Antigenic Variation in Vector-Borne Pathogens
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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. -
Through a Combination of Continual Antigenic Drift of Surface Proteins and High Transmission Rates the Identity of Circulating I
Title: Computer-assisted vaccine design Hao Zhou, Ramdas S. Pophale, and Michael W. Deem Departments of Bioengineering and Physics & Astronomy Rice University Houston, TX, USA Abstract We define a new parameter to quantify the antigenic distance between two H3N2 influenza strains: we use this parameter to measure antigenic distance between circulating H3N2 strains and the closest vaccine component of the influenza vaccine. For the data between 1971 and 2004, the measure of antigenic distance correlates better with efficacy in humans of the H3N2 influenza A annual vaccine than do current state of the art measures of antigenic distance such as phylogenetic sequence analysis or ferret antisera inhibition assays. We suggest that this measure of antigenic distance could be used to guide the design of the annual flu vaccine. We combine the measure of antigenic distance with a multiple-strain avian influenza transmission model to study the threat of simultaneous introduction of multiple avian influenza strains. For H3N2 influenza, the model is validated against observed viral fixation rates and epidemic progression rates from the World Health Organization FluNet – Global Influenza Surveillance Network. We find that a multiple-component avian influenza vaccine is helpful to control a simultaneous multiple introduction of bird-flu strains. We introduce Population at Risk (PaR) to quantify the risk of a flu pandemic, and calculate by this metric the improvement that a multiple vaccine offers. Computer-assisted vaccine design Introduction Circulating influenza virus uses the ability to change its surface proteins, along with its high transmission rate, to flummox the adaptive immune response of the host. The random accumulation of mutations in the hemagglutinin (HA) and neuraminidase (NA) epitopes, the regions on surface of the viral proteins that are recognized by host antibodies, pose a formidable challenge to the design of an effective annual flu vaccine. -
Evolution and Adaptation of the Avian H7N9 Virus Into the Human Host
microorganisms Review Evolution and Adaptation of the Avian H7N9 Virus into the Human Host Andrew T. Bisset 1,* and Gerard F. Hoyne 1,2,3,4 1 School of Health Sciences, University of Notre Dame Australia, Fremantle WA 6160, Australia; [email protected] 2 Institute for Health Research, University of Notre Dame Australia, Fremantle WA 6160, Australia 3 Centre for Cell Therapy and Regenerative Medicine, School of Biomedical Sciences, The University of Western Australia, Nedlands WA 6009, Australia 4 School of Medical and Health Sciences, Edith Cowan University, Joondalup WA 6027, Australia * Correspondence: [email protected] Received: 19 April 2020; Accepted: 19 May 2020; Published: 21 May 2020 Abstract: Influenza viruses arise from animal reservoirs, and have the potential to cause pandemics. In 2013, low pathogenic novel avian influenza A(H7N9) viruses emerged in China, resulting from the reassortment of avian-origin viruses. Following evolutionary changes, highly pathogenic strains of avian influenza A(H7N9) viruses emerged in late 2016. Changes in pathogenicity and virulence of H7N9 viruses have been linked to potential mutations in the viral glycoproteins hemagglutinin (HA) and neuraminidase (NA), as well as the viral polymerase basic protein 2 (PB2). Recognizing that effective viral transmission of the influenza A virus (IAV) between humans requires efficient attachment to the upper respiratory tract and replication through the viral polymerase complex, experimental evidence demonstrates the potential H7N9 has for increased binding affinity and replication, following specific amino acid substitutions in HA and PB2. Additionally, the deletion of extended amino acid sequences in the NA stalk length was shown to produce a significant increase in pathogenicity in mice. -
Recitation 21 – Fall 2018 (Note: the Recitation Summary Should NOT Be Regarded As the Substitute for Lectures) (This Material Is COPYRIGHT Protected.)
7.016: Fall 2018: MIT 7.016 Recitation 21 – Fall 2018 (Note: The recitation summary should NOT be regarded as the substitute for lectures) (This material is COPYRIGHT protected.) Summary of Lectures 32 (12/3) & 33 (12/5): Viruses: Viruses are obligate intracellular parasites. They consist of a protein coat (capsid) surrounding a genome, which encodes for proteins. These may include structural or coat proteins, other proteins necessary to get inside the host cell and make copies of the viral genome and the proteins that provide the virus with the anti–host defense system. Non-enveloped/ naked viruses do not have a lipid bilayer surrounding their capsid. They typically dock onto a protein on the surface of the target cells and inject their genomes into the host. Enveloped viruses have a lipid bilayer. They fuse their own membrane with the host membrane, such that the entire viral particle is endocytosed into the host cell. Once a virus is inside its host, it takes over the host machinery and uses it to make coat proteins and viral genomes. The genomes are then packaged into the coats and the new viral particles escape from the host cell either by lysing the cell or budding off from the cell. Viral genomes can be composed of either DNA or RNA. They can be single-stranded or double- stranded. There are two types of single stranded RNA viruses: plus (+) stranded or minus (-) stranded. The plus (+) stranded RNA genome can be directly read and translated by the host cell translation machinery. So these viruses bring only their genome, with no additional proteins, into the host cells at the time of infection. -
Immunological and Molecular Aspects of Antigenic Variation During G
Molecular analysis of antigenic variation in Giardia lamblia and influence of intestinal inflammatory reactions on a Giardia lamblia infection in mice Inauguraldissertation der Philosophisch-naturwissenschaftlichen Fakultät der Universität Bern vorgelegt von Nicole Eva von Allmen von Lauterbrunnen Leiter der Arbeit: Prof. Dr. Norbert Müller Institut für Parasitologie der Veterinärmedizinischen und der Medizinischen Fakultät Universität Bern Molecular analysis of antigenic variation in Giardia lamblia and influence of intestinal inflammatory reactions on a Giardia lamblia infection in mice Inauguraldissertation der Philosophisch-naturwissenschaftlichen Fakultät der Universität Bern vorgelegt von Nicole Eva von Allmen von Lauterbrunnen Leiter der Arbeit: Prof. Dr. Norbert Müller Institut für Parasitologie der Veterinärmedizinischen und der Medizinischen Fakultät Universität Bern Von der philosophisch-naturwissenschaftlichen Fakultät angenommen. Bern, 24. November 2005 Der Dekan: Prof. Dr. P. Messerli von Allmen Nicole Eva - 1 - 1 Abstract Giardia lamblia is a significant, environmentally transmitted, human pathogen and an amitochondriate protist, often hypothesized to be the most basal eukaryote. It is a major contributor to the enormous worldwide burden of human diarrheal diseases, yet the basic biology of this parasite is not well understood. Antigenic variation of G. lamblia is a widely investigated field of this protozoan parasite and has also driven our experimentations in the beginning of this study. Experimental infections in the mother-offspring mouse model were performed to investigate on one hand the antigenic variation process on the transcriptional level, and on the other to simulate the natural infection mode of the parasite. Our results demonstrated that antigenic switching of duodenal trophozoite and caecal cyst populations was accompanied with an obvious reduction in vsp H7 mRNA levels but without a simultaneous increase in transcripts of any of the analyzed subvariant vsp genes. -
Antigenic Drift in Type a Influenza Virus
Proc. Natl. Acad. Sci. USA Vol. 76, No. 3, pp. 1425-1429, March 1979 Immunology Antigenic drift in type A influenza virus: Peptide mapping and antigenic analysis of A/PR/8/34 (HONI) variants selected with monoclonal antibodies (antigenic variants/hemagglutinin/peptide maps/amino acid changes) W. G. LAVER*, W. GERHARDt, R. G. WEBSTERf, M. E. FRANKELO, AND G. M. AIR* *Department of Microbiology, John Curtin School of Medical Research, Australian National University, Canberra, Australia; tThe Wistar Institute of Anatomy and Biology, 36th Street at Spruce, Philadelphia, Pennsylvania 19104; and tDivision of Virology, St Jude Children's Research Hospital, P.O. Box 318, Memphis, Tennessee 38101 Communicated by Robert M. Chanock, December 11, 1978 ABSTRACT Variants of A/PR/8/34 (HONI) influenza virus, quence (7, 8). It is likely that many of these changes are unre- having hemagglutinin molecules with probably a single altered lated to the antigenic differences between the HAs, so that antigenic determinant, were isolated by growing the virus in analysis of natural variants may not reflect the differences in the presence of the monoclonal hybridoma antibody PEG-1. The variants were analyzed by peptide mapping and characterized antigenic determinants. By using monoclonal antibodies, we antigenically by using PEG-i and four other monoclonal hy- have been able to select variant viruses in which the changes bridoma antibodies to PR8 hemagglutinin. Peptide maps of the in sequence of the HA polypeptides have a better chance of large hemagglutinin polypeptide, HAI, from 8 out of 10 variants being restricted to those affecting the determinant recognized showed a single changed peptide. -
The Development and Use of a Poxvirus Vector System to Protect Pigs Against Swine Influenza Virus Patricia Louise White Foley Iowa State University
Iowa State University Capstones, Theses and Retrospective Theses and Dissertations Dissertations 1998 The development and use of a poxvirus vector system to protect pigs against swine influenza virus Patricia Louise White Foley Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/rtd Part of the Agriculture Commons, Animal Sciences Commons, Immunology and Infectious Disease Commons, Medical Immunology Commons, Microbiology Commons, and the Veterinary Pathology and Pathobiology Commons Recommended Citation Foley, Patricia Louise White, "The development and use of a poxvirus vector system to protect pigs against swine influenza virus " (1998). Retrospective Theses and Dissertations. 12192. https://lib.dr.iastate.edu/rtd/12192 This Dissertation is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Retrospective Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. tNFORMATION TO USERS This manuscript has been reproduced from the microfilm master. UMI films the text directly firom the original or copy submitted. Thus, some thesis and dissertation copies are in typewriter face, while others may be from any type of computer printer. The quality of this reproduction is dependent upon the quality of the copy submitted. Broken or indistinct print, colored or poor quality illustrations and photographs, print bleedthrough, substandard margins, and improper alignment can adversely affect reproduction. In the unlikely event that the author did not send UMI a complete manuscript and there are missing pages, these will be noted. -
Cgm1a Antigen of Neutrophils, a Receptor of Gonococcal Opacity Proteins
Proc. Natl. Acad. Sci. USA Vol. 93, pp. 14851–14856, December 1996 Microbiology CGM1a antigen of neutrophils, a receptor of gonococcal opacity proteins TIE CHEN AND EMIL C. GOTSCHLICH Laboratory of Bacterial Pathogenesis and Immunology, The Rockefeller University, 1230 York Avenue, New York, NY 10021 Contributed by Emil C. Gotschlich, October 10, 1996 ABSTRACT Neisseria gonorrhoeae (GC) or Escherichia coli apply to all epithelial cell lines. The OpaG1 protein from strain expressing phase-variable opacity (Opa) protein (Opa1 GC or F62 GC expressed in E. coli DH5a promotes attachment and Opa1 E. coli) adhere to human neutrophils and stimulate invasion of ME180 cervical carcinoma cells (16). By dendro- phagocytosis, whereas their counterparts not expressing Opa gram analysis of Opa proteins the OpaG1 protein does not protein (Opa2 GC or Opa2 E. coli) do not. Opa1 GC or E. coli belong to the same branch as MS11 OpaA (13). We have do not adhere to human lymphocytes and promyelocytic cell shown that OpaI expressed by E. coli HB101 (pEXI) also is lines such as HL-60 cells. The adherence of Opa1 GC to the able to adhere to ME180 cells, and that this interaction is not neutrophils can be enhanced dramatically if the neutrophils inhibitable with heparin (data not shown). are preactivated. These data suggest that the components A major property of Opa proteins is the ability to stimulate binding the Opa1 bacteria might exist in the granules. CGM1a adherence and nonopsonic phagocytosis of the Opa1 bacteria antigen, a transmembrane protein of the carcinoembryonic by polymorphonuclear leukocytes (PMN). This increased as- antigen family, is exclusively expressed in the granulocytic sociation with human neutrophils by Opa1 GC was first lineage. -
Evolution and Ecology of Influenza a Viruses ROBERT G
MICROBIOLOGICAL REVIEWS, Mar. 1992, p. 152-179 Vol. 56, No. 1 0146-0749/92/010152-28$02.00/0 Copyright © 1992, American Society for Microbiology Evolution and Ecology of Influenza A Viruses ROBERT G. WEBSTER,* WILLIAM J. BEAN, OWEN T. GORMAN, THOMAS M. CHAMBERS,t AND YOSHIHIRO KAWAOKA Department of Virology and Molecular Biology, St. Jude Children's Research Hospital, 332 North Lauderdale, P.O. Box 318, Memphis, Tennessee 38101 INTRODUCTION ............ 153 STRUCTURE AND FUNCTION OF THE INFLUENZA VIRUS VIRION .153 Components of the Virion.153 PB2 polymerase.154 PB1 polymerase.154 PA polymerase ........... 154 Hemagglutinin.154 Nucleoprotein .155 Neuraminidase.155 Ml protein ............................................... 155 M2 protein .155 Nonstructural NS1 and NS2 proteins.155 Influenza Virus Replication Cycle.156 RESERVOIRS OF INFLUENZA A VIRUSES IN NATURE.156 Influenza Viruses in Birds: Wild Ducks, Shorebirds, Gulls, Poultry, and Passerine Birds.156 Influenza Viruses in Pigs.158 Influenza Viruses in Horses ....................P 159 Influenza Viruses in Other Species: Seals, Mink, and Whales.159 Molecular Determinants of Host Range Restriction.160 Mechanism for Perpetuating Influenza Viruses in Avian Species.161 Continuous circulation in aquatic bird species.161 Circulation between different avian species.161 Persistence in water or ice.161 Persistence in individual animals .161 Continuous circulation in subtropical and tropical regions .161 EVOLUTIONARY PATHWAYS.161 Evolutionary Patterns among Influenza A Viruses.161 Selection Pressures -
Exploiting Pan Influenza a and Pan Influenza B Pseudotype Libraries for Efficient Vaccine Antigen Selection
Article Exploiting Pan Influenza A and Pan Influenza B Pseudotype Libraries for Efficient Vaccine Antigen Selection Joanne Marie M. Del Rosario 1,2,3,†, Kelly A. S. da Costa 1,† , Benedikt Asbach 4 , Francesca Ferrara 1,5 , Matteo Ferrari 3,6, David A. Wells 3,6, Gurdip Singh Mann 1, Veronica O. Ameh 7,8, Claude T. Sabeta 8,9, Ashley C. Banyard 10 , Rebecca Kinsley 3,6, Simon D. Scott 1 , Ralf Wagner 4,11, Jonathan L. Heeney 3,6, George W. Carnell 3,6 and Nigel J. Temperton 1,3,* 1 Viral Pseudotype Unit, Medway School of Pharmacy, The Universities of Greenwich and Kent at Medway, Chatham ME4 4BF, UK; [email protected] (J.M.M.D.R.); [email protected] (K.A.S.d.C.); [email protected] (F.F.); [email protected] (G.S.M.); [email protected] (S.D.S.) 2 Department of Physical Sciences and Mathematics, College of Arts and Sciences, University of the Philippines Manila, Manila 1000, Philippines 3 DIOSynVax, Cambridge CB3 0ES, UK; [email protected] (M.F.); [email protected] (D.A.W.); [email protected] (R.K.); [email protected] (J.L.H.); [email protected] (G.W.C.) 4 Institute of Medical Microbiology and Hygiene, University of Regensburg, 93053 Regensburg, Germany; [email protected] (B.A.); [email protected] (R.W.) 5 Vector Development and Production Laboratory, St. Jude Children’s Research Hospital, Memphis, TN 38105, USA 6 Department of Veterinary Medicine, University of Cambridge, Cambridge CB3 0ES, UK 7 Department of Veterinary Public Health and Preventive Medicine, College of Veterinary Medicine, Federal University of Agriculture Makurdi, Makurdi P.M.B. -
The Search for Protective Host Responses
AIDS Viruses of Animals and Man ow does a host usually develop nately, appear to be resistant to destruc- The Search a state of protection against an tion by complement. H invading virus? Three major Studies performed in my laboratory host responses to invading viruses in- in 1987 showed no evidence of ACC clude activation of complement, produc- activity in humans at various stages tion of neutralizing and complement- of AIDS despite the presence of large Protective fixing antibodies, and cell-mediated im- amounts of antibody directed against mune responses. Traditionally, when both HIV and HIV-infected cells. The Host a new viral disease is recognized in a absence of ACC is also documented in species, efforts to understand the pro- visna-maedi. No ACC activity has been Responses tective immune states are derived from reported for the other animal-lentivirus its surviving members. These individ- systems mentioned here. Both my lab uals serve as immune benchmarks, and and others have shown that human com- subsequent studies often reveal impor- plement is incapable of inactivating HIV tant clues to the eventual production of either directly or in the presence of neu- a vaccine. Here we will review studies tralizing antibody. Recently, we have of the major antiviral immune responses discovered a heat-sensitive serum factor to HIV and see that none of them are in various laboratory and wild animal completely effective, although some av- species that does inactivate the human enues of developing traditional vaccines AIDS virus in vitro. Further studies are for AIDS are still open. underway to characterize this factor, or factors, and to understand how to recruit Complement. -
Can We Predict the Limits of SARS-Cov-2 Variants and Their Phenotypic Consequences?
Can we predict the limits of SARS-CoV-2 variants and their phenotypic consequences? As eradication of SARS-CoV-2 will be unlikely, we have high confidence in stating that there will always be variants. The number of variants will depend on control measures. We describe hypothetical scenarios by which SARS-CoV-2 could further evolve and acquire, through mutation, phenotypes of concern, which we assess according to possibility. For this purpose, we consider mutations in the ‘body’ of the virus (the viral genes that are expressed in infected cells and control replication and cell response), that might affect virus fitness and disease severity, separately from mutations in the spike glycoprotein that might affect virus transmission and antibody escape. We assess which scenarios are the most likely and what impact they might have and consider how these scenarios might be mitigated. We provide supporting information based on the evolution of SARS-CoV-2, human and animal coronaviruses as well as drawing parallels with other viruses. Scenario One: A variant that causes severe disease in a greater proportion of the population than has occurred to date. For example, with similar morbidity/mortality to other zoonotic coronaviruses such as SARS-CoV (~10% case fatality) or MERS-CoV (~35% case fatality). This could be caused by: 1. Point mutations or recombination with other host or viral genes. This might occur through a change in SARS-CoV-2 internal genes such as the polymerase proteins or accessory proteins. These genes determine the outcome of infection by affecting the way the virus is sensed by the cell, the speed at which the virus replicates and the anti-viral response of the cell to infection.