Enteric Viral Zoonoses: Counteracting Through One Health Approach
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Towards the Improved Accuracy of Hepatitis E Diagnosis In
healthcare Review Towards the Improved Accuracy of Hepatitis E Diagnosis in Vulnerable and Target Groups: A Global Perspective on the Current State of Knowledge and the Implications for Practice Jasminka Talapko 1 , Tomislav Meštrovi´c 2,3, Emina Pustijanac 4 and Ivana Škrlec 1,* 1 Faculty of Dental Medicine and Health, Josip Juraj Strossmayer University of Osijek, HR-31000 Osijek, Croatia; [email protected] 2 University Centre Varaždin, University North, HR-42000 Varaždin, Croatia; [email protected] 3 Clinical Microbiology and Parasitology Unit, Dr. Zora Profozi´cPolyclinic, HR-10000 Zagreb, Croatia 4 Faculty of Natural Sciences, Juraj Dobrila University of Pula, HR-52100 Pula, Croatia; [email protected] * Correspondence: [email protected] Abstract: The hepatitis E virus (HEV) is a positive single-stranded, icosahedral, quasi-enveloped RNA virus in the genus Orthohepevirus of the family Hepeviridae. Orthohepevirus A is the most numerous species of the genus Orthohepevirus and consists of eight different HEV genotypes that can cause infection in humans. HEV is a pathogen transmitted via the fecal–oral route, most commonly by consuming fecally contaminated water. A particular danger is the HEV-1 genotype, which poses a very high risk of vertical transmission from the mother to the fetus. Several outbreaks caused by this genotype have been reported, resulting in many premature births, abortions, and also neonatal Citation: Talapko, J.; Meštrovi´c,T.; and maternal deaths. Genotype 3 is more prevalent in Europe; however, due to the openness of Pustijanac, E.; Škrlec, I. Towards the the market, i.e., trade-in animals which represent a natural reservoir of HEV (such as pigs), there is Improved Accuracy of Hepatitis E a possibility of spreading HEV infections outside endemic areas. -
Cloning of Human Picobirnavirus Genomic Segments and Development of an RT-PCR Detection Assay
Virology 277, 316–329 (2000) doi:10.1006/viro.2000.0594, available online at http://www.idealibrary.com on Cloning of Human Picobirnavirus Genomic Segments and Development of an RT-PCR Detection Assay Blair I. Rosen,*,†,1 Zhao-Yin Fang,‡ Roger I. Glass,* and Stephan S. Monroe*,2 *Viral Gastroenteritis Section, Respiratory and Enteric Viruses Branch, Division of Viral and Rickettsial Diseases, National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia 30333; †Department of Veterans Affairs, Atlanta Research and Education Foundation, Decatur, Georgia 30033; and ‡Enteric Virus Branch, Institute of Virology, Chinese Academy of Preventive Medicine, Beijing, China 100052 Received May 1, 2000; returned to author for revision June 15, 2000; accepted August 4, 2000 Nearly full-length genomic segments 2 and a partial-length genomic segment 1 of human picobirnavirus were cloned and sequenced. The clones were derived from viruses obtained from human immunodeficiency virus (HIV)-infected patients in Atlanta, Georgia (strains 3-GA-91 and 4-GA-91) and a nonHIV-infected person from China (strain 1-CHN-97). The picobirna- virus genomic segments lacked sequence similarities with other viral sequences in GenBank and EMBL. Comparison of genomic segment 1 from a human and a rabbit picobirnavirus identified a region of 127 nucleotides with 54.7% identity. The genomic segments 2 of the 4-GA-91 and 1-CHN-97 strains had 41.4% nucleic acid identity and 30.0% amino acid similarity and contained amino acid motifs typical of RNA-dependent RNA polymerase genes. Reverse transcription-PCR detection assays were developed with primers targeted to the genomic segments 2 of strains 4-GA-91 or 1-CHN-97. -
Characterizing and Evaluating the Zoonotic Potential of Novel Viruses Discovered in Vampire Bats
viruses Article Characterizing and Evaluating the Zoonotic Potential of Novel Viruses Discovered in Vampire Bats Laura M. Bergner 1,2,* , Nardus Mollentze 1,2 , Richard J. Orton 2 , Carlos Tello 3,4, Alice Broos 2, Roman Biek 1 and Daniel G. Streicker 1,2 1 Institute of Biodiversity, Animal Health and Comparative Medicine, College of Medical, Veterinary and Life Sciences, University of Glasgow, Glasgow G12 8QQ, UK; [email protected] (N.M.); [email protected] (R.B.); [email protected] (D.G.S.) 2 MRC–University of Glasgow Centre for Virus Research, Glasgow G61 1QH, UK; [email protected] (R.J.O.); [email protected] (A.B.) 3 Association for the Conservation and Development of Natural Resources, Lima 15037, Peru; [email protected] 4 Yunkawasi, Lima 15049, Peru * Correspondence: [email protected] Abstract: The contemporary surge in metagenomic sequencing has transformed knowledge of viral diversity in wildlife. However, evaluating which newly discovered viruses pose sufficient risk of infecting humans to merit detailed laboratory characterization and surveillance remains largely speculative. Machine learning algorithms have been developed to address this imbalance by ranking the relative likelihood of human infection based on viral genome sequences, but are not yet routinely Citation: Bergner, L.M.; Mollentze, applied to viruses at the time of their discovery. Here, we characterized viral genomes detected N.; Orton, R.J.; Tello, C.; Broos, A.; through metagenomic sequencing of feces and saliva from common vampire bats (Desmodus rotundus) Biek, R.; Streicker, D.G. and used these data as a case study in evaluating zoonotic potential using molecular sequencing Characterizing and Evaluating the data. -
HEPATITIS E VIRCLIA® Igm MONOTEST
EN 1 N KIT FEATURES: HEPATITIS E VIRCLIA® IgM All reagents supplied are ready to use. Serum dilution solution and conjugate are coloured to help in MONOTEST the performance of the technique. For in vitro diagnostic use Sample predilution is not necessary. Reagents required for the run of the test are included in the VCM067: Indirect chemiluminescent immunoassay (CLIA) to monodose presentation. test IgM antibodies against hepatitis E virus in human serum/plasma. 24 tests. KIT CONTENTS: 1 VIRCLIA® HEPATITIS E IgM MONODOSE: 24 monodoses consisting of 3 reaction wells and 5 reagent wells with de INTRODUCTION: following composition : Hepatitis E virus (HEV) is the causative agent of hepatitis E. HEV Wells A, B, C: reaction wells; wells coated with anti-IgM belongs to the family Hepeviridae. Four out of seven genotypes antibodies (µ-specific). of Orthohepevirus A are known to infect humans. Genotypes 1 Well D: Conjugate: orange; containing HEV recombinant and 2 are responsible for human infections exclusively and are antigen, peroxidase conjugate dilution and Neolone and endemic in Asia, Africa and some American countries. Bronidox as preservatives. Genotypes 3 and 4 are zoonotic and present in Europe, United Well E: Serum dilution solution: blue; phosphate buffer States, Japan, China and Taiwan. HEV is transmitted via the fecal-oral route. Foodborne infection can occur from containing protein stabilizers and Neolone and Bronidox as consumption of uncooked/undercooked meat or organs from preservatives. infected animals. A wide range of clinical manifestations, from Well F: Calibrator: clear; positiveONLY serum dilution containing asymptomatic or subclinical to acute liver failure, can be Neolone and Bronidox as preservatives. -
Viruses in Transplantation - Not Always Enemies
Viruses in transplantation - not always enemies Virome and transplantation ECCMID 2018 - Madrid Prof. Laurent Kaiser Head Division of Infectious Diseases Laboratory of Virology Geneva Center for Emerging Viral Diseases University Hospital of Geneva ESCMID eLibrary © by author Conflict of interest None ESCMID eLibrary © by author The human virome: definition? Repertoire of viruses found on the surface of/inside any body fluid/tissue • Eukaryotic DNA and RNA viruses • Prokaryotic DNA and RNA viruses (phages) 25 • The “main” viral community (up to 10 bacteriophages in humans) Haynes M. 2011, Metagenomic of the human body • Endogenous viral elements integrated into host chromosomes (8% of the human genome) • NGS is shaping the definition Rascovan N et al. Annu Rev Microbiol 2016;70:125-41 Popgeorgiev N et al. Intervirology 2013;56:395-412 Norman JM et al. Cell 2015;160:447-60 ESCMID eLibraryFoxman EF et al. Nat Rev Microbiol 2011;9:254-64 © by author Viruses routinely known to cause diseases (non exhaustive) Upper resp./oropharyngeal HSV 1 Influenza CNS Mumps virus Rhinovirus JC virus RSV Eye Herpes viruses Parainfluenza HSV Measles Coronavirus Adenovirus LCM virus Cytomegalovirus Flaviviruses Rabies HHV6 Poliovirus Heart Lower respiratory HTLV-1 Coxsackie B virus Rhinoviruses Parainfluenza virus HIV Coronaviruses Respiratory syncytial virus Parainfluenza virus Adenovirus Respiratory syncytial virus Coronaviruses Gastro-intestinal Influenza virus type A and B Human Bocavirus 1 Adenovirus Hepatitis virus type A, B, C, D, E Those that cause -
Origins and Evolution of the Global RNA Virome
bioRxiv preprint doi: https://doi.org/10.1101/451740; this version posted October 24, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 Origins and Evolution of the Global RNA Virome 2 Yuri I. Wolfa, Darius Kazlauskasb,c, Jaime Iranzoa, Adriana Lucía-Sanza,d, Jens H. 3 Kuhne, Mart Krupovicc, Valerian V. Doljaf,#, Eugene V. Koonina 4 aNational Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA 5 b Vilniaus universitetas biotechnologijos institutas, Vilnius, Lithuania 6 c Département de Microbiologie, Institut Pasteur, Paris, France 7 dCentro Nacional de Biotecnología, Madrid, Spain 8 eIntegrated Research Facility at Fort Detrick, National Institute of Allergy and Infectious 9 Diseases, National Institutes of Health, Frederick, Maryland, USA 10 fDepartment of Botany and Plant Pathology, Oregon State University, Corvallis, Oregon, USA 11 12 #Address correspondence to Valerian V. Dolja, [email protected] 13 14 Running title: Global RNA Virome 15 16 KEYWORDS 17 virus evolution, RNA virome, RNA-dependent RNA polymerase, phylogenomics, horizontal 18 virus transfer, virus classification, virus taxonomy 1 bioRxiv preprint doi: https://doi.org/10.1101/451740; this version posted October 24, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 19 ABSTRACT 20 Viruses with RNA genomes dominate the eukaryotic virome, reaching enormous diversity in 21 animals and plants. The recent advances of metaviromics prompted us to perform a detailed 22 phylogenomic reconstruction of the evolution of the dramatically expanded global RNA virome. -
Mini Review Picobirnavirus: a Putative Emerging Threat to Humans And
Advances in Animal and Veterinary Sciences Mini Review Picobirnavirus: A Putative Emerging Threat to Humans and Animals JOBIN JOSE KATTOOR, SHUBHANKAR SIRCAR, SHARAD SAURAB, SHANMUGANATHAN SUBRAMANIYAN, KULDEEP DHAMA, YASHPAL SINGH MALIK* ICAR-Indian Veterinary Research Institute, Izatnagar 243122, Bareilly, Uttar Pradesh, India. Abstract | Diarrheal diseases remain fatal threat to human and animal population with the emergence of new types of pathogens. Among them, viral gastroenteritis plays a lion share with a number ranging over 100 different types including emerging and re-emerging types of viruses. Recent viral metagenomics studies confirm the co-existence of viruses in gastrointestinal tract of several different host species. A Picobirnavirus, consisting of 2 segments, has recently attained attention due to its wide host range and genetic variability. Until 2011, these small viruses were not consid- ered as a separate virus family, when a new family (Picobirnaviridae) was approved by the International Committee on Taxonomy of Viruses (ICTV). Currently two distinct genogroups (GG-I and GG-II) and one predicted genogroup (GG-III) are included in the Picobirnaviridae family. Recently, picobirnavirus infections have been reported from al- most all species including wild animals where persistent infection of the virus is also reported. Picobirnaviruses (PBVs) are also reported as opportunistic pathogens in immuno compromised hosts including HIV infected patients. Presence of atypical picobirnaviruses with shorter genomic segments along with genetic closeness of animal and human PBVs and its ability to infect immuno-compromised hosts pose a heavy threat for all human and animal. Currently RNA dependent RNA polymerase based RT-PCR detection is considered as a rapid and sensitive method for detection of PBV. -
Coinfection of Diarrheagenic Bacterial and Viral Pathogens in Piglets of Northeast Region of India
Veterinary World, EISSN: 2231-0916 RESEARCH ARTICLE Available at www.veterinaryworld.org/Vol.12/February-2019/6.pdf Open Access Coinfection of diarrheagenic bacterial and viral pathogens in piglets of Northeast region of India Hosterson Kylla1, Tapan K. Dutta2, Parimal Roychoudhury2 and Prasant K. Subudhi2 1. Department of A.H and Veterinary, Disease Investigation Office, Meghalaya, Shillong, India; 2. Department of Veterinary Microbiology, Central Agricultural University, Aizawl, Mizoram, India. Corresponding author: Hosterson Kylla, e-mail: [email protected] Co-authors: TKD: [email protected], PR: [email protected], PKS: [email protected] Received: 15-10-2018, Accepted: 26-12-2018, Published online: 09-02-2019 doi: 10.14202/vetworld.2019.224-230 How to cite this article: Kylla H, Dutta TK, Roychoudhury P, Subudhi PK (2019) Coinfection of diarrheagenic bacterial and viral pathogens in piglets of Northeast region of India, Veterinary World, 12(2): 224-230. Abstract Aim: This study aimed to study the prevalence of the coinfection of enteric bacterial and viral pathogens, namely Escherichia coli, Salmonella, Rotavirus, and Picobirnavirus from fecal samples of pre-weaned piglets in Northeast region of India. Materials and Methods: A total of 457 fresh fecal samples were collected from piglets under 9 weeks old during 2013-2015 from organized (n=225) and unorganized (n=232) farms of Manipur, Meghalaya, Mizoram, and Nagaland. Samples were collected from diarrheic (n =339) and non-diarrheic (n=118) piglets including local indigenous (n=130) and crossbreed (n=327) piglets in different seasons during the study period. The samples were processed for the isolation of E. coli and Salmonella and detection of their putative virulence genes by polymerase chain reaction (PCR). -
Evolutionary Origins of Enteric Hepatitis Viruses
Downloaded from http://perspectivesinmedicine.cshlp.org/ on September 26, 2021 - Published by Cold Spring Harbor Laboratory Press Evolutionary Origins of Enteric Hepatitis Viruses Anna-Lena Sander,1,2 Victor Max Corman,1,2 Alexander N. Lukashev,3,4 and Jan Felix Drexler1,2 1Charité-Universitätsmedizin Berlin, Corporate Member of Freie Universität Berlin, Humboldt-Universität zu Berlin, and Berlin Institute of Health, Institute of Virology, Berlin 10117, Germany 2German Center for Infection Research (DZIF), Germany 3Martsinovsky Institute of Medical Parasitology, Tropical and Vector Borne Diseases, Sechenov University, 119991 Moscow, Russia 4Chumakov Federal Scientific Center for Research and Development of Immune-and-Biological Preparations, 142782 Moscow, Russia Correspondence: [email protected] The enterically transmitted hepatitis A (HAV) and hepatitis E viruses (HEV) are the leading causes of acute viral hepatitis in humans. Despite the discovery of HAVand HEV 40–50 years ago, their evolutionary origins remain unclear. Recent discoveries of numerous nonprimate hepatoviruses and hepeviruses allow revisiting the evolutionary history of these viruses. In this review, we provide detailed phylogenomic analyses of primate and nonprimate hepato- viruses and hepeviruses. We identify conserved and divergent genomic properties and cor- roborate historical interspecies transmissions by phylogenetic comparisons and recombina- tion analyses. We discuss the likely non-recent origins of human HAV and HEV precursors carried by mammals other than primates, and detail current zoonotic HEV infections. The novel nonprimate hepatoviruses and hepeviruses offer exciting new possibilities for future research focusing on host range and the unique biological properties of HAV and HEV. epatitis Avirus (HAV) and hepatitis E virus tions in the world are acquired through contam- H(HEV) are the most common causes of inated water and food (Sattar et al. -
Foodborne Viruses
Available online at www.sciencedirect.com ScienceDirect Foodborne viruses 1,2 1,2 1,2 Albert Bosch , Rosa M Pinto´ and Susana Guix Among the wide variety of viral agents liable to be found as food mortality, although the actual global burden of unsafe contaminants, noroviruses and hepatitis A virus are responsible food consumption remains hard to estimate [1]. Several for most well characterized foodborne virus outbreaks. factors, among them the increasing population and the Additionally, hepatitis E virus has emerged as a potential demand for continuous availability of seasonal products zoonotic threat.Molecular methods, including an ISO standard, all year-around, lead to global food trade among regions are available for norovirus and hepatitis A virus detection in with different hygienic standards and the vulnerability of foodstuffs, although the significance of genome copy the food supply. detection with regard to the associated health risk is yet to be determined through viability assays.More precise and rapid The World Health Organization (WHO) Foodborne Dis- methods for early foodborne outbreak investigation are ease Burden Epidemiology Reference Group provided in being developed and they will need to be validated versus 2015 the first estimates of global foodborne disease inci- the ISO standard. In addition, protocols for next-generation dence, mortality, and disease burden in terms of Disability sequencing characterization of outbreak-related samples Adjusted Life Years (DALYs) [1]. The global burden of must be developed, harmonized and validated as well. foodborne hazards was 33 million DALYs in 2010 (95% Addresses uncertainty interval [UI] 25–46); 40% affecting children 1 Enteric Virus Group, Department of Microbiology, University of under 5 years of age. -
Understanding the Genetic Diversity of Picobirnavirus: a Classification Update Based on Phylogenetic and Pairwise Sequence Comparison Approaches
viruses Article Understanding the Genetic Diversity of Picobirnavirus: A Classification Update Based on Phylogenetic and Pairwise Sequence Comparison Approaches Lester J. Perez * , Gavin A. Cloherty and Michael G. Berg Infectious Diseases Research, Abbott Diagnostics, Abbott Park, IL 60064, USA; [email protected] (G.A.C.); [email protected] (M.G.B.) * Correspondence: [email protected]; Tel.: +1-224-668-7501 Abstract: Picobirnaviruses (PBVs) are small, double stranded RNA viruses with an ability to infect a myriad of hosts and possessing a high degree of genetic diversity. PBVs are currently classified into two genogroups based upon classification of a 200 nt sequence of RdRp. We demonstrate here that this phylogenetic marker is saturated, affected by homoplasy, and has high phylogenetic noise, resulting in 34% unsolved topologies. By contrast, full-length RdRp sequences provide reliable topologies that allow ancestralism of members to be correctly inferred. MAFFT alignment and maximum likelihood trees were established as the optimal methods to determine phylogenetic relationships, providing complete resolution of PBV RdRp and capsid taxa, each into three monophyletic groupings. Pairwise distance calculations revealed these lineages represent three species. For RdRp, the application of cutoffs determined by theoretical taxonomic distributions indicates that there are five genotypes Citation: Perez, L.J.; Cloherty, G.A.; in species 1, eight genotypes in species 2, and three genotypes in species 3. Capsids were also Berg, M.G. Understanding the Genetic Diversity of Picobirnavirus: divided into three species, but sequences did not segregate into statistically supported subdivisions, A Classification Update Based on indicating that diversity is lower than RdRp. -
Ancient Recombination Events and the Origins of Hepatitis E Virus Andrew G
Kelly et al. BMC Evolutionary Biology (2016) 16:210 DOI 10.1186/s12862-016-0785-y RESEARCH ARTICLE Open Access Ancient recombination events and the origins of hepatitis E virus Andrew G. Kelly, Natalie E. Netzler and Peter A. White* Abstract Background: Hepatitis E virus (HEV) is an enteric, single-stranded, positive sense RNA virus and a significant etiological agent of hepatitis, causing sporadic infections and outbreaks globally. Tracing the evolutionary ancestry of HEV has proved difficult since its identification in 1992, it has been reclassified several times, and confusion remains surrounding its origins and ancestry. Results: To reveal close protein relatives of the Hepeviridae family, similarity searching of the GenBank database was carried out using a complete Orthohepevirus A, HEV genotype I (GI) ORF1 protein sequence and individual proteins. The closest non-Hepeviridae homologues to the HEV ORF1 encoded polyprotein were found to be those from the lepidopteran-infecting Alphatetraviridae family members. A consistent relationship to this was found using a phylogenetic approach; the Hepeviridae RdRp clustered with those of the Alphatetraviridae and Benyviridae families. This puts the Hepeviridae ORF1 region within the “Alpha-like” super-group of viruses. In marked contrast, the HEV GI capsid was found to be most closely related to the chicken astrovirus capsid, with phylogenetic trees clustering the Hepeviridae capsid together with those from the Astroviridae family, and surprisingly within the “Picorna-like” supergroup. These results indicate an ancient recombination event has occurred at the junction of the non-structural and structure encoding regions, which led to the emergence of the entire Hepeviridae family.