diseases. Singapore. | pt_BR |
Affilliation | Health Emergencies Programme. World Health Organization Regional Office for South-East Asia. New Delhi, India. | pt_BR |
Affilliation | Department of Medical Microbiology and Infection Prevention. Division of Clinical Virology. University Medical Center Groningen. University of Groningen. Groningen, The Netherlands / Emerging Diseases and Zoonoses Unit. Health Emergencies Programme. World Health Organization. Geneva, Switzerland. | pt_BR |
Affilliation | Emerging Diseases and Zoonoses Unit. Health Emergencies Programme. World Health Organization. Geneva, Switzerland. | pt_BR |
Affilliation | Emerging Diseases and Zoonoses Unit. Health Emergencies Programme. World Health Organization. Geneva, Switzerland. | pt_BR |
Affilliation | Royal Veterinary College. Hawkshead, United Kingdom. | pt_BR |
Affilliation | Universidade de São Paulo. Faculdade de Medicina. Instituto de Medicina Tropical. São Paulo, SP, Brasil. | pt_BR |
Affilliation | Department of Zoology. University of Oxford. Oxford, United Kingdom / Royal Veterinary College. Hawkshead, United Kindom. | pt_BR |
Affilliation | Department of Zoology. University of Oxford. Oxford, United Kingdom. | pt_BR |
Affilliation | MRC Centre for Global Infectious Disease Analysis. School of Public Health, Imperial College London. London, United Kingdom / The Abdul Latif Jameel Institute for Disease and Emergency Analytics. School of Public Health. Imperial College London. London, United Kingdom / Section of Epidemiology. Department of Public Health. University of Copenhagen. Copenhagen, Denmark. | pt_BR |
Affilliation | Department of Computer Science. University of Oxford. Oxford, United Kingdom. | pt_BR |
Affilliation | Department of Computational Medicine, David Geffen School of Medicine. University of California Los Angeles. Los Angeles, California, USA / Department of Biostatistics. Fielding School of Public Health. University of California. Los Angeles, California, USA / Department of Human Genetics. David Geffen School of Medicine. University of California. Los Angeles, California, USA. | pt_BR |
Affilliation | Department of Epidemiology of Microbial Diseases. Yale School of Public Health. New Haven, Connecticut, USA / Department of Ecology and Evolutionary Biology. Yale University. New Haven, Connecticut, USA. | pt_BR |
Affilliation | Department of Microbiology. Immunology and Transplantation. Rega Institute, KU Leuven. Leuven, Belgium. | pt_BR |
Affilliation | Department of Zoology, University of Oxford. Oxford, United Kingdom / MRC Centre for Global Infectious Disease Analysis. School of Public Health. Imperial College London. London, United Kingdom / Sydney Institute for Infectious Diseases. The University of Sydney. Sydney, New South Wales, Australia / Universidade de São Paulo. Faculdade de Medicina. Instituto de Medicina Tropical. São Paulo, SP, Brasil. | pt_BR |
Subject | Global disparities | en_US |
Subject | SARS-CoV-2 | en_US |
Subject | Genomic surveillance | en_US |
Subject | Socioeconomic inequalities | en_US |
Peer reviewed | Sim | |
Publication status | Publicado | |