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An international observational study to assess the impact of the Omicron variant emergence on the clinical epidemiology of COVID-19 in hospitalised patients

Title:	An international observational study to assess the impact of the Omicron variant emergence on the clinical epidemiology of COVID-19 in hospitalised patients
Authors:	Bronner P Gonçalves; Matthew Hall; Waasila Jassat; Valeria Balan; Srinivas Murthy; Christiana Kartsonaki; Malcolm G Semple; Amanda Rojek; Joaquín Baruch; Luis Felipe Reyes; Abhishek Dasgupta; Jake Dunning; Barbara Wanjiru Citarella; Mark Pritchard; Alejandro Martín-Quiros; Uluhan Sili; J Kenneth Baillie; Diptesh Aryal; Yaseen Arabi; Aasiyah Rashan; Andrea Angheben; Janice Caoili; François Martin Carrier; Ewen M Harrison; Joan Gómez-Junyent; Claudia Figueiredo-Mello; James Joshua Douglas; Mohd Basri Mat Nor; Yock Ping Chow; Xin Ci Wong; Silvia Bertagnolio; Soe Soe Thwin; Anca Streinu-Cercel; Leonardo Salazar; Asgar Rishu; Rajavardhan Rangappa; David S Y Ong; Madiha Hashmi; Gail Carson; Janet Diaz; Rob Fowler; Moritz U G Kraemer; Evert-Jan Wils; Peter Horby; Laura Merson; Piero L Olliaro; ISARIC Clinical Characterisation Group; Sheryl Ann Abdukahil; Audrey Dubot-Pérès; José Antonio Lepe; Ali Abbas; Kamal Abu Jabal; Nashat Abu Salah; Francisca Adewhajah; Enrico Adriano; Marina Aiello; Kate Ainscough; Eman Al Qasim; Angela Alberti; Beatrice Alex; Abdulrahman Al-Fares; Phoebe Ampaw; Sophia Ankrah; Ardiyan Apriyana; Antonio Arcadipane; Patrick Archambault; Lukas Arenz; Christel Arnold-Day; Ana Aroca; Rakesh Arora; Elizabeth A Ashley; A M Udara Lakshan Attanyake; Benjamin Bach; Irene Bandoh; Renata Barbalho; Wendy S Barclay; Michaela Barnikel; Diego Fernando Bautista Rincon; Abigail Beane; John Beca; Netta Beer; Husna Begum; David Bellemare; Anna Berenguera; Hazel Bergin; Amar Bhatt; Claudia Bianco; Moirangthem Bikram Singh; Felwa Bin Humaid; Jonathan Bitton; Catherine Blier; Lucille Blumberg; Debby Bogaert; Patrizia Bonelli; Dounia Bouhmani; Thipsavanh Bounphiengsy; Latsaniphone Bountthasavong; Bianca Boxma; Kathy Brickell; Aidan Burrell; Ingrid G Bustos; Eder Caceres; Caterina Caminiti; João Camões; Cecilia Canepa; Francesca Carlacci; Gayle Carney; Inês Carqueja; Silvia Castañeda; Nidyanara Castanheira; Roberta Cavalin; Muge Cevik; Bounthavy Chaleunphon; Adrienne Chan; Meera Chand; Alfredo Antonio Chetta; Julian Chica; Danoy Chommanam; Nathaniel Christy; Sara Clohisey; Perren J Cobb; Cassidy Codan; Marie Connor; Graham S Cooke; Mary Copland; Amanda Corley; Gloria Crowl; Paula Custodio; Ana da Silva Filipe; Andrew Dagens; Peter Daley; Heidi Dalton; Jo Dalton; Nick Daneman; Emmanuelle A Dankwa; Frédérick D'Aragon; Thushan de Silva; Jillian Deacon; William Dechert; Emmanuelle Denis; Santi Dewayanti; Pathik Dhanger; Yael Dishon; Annemarie B Docherty; Arjen M Dondorp; Maria Donnelly; Christl A Donnelly; Chloe Donohue; Peter Doran; Phouvieng Douangdala; Joanne Downey; Tom Drake; Murray Dryden; Susanne Dudman; Lucian Durham; Anne Margarita Dyrhol-Riise; Marco Echeverria-Villalobos; Giorgio Economopoulos; Michael Edelstein; Martina Escher; Mariano Esperatti; Lorinda Essuman; Amna Faheem; Arabella Fahy; Cameron J Fairfield; Laura Feeney; Carlo Ferrari; Sílvia Ferreira; Juan Fiorda; Tom Fletcher; Brigid Flynn; Federica Fogliazza; Patricia Fontela; Simon Forsyth; Robert A Fowler; Marianne Fraher; Diego Franch-Llasat; John F Fraser; Christophe Fraser; Ana Freitas Ribeiro; Nora Fuentes; G Argin; Sérgio Gaião; Linda Gail Skeie; Phil Gallagher; Carrol Gamble; Julia Garcia-Diaz; Esteban Garcia-Gallo; Federica Garofalo; Jess Gibson; Michelle Girvan; Geraldine Goco; Alicia Gonzalez; Patricia Gordon; Margarite Grable; Christopher A Green; William Greenhalf; Fiona Griffiths; Anja Grosse Lordemann; Anne-Marie Guerguerian; Daniel Haber; Hannah Habraken; Sophie Halpin; Summer Hamza; Rashan Haniffa; Hayley Hardwick; Janet Harrison; Alan Hartman; Leanne Hays; Lars Hegelund; Lars Heggelund; Ross Hendry; Liv Hesstvedt; Astarini Hidayah; Rupert Higgins; Samuel Hinton; Antonia Ho; Jan Cato Holter; Juan Pablo Horcajada; Abby Hurd; Samreen Ijaz; Clare Jackson; Nina Jamieson; Synne Jenum; Philippe Jouvet; Dafsah Juzar; Chris Kandel; Anant Kataria; Kevin Katz; Hannah Keane; Seán Keating; Yvelynne Kelly; Sadie Kelly; Kalynn Kennon; Sharma Keshav; Imrana Khalid; Michelle E Kho; Saye Khoo; Peter Kiiza; Beathe Kiland Granerud; Anders Benjamin Kildal; Anders Kildal; Paul Klenerman; Gry Kloumann Bekken; Stephen R Knight; Robin Kobbe; Paa Kobina Forson; Chamira Kodippily; Franklina Korkor Abebrese; Volkan Korten; Karolina Krawczyk; Deepali Kumar; Demetrios Kutsogiannis; Ama Kwakyewaa Bedu-Addo; François Lamontagne; Marina Lanza; Nicola Latronico; Andy Law; Teresa Lawrence; James Lee; Jennifer Lee; Gary Leeming; Amy Lester-Grant; Andrew Letizia; Gianluigi Li Bassi; Janet Liang; Wei Shen Lim; Andreas Lind; Ruth Lyons; Giuseppe Maglietta; Maria Majori; Paddy Mallon; Patrizia Mammi; Frank Manetta; Ceila Maria Sant Ana Malaque; Daniel Marino; Carlos Cañada Illana; Catherine Marquis; Hannah Marrinan; Laura Marsh; John Marshall; Dori-Ann Martin; Ignacio Martin-Loeches; Alejandro Martin-Quiros; Caroline Martins Rego; Gennaro Martucci; Eva Miranda Marwali; David Maslove; Sabina Mason; Henrique Mateus Fernandes; Romans Matulevics; Mayfong Mayxay; Colin McArthur; Anne McCarthy; Rachael McConnochie; Sarah E McDonald; Allison McGeer; Johnny McKeown; Kenneth A McLean; Elaine McPartlan; Edel Meaney; Kusum Menon; Alexander J Mentzer; Tiziana Meschi; Dan Meyer; Alison M Meynert; Efstathia Mihelis; Elena Molinos; Brenda Molloy; Claudia Montes; Shona C Moore; Sarah Moore; Lina Morales Cely; Caroline Mudara; Fredrik Müller; Karl Erik Müller; Laveena Munshi; Lorna Murphy; Himed Musaab; Carlotta Mutti; Himasha Muvindi; Mangala Narasimhan; Matthew Nelder; Emily Neumann; Alistair Nichol; Lisa Norman; Mahdad Noursadeghi; Giovanna Occhipinti; Derbrenn OConnor; Katie O'Hearn; Wilna Oosthuyzen; Peter Openshaw; Linda O'Shea; Massimo Palmarini; Giovanna Panarello; Prasan Kumar Panda; Hem Paneru; Paolo Parducci; Rachael Parke; Melissa Parker; Laura Patrizi; Lisa Patterson; Mical Paul; William A Paxton; Mare Pejkovska; Luis Periel; Michele Petrovic; Frank Olav Pettersen; Scott Pharand; Ooyanong Phonemixay; Soulichanya Phoutthavong; Roberta Pisi; Riinu Pius; Simone Piva; Georgios Pollakis; Andra-Maris Post; Jeff Powis; Viladeth Praphasiri; Mark G Pritchard; Gamage Dona Dilanthi Priyadarshani; Matteo Puntoni; Vilmaris Quinones-Cardona; Else Quist-Paulsen; Anais Rampello; Elena Ranza; Thalha Rashan; Indrek Rätsep; Cornelius Rau; Francesco Rausa; Brenda Reeve; Liadain Reid; Dag Henrik Reikvam; Jordi Rello; Oleksa Rewa; Maria Angelica Rivera Nuñez; Stephanie Roberts; David L Robertson; Ferran Roche-Campo; Roberto Roncon-Albuquerque; Matteo Rossetti; Sandra Rossi; Clark D Russell; Aleksander Rygh Holten; Luca Sacchelli; Musharaf Sadat; Valla Sahraei; Kizy Sanchez de Oliveira; Vanessa Sancho-Shimizu; Gyan Sandhu; Zulfiqar Sandhu; Oana Sandulescu; Marlene Santos; Shirley Sarfo-Mensah; Iam Claire E Sarmiento; Sree Satyapriya; Rumaisah Satyawati; Egle Saviciute; Gary Schwartz; Janet T Scott; James Scott-Brown; Ellen Shadowitz; Shaikh Sharjeel; Catherine A Shaw; Victoria Shaw; Rajesh Mohan Shetty; Haixia Shi; Mohiuddin Shiekh; Sally Shrapnel; Moses Siaw-Frimpong; Bountoy Sibounheuang; Louise Sigfrid; Piret Sillaots; Budha Charan Singh; Pompini Agustina Sitompul; Vegard Skogen; Sue Smith; Michelle Smyth; Tom Solomon; Rima Song; B P Sanka Ruwan Sri Darshana; Shiranee Sriskandan; Stephanie-Susanne Stecher; Trude Steinsvik; Birgitte Stiksrud; Adrian Streinu-Cercel; David Stuart; Jacky Y Suen; Charlotte Summers; Jaques Sztajnbok; Maria Lawrensia Tampubolon; Richard S Tedder; Hubert Tessier-Grenier; Shaun Thompson; David Thomson; Emma C Thomson; Ryan S Thwaites; Andrea Ticinesi; Paul Tierney; Tirupakuzhi Vijayaraghavan; Kristian Tonby; Rosario Maria Torres Santos-Olmo; Lance C W Turtle; Anders Tveita; P G Ishara Udayanga; Alberto Uribe; Timothy M Uyeki; Ilaria Valzano; Pooja Varghese; Michael Varrone; Sebastian Vencken; James Vickers; José Ernesto Vidal; Judit Villar; Andrea Villoldo; Chiara Vitiello; Manivanh Vongsouvath; Steve Webb; Jia Wei; Sanne Wesselius; Murray Wham; Nicole White; Surya Otto Wijaya; Stephanie Yerkovich; Touxiong Yiaye; Obada Yousif; Saptadi Yuliarto; Maram Zahran; Maria Zambon
Contributors:	P Gonçalves, Bronner; Hall, Matthew; Jassat, Waasila; Balan, Valeria; Murthy, Sriniva; Kartsonaki, Christiana; G Semple, Malcolm; Rojek, Amanda; Baruch, Joaquín; Felipe Reyes, Lui; Dasgupta, Abhishek; Dunning, Jake; Wanjiru Citarella, Barbara; Pritchard, Mark; Martín-Quiros, Alejandro; Sili, Uluhan; Kenneth Baillie, J; Aryal, Diptesh; Arabi, Yaseen; Rashan, Aasiyah; Angheben, Andrea; Caoili, Janice; Martin Carrier, Françoi; M Harrison, Ewen; Gómez-Junyent, Joan; Figueiredo-Mello, Claudia; Joshua Douglas, Jame; Basri Mat Nor, Mohd; Ping Chow, Yock; Ci Wong, Xin; Bertagnolio, Silvia; Soe Thwin, Soe; Streinu-Cercel, Anca; Salazar, Leonardo; Rishu, Asgar; Rangappa, Rajavardhan; Y Ong, David S; Hashmi, Madiha; Carson, Gail; Diaz, Janet; Fowler, Rob; G Kraemer, Moritz U; Wils, Evert-Jan; Horby, Peter; Merson, Laura; L Olliaro, Piero; Clinical Characterisation Group, Isaric; Ann Abdukahil, Sheryl; Dubot-Pérès, Audrey; Antonio Lepe, José; Abbas, Ali; Abu Jabal, Kamal; Abu Salah, Nashat; Adewhajah, Francisca; Adriano, Enrico; Aiello, Marina; Ainscough, Kate; Al Qasim, Eman; Alberti, Angela; Alex, Beatrice; Al-Fares, Abdulrahman; Ampaw, Phoebe; Ankrah, Sophia; Apriyana, Ardiyan; Arcadipane, Antonio; Archambault, Patrick; Arenz, Luka; Arnold-Day, Christel; Aroca, Ana; Arora, Rakesh; A Ashley, Elizabeth; M Udara Lakshan Attanyake, A; Bach, Benjamin; Bandoh, Irene; Barbalho, Renata; S Barclay, Wendy; Barnikel, Michaela; Fernando Bautista Rincon, Diego; Beane, Abigail; Beca, John; Beer, Netta; Begum, Husna; Bellemare, David; Berenguera, Anna; Bergin, Hazel; Bhatt, Amar; Bianco, Claudia; Bikram Singh, Moirangthem; Bin Humaid, Felwa; Bitton, Jonathan; Blier, Catherine; Blumberg, Lucille; Bogaert, Debby; Bonelli, Patrizia; Bouhmani, Dounia
Publication Year:	2022
Collection:	Università degli Studi di Ferrara: CINECA IRIS
Subject Terms:	COVID-19; Omicron; emergence; epidemiology; fatality; global health; infectious disease; microbiology; symptoms; viruses
Description:	Background: Whilst timely clinical characterisation of infections caused by novel SARS-CoV-2 variants is necessary for evidence-based policy response, individual-level data on infecting variants are typically only available for a minority of patients and settings. Methods: Here, we propose an innovative approach to study changes in COVID-19 hospital presentation and outcomes after the Omicron variant emergence using publicly available population-level data on variant relative frequency to infer SARS-CoV-2 variants likely responsible for clinical cases. We apply this method to data collected by a large international clinical consortium before and after the emergence of the Omicron variant in different countries. Results: Our analysis, that includes more than 100,000 patients from 28 countries, suggests that in many settings patients hospitalised with Omicron variant infection less often presented with commonly reported symptoms compared to patients infected with pre-Omicron variants. Patients with COVID-19 admitted to hospital after Omicron variant emergence had lower mortality compared to patients admitted during the period when Omicron variant was responsible for only a minority of infections (odds ratio in a mixed-effects logistic regression adjusted for likely confounders, 0.67 [95% confidence interval 0.61-0.75]). Qualitatively similar findings were observed in sensitivity analyses with different assumptions on population-level Omicron variant relative frequencies, and in analyses using available individual-level data on infecting variant for a subset of the study population. Conclusions: Although clinical studies with matching viral genomic information should remain a priority, our approach combining publicly available data on variant frequency and a multi-country clinical characterisation dataset with more than 100,000 records allowed analysis of data from a wide range of settings and novel insights on real-world heterogeneity of COVID-19 presentation and clinical outcome.
Document Type:	article in journal/newspaper
File Description:	ELETTRONICO
Language:	English
Relation:	info:eu-repo/semantics/altIdentifier/pmid/36197074; info:eu-repo/semantics/altIdentifier/wos/WOS:000932747500001; volume:11; firstpage:e80556-1; lastpage:e80556-42; numberofpages:42; journal:ELIFE; https://hdl.handle.net/11392/2592732; https://elifesciences.org/articles/80556
DOI:	10.7554/eLife.80556
Availability:	https://hdl.handle.net/11392/2592732; https://doi.org/10.7554/eLife.80556; https://elifesciences.org/articles/80556
Accession Number:	edsbas.8AB50A0C
Database:	BASE