Endemic SARS-Cov-2 Will Maintain Post-Pandemic Immunity
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Contrasting Influenza and Respiratory Syncytial Virus
REVIEW published: 02 March 2018 doi: 10.3389/fimmu.2018.00323 Induction and Subversion of Human Protective Immunity: Contrasting influenza and Respiratory Syncytial Virus Stephanie Ascough, Suzanna Paterson and Christopher Chiu* Section of Infectious Diseases and Immunity, Imperial College London, London, United Kingdom Respiratory syncytial virus (RSV) and influenza are among the most important causes of severe respiratory disease worldwide. Despite the clinical need, barriers to devel- oping reliably effective vaccines against these viruses have remained firmly in place for decades. Overcoming these hurdles requires better understanding of human immunity and the strategies by which these pathogens evade it. Although superficially similar, the virology and host response to RSV and influenza are strikingly distinct. Influenza induces robust strain-specific immunity following natural infection, although protection by current vaccines is short-lived. In contrast, even strain-specific protection is incomplete after RSV Edited by: and there are currently no licensed RSV vaccines. Although animal models have been Steven Varga, critical for developing a fundamental understanding of antiviral immunity, extrapolating University of Iowa, United States to human disease has been problematic. It is only with recent translational advances Reviewed by: (such as controlled human infection models and high-dimensional technologies) that the Tara Marlene Strutt, mechanisms responsible for differences in protection against RSV compared to influenza University of Central Florida, have begun to be elucidated in the human context. Influenza infection elicits high-affinity United States Jie Sun, IgA in the respiratory tract and virus-specific IgG, which correlates with protection. Long- Mayo Clinic Minnesota, lived influenza-specific T cells have also been shown to ameliorate disease. -
Globalization and Infectious Diseases: a Review of the Linkages
TDR/STR/SEB/ST/04.2 SPECIAL TOPICS NO.3 Globalization and infectious diseases: A review of the linkages Social, Economic and Behavioural (SEB) Research UNICEF/UNDP/World Bank/WHO Special Programme for Research & Training in Tropical Diseases (TDR) The "Special Topics in Social, Economic and Behavioural (SEB) Research" series are peer-reviewed publications commissioned by the TDR Steering Committee for Social, Economic and Behavioural Research. For further information please contact: Dr Johannes Sommerfeld Manager Steering Committee for Social, Economic and Behavioural Research (SEB) UNDP/World Bank/WHO Special Programme for Research and Training in Tropical Diseases (TDR) World Health Organization 20, Avenue Appia CH-1211 Geneva 27 Switzerland E-mail: [email protected] TDR/STR/SEB/ST/04.2 Globalization and infectious diseases: A review of the linkages Lance Saker,1 MSc MRCP Kelley Lee,1 MPA, MA, D.Phil. Barbara Cannito,1 MSc Anna Gilmore,2 MBBS, DTM&H, MSc, MFPHM Diarmid Campbell-Lendrum,1 D.Phil. 1 Centre on Global Change and Health London School of Hygiene & Tropical Medicine Keppel Street, London WC1E 7HT, UK 2 European Centre on Health of Societies in Transition (ECOHOST) London School of Hygiene & Tropical Medicine Keppel Street, London WC1E 7HT, UK TDR/STR/SEB/ST/04.2 Copyright © World Health Organization on behalf of the Special Programme for Research and Training in Tropical Diseases 2004 All rights reserved. The use of content from this health information product for all non-commercial education, training and information purposes is encouraged, including translation, quotation and reproduction, in any medium, but the content must not be changed and full acknowledgement of the source must be clearly stated. -
UC Irvine UC Irvine Electronic Theses and Dissertations
UC Irvine UC Irvine Electronic Theses and Dissertations Title Computation Models of Virus Dynamics Permalink https://escholarship.org/uc/item/3zb6480f Author Roy, Sarah M. Publication Date 2015 Peer reviewed|Thesis/dissertation eScholarship.org Powered by the California Digital Library University of California UNIVERSITY OF CALIFORNIA, IRVINE Computational Models of Virus Dynamics DISSERTATION submitted in partial satisfaction of the requirements for the degree of DOCTOR OF PHILOSOPHY in Ecology and Evolutionary Biology by Sarah Marie Roy Dissertation Committee: Professor Dominik Wodarz, Chair Associate Professor Robin Bush Associate Professor Kevin Thornton 2015 © 2015 Sarah Marie Roy DEDICATION To my parents and to Hans, in loving memory ii TABLE OF CONTENTS Page LIST OF FIGURES iv ACKNOWLEDGMENTS v CURRICULUM VITAE vi ABSTRACT OF THE DISSERTATION vii INTRODUCTION 1 CHAPTER 1: Infection of HIV-specific CD4 T helper cells and the clonal 13 composition of the response CHAPTER 2: Tissue architecture, feedback regulation, and resilience to 46 viral infection CHAPTER 3: An Agent-Based Model of HIV Coinfection 71 iii LIST OF FIGURES Page Figure 1.1 Outcomes of model (1) assuming a single helper cell cell clone 21 Figure 1.2 Outcomes of model (2) assuming two independently regulated 24 helper cell clones Figure 1.3 Outcomes of model (2) depending on a and b 26 Figure 1.4 Outcomes of model (2) depending on r1 and r2 27 Figure 1.5 Outcomes of model (4) depending on CTL parameters 33 Figure 2.1 Dependence of Sfrac and Dfrac on replication rate, b 53 Figure 2.2 Tissue architecture and resilience to infection according to 55 model (2) Figure 2.3 Uncontrolled growth in the context of negative feedback 59 according to model (2) Figure 2.4 Two different virus persistence equilibria in the stem cell 61 infection model Figure 2.5 Stem cell infection rate vs. -
Optimal Vaccine Subsidies for Endemic and Epidemic Diseases Matthew Goodkin-Gold, Michael Kremer, Christopher M
WORKING PAPER · NO. 2020-162 Optimal Vaccine Subsidies for Endemic and Epidemic Diseases Matthew Goodkin-Gold, Michael Kremer, Christopher M. Snyder, and Heidi L. Williams NOVEMBER 2020 5757 S. University Ave. Chicago, IL 60637 Main: 773.702.5599 bfi.uchicago.edu OPTIMAL VACCINE SUBSIDIES FOR ENDEMIC AND EPIDEMIC DISEASES Matthew Goodkin-Gold Michael Kremer Christopher M. Snyder Heidi L. Williams The authors are grateful for helpful comments from Witold Więcek and seminar participants in the Harvard Economics Department, Yale School of Medicine, the “Infectious Diseases in Poor Countries and the Social Sciences” conference at Cornell University, the DIMACS “Game Theoretic Approaches to Epidemiology and Ecology” workshop at Rutgers University, the “Economics of the Pharmaceutical Industry” roundtable at the Federal Trade Commission’s Bureau of Economics, the U.S. National Institutes of Health “Models of Infectious Disease Agent” study group at the Hutchinson Cancer Research Center in Seattle, the American Economic Association “Economics of Infectious Disease” session, and the Health and Pandemics (HELP!) Economics Working Group “Covid-19 and Vaccines” workshop. Maya Durvasula, Nishi Jain, Amrita Misha, Frank Schilbach, and Alfian Tjandra provided excellent research assistance. Williams gratefully acknowledges financial support from NIA grant number T32- AG000186 to the NBER. © 2020 by Matthew Goodkin-Gold, Michael Kremer, Christopher M. Snyder, and Heidi L. Williams. All rights reserved. Short sections of text, not to exceed two paragraphs, may be quoted without explicit permission provided that full credit, including © notice, is given to the source. Optimal Vaccine Subsidies for Endemic and Epidemic Diseases Matthew Goodkin-Gold, Michael Kremer, Christopher M. Snyder, and Heidi L. -
Some Simple Rules for Estimating Reproduction Numbers in the Presence of Reservoir Exposure Or Imported Cases
Some simple rules for estimating reproduction numbers in the presence of reservoir exposure or imported cases Angus McLure1*, Kathryn Glass1 1 Research School of Population Health, Australian National University, 62 Mills Rd, Acton, 0200, ACT, Australia * Corresponding author: [email protected] 1 Abstract The basic reproduction number () is a threshold parameter for disease extinction or survival in isolated populations. However no human population is fully isolated from other human or animal populations. We use compartmental models to derive simple rules for the basic reproduction number for populations with local person‐to‐person transmission and exposure from some other source: either a reservoir exposure or imported cases. We introduce the idea of a reservoir‐driven or importation‐driven disease: diseases that would become extinct in the population of interest without reservoir exposure or imported cases (since 1, but nevertheless may be sufficiently transmissible that many or most infections are acquired from humans in that population. We show that in the simplest case, 1 if and only if the proportion of infections acquired from the external source exceeds the disease prevalence and explore how population heterogeneity and the interactions of multiple strains affect this rule. We apply these rules in two cases studies of Clostridium difficile infection and colonisation: C. difficile in the hospital setting accounting for imported cases, and C. difficile in the general human population accounting for exposure to animal reservoirs. We demonstrate that even the hospital‐adapted, highly‐transmissible NAP1/RT027 strain of C. difficile had a reproduction number <1 in a landmark study of hospitalised patients and therefore was sustained by colonised and infected admissions to the study hospital. -
Dissecting Human Antibody Responses Against Influenza a Viruses and Antigenic Changes That Facilitate Immune Escape
University of Pennsylvania ScholarlyCommons Publicly Accessible Penn Dissertations 2018 Dissecting Human Antibody Responses Against Influenza A Viruses And Antigenic Changes That Facilitate Immune Escape Seth J. Zost University of Pennsylvania, [email protected] Follow this and additional works at: https://repository.upenn.edu/edissertations Part of the Allergy and Immunology Commons, Immunology and Infectious Disease Commons, Medical Immunology Commons, and the Virology Commons Recommended Citation Zost, Seth J., "Dissecting Human Antibody Responses Against Influenza A Viruses And Antigenic Changes That Facilitate Immune Escape" (2018). Publicly Accessible Penn Dissertations. 3211. https://repository.upenn.edu/edissertations/3211 This paper is posted at ScholarlyCommons. https://repository.upenn.edu/edissertations/3211 For more information, please contact [email protected]. Dissecting Human Antibody Responses Against Influenza A Viruses And Antigenic Changes That Facilitate Immune Escape Abstract Influenza A viruses pose a serious threat to public health, and seasonal circulation of influenza viruses causes substantial morbidity and mortality. Influenza viruses continuously acquire substitutions in the surface glycoproteins hemagglutinin (HA) and neuraminidase (NA). These substitutions prevent the binding of pre-existing antibodies, allowing the virus to escape population immunity in a process known as antigenic drift. Due to antigenic drift, individuals can be repeatedly infected by antigenically distinct influenza strains over the course of their life. Antigenic drift undermines the effectiveness of our seasonal influenza accinesv and our vaccine strains must be updated on an annual basis due to antigenic changes. In order to understand antigenic drift it is essential to know the sites of antibody binding as well as the substitutions that facilitate viral escape from immunity. -
A New Twenty-First Century Science for Effective Epidemic Response
Review A new twenty-first century science for effective epidemic response https://doi.org/10.1038/s41586-019-1717-y Juliet Bedford1, Jeremy Farrar2*, Chikwe Ihekweazu3, Gagandeep Kang4, Marion Koopmans5 & John Nkengasong6 Received: 10 June 2019 Accepted: 24 September 2019 With rapidly changing ecology, urbanization, climate change, increased travel and Published online: 6 November 2019 fragile public health systems, epidemics will become more frequent, more complex and harder to prevent and contain. Here we argue that our concept of epidemics must evolve from crisis response during discrete outbreaks to an integrated cycle of preparation, response and recovery. This is an opportunity to combine knowledge and skills from all over the world—especially at-risk and afected communities. Many disciplines need to be integrated, including not only epidemiology but also social sciences, research and development, diplomacy, logistics and crisis management. This requires a new approach to training tomorrow’s leaders in epidemic prevention and response. connected, high-density urban areas (particularly relevant to Ebola, Anniversary dengue, influenza and severe acute respiratory syndrome-related coro- collection: navirus SARS-CoV). These factors and effects combine and interact, go.nature.com/ fuelling more-complex epidemics. nature150 Although rare compared to those diseases that cause the majority of the burden on population health, the nature of such epidemics disrupts health systems, amplifies mistrust among communities and creates high and long-lasting socioeconomic effects, especially in low- and When Nature published its first issue in 18691, a new understanding of middle-income countries. Their increasing frequency demands atten- infectious diseases was taking shape. The work of William Farr2, Ignaz tion. -
Fitness Costs Limit Influenza a Virus Hemagglutinin Glycosylation
Fitness costs limit influenza A virus hemagglutinin PNAS PLUS glycosylation as an immune evasion strategy Suman R. Dasa,b,1, Scott E. Hensleya,2, Alexandre Davida, Loren Schmidta, James S. Gibbsa, Pere Puigbòc, William L. Incea, Jack R. Benninka, and Jonathan W. Yewdella,3 aLaboratory of Viral Diseases, National Institute of Allergy and Infectious Disease, National Institutes of Health, Bethesda, MD 20892; bEmory Vaccine Center, Emory University, Atlanta, GA 30322; and cNational Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894 AUTHOR SUMMARY Influenza A virus remains an acid substitutions distributed important human pathogen among the four antigenic sites largely because of its ability to recognized by various mono- evade antibodies that neutralize clonal antibodies, indicating viral infectivity. The virus conserved antigenicity among escapes neutralization by alter- the mutants for this mAb (2). ing the target of these anti- Third and highly ironically, bodies, the HA glycoprotein, in escape mutants selected with a process known as antigenic H28-A2 show reduced binding drift. HA attaches the virus to to a remarkably large frac- specific molecules (terminal tion of other monoclonal anti- sialic acid residues) on target bodies (71%) that recognize cells to initiate the infectious one (or a combination) of the cycle. Antibodies that interact four antigenic sites in the glob- with the globular structure ular domain. of the HA protein physically Sequencing of two H28-A2 block virus attachment or the egg-generated escape mutants subsequent HA-mediated (OV1 and OV2) immediately fusion of viral and cellular revealed that their low fre- membranes, thereby neutraliz- quency and high degree of ing viral infectivity. -
Selection of Antigenically Advanced Variants of Seasonal Influenza Viruses
ARTICLES PUBLISHED: 23 MAY 2016 | ARTICLE NUMBER: 16058 | DOI: 10.1038/NMICROBIOL.2016.58 Selection of antigenically advanced variants of seasonal influenza viruses Chengjun Li1†,MasatoHatta1†, David F. Burke2,3†, Jihui Ping1†,YingZhang1†,MakotoOzawa1,4, Andrew S. Taft1, Subash C. Das1, Anthony P. Hanson1, Jiasheng Song1, Masaki Imai1,5, Peter R. Wilker1, Tokiko Watanabe6, Shinji Watanabe6,MutsumiIto7, Kiyoko Iwatsuki-Horimoto7, Colin A. Russell3,8,9, Sarah L. James2,3, Eugene Skepner2,3, Eileen A. Maher1, Gabriele Neumann1, Alexander I. Klimov10‡, Anne Kelso11,JohnMcCauley12,DayanWang13, Yuelong Shu13,TakatoOdagiri14, Masato Tashiro14, Xiyan Xu10,DavidE.Wentworth10, Jacqueline M. Katz10,NancyJ.Cox10, Derek J. Smith2,3,15* and Yoshihiro Kawaoka1,4,6,7* Influenza viruses mutate frequently, necessitating constant updates of vaccine viruses. To establish experimental approaches that may complement the current vaccine strain selection process, we selected antigenic variants from human H1N1 and H3N2 influenza virus libraries possessing random mutations in the globular head of the haemagglutinin protein (which includes the antigenic sites) by incubating them with human and/or ferret convalescent sera to human H1N1 and H3N2 viruses. We also selected antigenic escape variants from human viruses treated with convalescent sera and from mice that had been previously immunized against human influenza viruses. Our pilot studies with past influenza viruses identified escape mutants that were antigenically similar to variants that emerged in nature, establishing the feasibility of our approach. Our studies with contemporary human influenza viruses identified escape mutants before they caused an epidemic in 2014–2015. This approach may aid in the prediction of potential antigenic escape variants and the selection of future vaccine candidates before they become widespread in nature. -
Revisiting the Elusive Hepatitis C Vaccine
Editorial Revisiting the Elusive Hepatitis C Vaccine Stephen M. Todryk 1,2,* , Margaret F. Bassendine 2,* and Simon H. Bridge 1,2,* 1 Faculty of Health & Life Sciences, Northumbria University, Newcastle upon Tyne NE1 8ST, UK 2 Translational & Clinical Research Institute, The Medical School, Newcastle University, Newcastle upon Tyne NE2 4HH, UK * Correspondence: [email protected] (S.M.T.); [email protected] (M.F.B.); [email protected] (S.H.B.) The impactful discovery and subsequent characterisation of hepatitis C virus (HCV), an RNA virus of the flavivirus family, led to the awarding of the 2020 Nobel Prize in Physiology or Medicine to Harvey J. Alter, Michael Houghton and Charles M. Rice [1]. However, despite the significant advances recognised by this Nobel prize, an effective HCV vaccine remains elusive. The recent success of vaccines against SARS-CoV-2, developed with unprecedented speed, has shone a bright light on the vaccination process for protection against viral threats and may provide renewed impetus for the development of vaccines for other viruses. HCV infection remains a major global health problem as approximately three quarters of those infected develop chronic infection, leading to morbidity and mortality due to progressive liver fibrosis, cirrhosis and cancer. The World Health Organization (WHO) estimates that 71.1 million people are living with chronic HCV, resulting in over 400,000 deaths every year. In 2016, the WHO adopted a global strategy with the aim of eliminating viral hepatitis as a public health problem, comprising targets to reduce new viral hepatitis infections by 90% and reduce deaths due to viral hepatitis by 65% by 2030. -
THE CORONAVIRUS WILL BECOME ENDEMIC a Nature Survey Shows Many Scientists Expect SARS-Cov-2 Is Here to Stay, but It Could Pose Less Danger Over Time
Feature LISELOTTE SABROE/RITZAU SCANPIX/AFP/GETTY SABROE/RITZAU LISELOTTE Children in Copenhagen play during the SARS-CoV-2 pandemic. Endemic viruses are often first encountered in childhood. THE CORONAVIRUS WILL BECOME ENDEMIC A Nature survey shows many scientists expect SARS-CoV-2 is here to stay, but it could pose less danger over time. By Nicky Phillips or much of the past year, life in Western beginning of the year after a security guard at than 100 immunologists, infectious-disease Australia has been coronavirus-free. a hotel where visitors were quarantined tested researchers and virologists working on the coro- Friends gathered in pubs; people positive for the virus. But the experience in navirus whether it could be eradicated. Almost kissed and hugged their relatives; Western Australia has provided a glimpse into 90% of respondents think that the coronavirus children went to school without tem- a life free from the SARS-CoV-2 coronavirus. If will become endemic — meaning that it will con- perature checks or wearing masks. other regions, aided by vaccines, aimed for a tinue to circulate in pockets of the global popu- The state maintained this envia- similar zero-COVID strategy, then could the lation for years to come (see 'Endemic future'). ble position only by placing heavy world hope to rid itself of the virus? “Eradicating this virus right now from the Frestrictions on travel and imposing lockdowns It’s a beautiful dream but most scientists think world is a lot like trying to plan the construction — some regions entered a snap lockdown at the it’s improbable. -
The Immunological Basis for Immunization Series
The Immunological Basis for Immunization Series Module 23: Influenza Vaccines Immunization, Vaccines and Biologicals The immunological basis for immunization series: module 23: influenza vaccines (Immunological basis for immunization series; module 23) ISBN 978-92-4-151305-0 © World Health Organization 2017 Some rights reserved. This work is available under the Creative Commons Attribution- NonCommercial-ShareAlike 3.0 IGO licence (CC BY-NC-SA 3.0 IGO; https://creativecommons.org/licenses/by-nc-sa/3.0/igo). Under the terms of this licence, you may copy, redistribute and adapt the work for non- commercial purposes, provided the work is appropriately cited, as indicated below. In any use of this work, there should be no suggestion that WHO endorses any specific organization, products or services. The use of the WHO logo is not permitted. If you adapt the work, then you must license your work under the same or equivalent Creative Commons licence. If you create a translation of this work, you should add the following disclaimer along with the suggested citation: “This translation was not created by the World Health Organization (WHO). WHO is not responsible for the content or accuracy of this translation. The original English edition shall be the binding and authentic edition”. Any mediation relating to disputes arising under the licence shall be conducted in accordance with the mediation rules of the World Intellectual Property Organization. Suggested citation. The immunological basis for immunization series: module 23: influenza vaccines. Geneva: World Health Organization; 2017 (Immunological basis for immunization series; module 23). Licence: CC BY-NC-SA 3.0 IGO.