Mosquito-Associated Viruses in China
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The Viruses of Vervet Monkeys and of Baboons in South Africa
THE VIRUSES OF VERVET MONKEYS AND OF BABOONS IN SOUTH AFRICA Hubert Henri Malherbe A Thesis Submitted to the Faculty of Medicine University of the Witwatersrand, Johannesburg for the Degree of Doctor of Medicine Johannesburg 1974 11 ABSTRACT In this thesis are presented briefly the results of studies extending over the period 1955 to 1974. The use of vervet monkeys in South Africa for the production and testing of poliomyelitis vaccine made acquaintance with their viruses inevitable; and the subsequent introduction of the baboon as a laboratory animal of major importance also necessitates a knowledge of its viral flora. Since 1934 when Sabin and Wright described the B Virus which was recovered from a fatal human infection contracted as the result of a macaque monkey bite, numerous viral agents have been isolated from monkeys and baboons. In the United States of America, Dr. Robert N. Hull initiated the classification of simian viruses in an SV (for Simian Virus) series according to cytopathic effects as seen in unstained infected tissue cultures. In South Africa, viruses recovered from monkeys and baboons were designated numerically in an SA (for Simian Agent) series on the basis of cytopathic changes seen in stained preparations of infected cells. Integration of these two series is in progress. Simian viruses in South Africa have been recovered mainly through the inoculation of tissue cultures with material obtained by means of throat and rectal swabs, and also through the unmasking of latent agents present in kidney cells prepared as tissue cultures. Some evidence concerning viral activity has been derived from serological tests. -
Genome Sequencing by Random Priming Methods for Viral Identification
Genome sequencing by random priming methods for viral identification Rosseel Toon Dissertation submitted in fulfillment of the requirements for the degree of Doctor of Philosophy (PhD) in Veterinary Sciences, Faculty of Veterinary Medicine, Ghent University, 2015 Promotors: Dr. Steven Van Borm Prof. Dr. Hans Nauwynck “The real voyage of discovery consist not in seeking new landscapes, but in having new eyes” Marcel Proust, French writer, 1923 Table of contents Table of contents ....................................................................................................................... 1 List of abbreviations ................................................................................................................. 3 Chapter 1 General introduction ................................................................................................ 5 1. Viral diagnostics and genomics ....................................................................................... 7 2. The DNA sequencing revolution ................................................................................... 12 2.1. Classical Sanger sequencing .................................................................................. 12 2.2. Next-generation sequencing ................................................................................... 16 3. The viral metagenomic workflow ................................................................................. 24 3.1. Sample preparation ............................................................................................... -
Changes to Virus Taxonomy 2004
Arch Virol (2005) 150: 189–198 DOI 10.1007/s00705-004-0429-1 Changes to virus taxonomy 2004 M. A. Mayo (ICTV Secretary) Scottish Crop Research Institute, Invergowrie, Dundee, U.K. Received July 30, 2004; accepted September 25, 2004 Published online November 10, 2004 c Springer-Verlag 2004 This note presents a compilation of recent changes to virus taxonomy decided by voting by the ICTV membership following recommendations from the ICTV Executive Committee. The changes are presented in the Table as decisions promoted by the Subcommittees of the EC and are grouped according to the major hosts of the viruses involved. These new taxa will be presented in more detail in the 8th ICTV Report scheduled to be published near the end of 2004 (Fauquet et al., 2004). Fauquet, C.M., Mayo, M.A., Maniloff, J., Desselberger, U., and Ball, L.A. (eds) (2004). Virus Taxonomy, VIIIth Report of the ICTV. Elsevier/Academic Press, London, pp. 1258. Recent changes to virus taxonomy Viruses of vertebrates Family Arenaviridae • Designate Cupixi virus as a species in the genus Arenavirus • Designate Bear Canyon virus as a species in the genus Arenavirus • Designate Allpahuayo virus as a species in the genus Arenavirus Family Birnaviridae • Assign Blotched snakehead virus as an unassigned species in family Birnaviridae Family Circoviridae • Create a new genus (Anellovirus) with Torque teno virus as type species Family Coronaviridae • Recognize a new species Severe acute respiratory syndrome coronavirus in the genus Coro- navirus, family Coronaviridae, order Nidovirales -
RNA-Dependent RNA Polymerase Consensus Sequence of the L-A Double-Stranded RNA Virus: Definition of Essential Domains
Proc. Nati. Acad. Sci. USA Vol. 89, pp. 2185-2189, March 1992 Biochemistry RNA-dependent RNA polymerase consensus sequence of the L-A double-stranded RNA virus: Definition of essential domains JUAN CARLOS RIBAS AND REED B. WICKNER Section on the Genetics of Simple Eukaryotes, Laboratory of Biochemical Pharmacology, National Institute of Diabetes and Digestive and Kidney Diseases, Building 8, Room 207, National Institutes of Health, Bethesda, MD 20892 Communicated by Herbert Tabor, November 27, 1991 (received for review October 2, 1991) ABSTRACT The L-A double-stranded RNA virus of Sac- lacking M1 (reviewed in refs. 10 and 18). M1 depends on L-A charomyces cerevisiac makes a gag-pol fusion protein by a -1 for its coat and replication proteins (19). MAK10 is one of ribosomal frameshift. The pol amino acid sequence includes three chromosomal genes needed for L-A virus propagation consensus patterns typical of the RNA-dependent RNA poly- within yeast cells (20). In a maklO host, L-A proteins merases (EC 2.7.7.48) of (+) strand and double-stranded RNA expressed from a cDNA clone of L-A support the replication viruses of animals and plants. We have carried out "alanine- of the M1 satellite virus but (for unknown reasons) do not scanning mutagenesis" of the region of L-A including the two support propagation of the L-A virus itself (21). Thus, while most conserved polymerase motifs, SG...T...NT..N (. = any L-A requires the MAK10 product itself, M1 requires MAK10 amino acid) and GDD. By constructing and analyzing 46 only because it requires the L-A-encoded proteins. -
Identification of Capsid/Coat Related Protein Folds and Their Utility for Virus Classification
ORIGINAL RESEARCH published: 10 March 2017 doi: 10.3389/fmicb.2017.00380 Identification of Capsid/Coat Related Protein Folds and Their Utility for Virus Classification Arshan Nasir 1, 2 and Gustavo Caetano-Anollés 1* 1 Department of Crop Sciences, Evolutionary Bioinformatics Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL, USA, 2 Department of Biosciences, COMSATS Institute of Information Technology, Islamabad, Pakistan The viral supergroup includes the entire collection of known and unknown viruses that roam our planet and infect life forms. The supergroup is remarkably diverse both in its genetics and morphology and has historically remained difficult to study and classify. The accumulation of protein structure data in the past few years now provides an excellent opportunity to re-examine the classification and evolution of viruses. Here we scan completely sequenced viral proteomes from all genome types and identify protein folds involved in the formation of viral capsids and virion architectures. Viruses encoding similar capsid/coat related folds were pooled into lineages, after benchmarking against published literature. Remarkably, the in silico exercise reproduced all previously described members of known structure-based viral lineages, along with several proposals for new Edited by: additions, suggesting it could be a useful supplement to experimental approaches and Ricardo Flores, to aid qualitative assessment of viral diversity in metagenome samples. Polytechnic University of Valencia, Spain Keywords: capsid, virion, protein structure, virus taxonomy, SCOP, fold superfamily Reviewed by: Mario A. Fares, Consejo Superior de Investigaciones INTRODUCTION Científicas(CSIC), Spain Janne J. Ravantti, The last few years have dramatically increased our knowledge about viral systematics and University of Helsinki, Finland evolution. -
The Bunyaviridae Family, Has a Segmented RNA Genome with Negative Polarity
Ludwig Institute for Cancer Research, Stockholm Branch and Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden Uukuniemi virus-like particles: a model system for bunyaviral assembly Anna K Överby Stockholm 2007 Anna K Överby Previously published papers were reproduced with permission from the publishers. Published and printed by Larserics digital print AB Box 20082, SE-161 02 Bromma, Sweden © Anna K Överby, 2007 ISBN 978-91-7357-238-5 To my wonderful parents Ge mej kraft att förändra det jag kan Tålamod att acceptera det jag inte kan förändra Och vishet att se skillnaden Carolines klokbok Anna K Överby Skapande består av en massa försök Populärvetenskaplig sammanfattning Populärvetenskaplig sammanfattning Alla levande organismer vi ser omkring oss är uppbyggda av celler. Det finns i stort sett två olika sorter, eukaryota (t.ex. djur och växtceller) och prokaryota (t.ex. bakterieceller) celler. Virus är inga celler utan små parasiter som lever inuti andra celler, både eukaryota och bakterieceller. Det finns en mängd olika virus som har grupperats in i familjer. Virus inom samma familj delar egenskaper såsom storlek och arvsegenskaper. Olika virus har genom åren specialiserat sig på att infektera och leva i olika celler och organismer. Vissa virus är så specialiserade att de bara kan infektera en speciell art. Poliovirus kan t.ex. endast infektera människor och apor. Man kan då utrota viruset genom att vaccinera hela jordens befolkning. Andra virus såsom Influensavirus kan infektera många olika arter t.ex. människa, fågel och gris. Vissa arter utvecklar ingen sjukdom och sprider bara viruset vidare medan andra orsakar akut sjukdom. -
Virus Particle Structures
Virus Particle Structures Virus Particle Structures Palmenberg, A.C. and Sgro, J.-Y. COLOR PLATE LEGENDS These color plates depict the relative sizes and comparative virion structures of multiple types of viruses. The renderings are based on data from published atomic coordinates as determined by X-ray crystallography. The international online repository for 3D coordinates is the Protein Databank (www.rcsb.org/pdb/), maintained by the Research Collaboratory for Structural Bioinformatics (RCSB). The VIPER web site (mmtsb.scripps.edu/viper), maintains a parallel collection of PDB coordinates for icosahedral viruses and additionally offers a version of each data file permuted into the same relative 3D orientation (Reddy, V., Natarajan, P., Okerberg, B., Li, K., Damodaran, K., Morton, R., Brooks, C. and Johnson, J. (2001). J. Virol., 75, 11943-11947). VIPER also contains an excellent repository of instructional materials pertaining to icosahedral symmetry and viral structures. All images presented here, except for the filamentous viruses, used the standard VIPER orientation along the icosahedral 2-fold axis. With the exception of Plate 3 as described below, these images were generated from their atomic coordinates using a novel radial depth-cue colorization technique and the program Rasmol (Sayle, R.A., Milner-White, E.J. (1995). RASMOL: biomolecular graphics for all. Trends Biochem Sci., 20, 374-376). First, the Temperature Factor column for every atom in a PDB coordinate file was edited to record a measure of the radial distance from the virion center. The files were rendered using the Rasmol spacefill menu, with specular and shadow options according to the Van de Waals radius of each atom. -
A New Orbivirus Isolated from Mosquitoes in North-Western Australia Shows Antigenic and Genetic Similarity to Corriparta Virus B
viruses Article A New Orbivirus Isolated from Mosquitoes in North-Western Australia Shows Antigenic and Genetic Similarity to Corriparta Virus but Does Not Replicate in Vertebrate Cells Jessica J. Harrison 1,†, David Warrilow 2,†, Breeanna J. McLean 1, Daniel Watterson 1, Caitlin A. O’Brien 1, Agathe M.G. Colmant 1, Cheryl A. Johansen 3, Ross T. Barnard 1, Sonja Hall-Mendelin 2, Steven S. Davis 4, Roy A. Hall 1 and Jody Hobson-Peters 1,* 1 Australian Infectious Diseases Research Centre, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia 4072, Australia; [email protected] (J.J.H.); [email protected] (B.J.M.); [email protected] (D.W.); [email protected] (C.A.O.B.); [email protected] (A.M.G.C.); [email protected] (R.T.B.); [email protected] (R.A.H.) 2 Public Health Virology Laboratory, Department of Health, Queensland Government, P.O. Box 594, Archerfield 4108, Australia; [email protected] (D.W.); [email protected] (S.H.-M.) 3 School of Pathology and Laboratory Medicine, The University of Western Australia, Nedlands 6009, Australia; [email protected] 4 Berrimah Veterinary Laboratory, Department of Primary Industries and Fisheries, Darwin 0828, Australia; [email protected] * Correspondence: [email protected]; Tel.: +61-7-3365-4648 † These authors contributed equally to the work. Academic Editor: Karyn Johnson Received: 19 February 2016; Accepted: 10 May 2016; Published: 20 May 2016 Abstract: The discovery and characterisation of new mosquito-borne viruses provides valuable information on the biodiversity of vector-borne viruses and important insights into their evolution. -
Clinically Important Vector-Borne Diseases of Europe
Natalie Cleton, DVM Erasmus MC, Rotterdam Department of Viroscience [email protected] No potential conflicts of interest to disclose © by author ESCMID Online Lecture Library Erasmus Medical Centre Department of Viroscience Laboratory Diagnosis of Arboviruses © by author Natalie Cleton ESCMID Online LectureMarion Library Koopmans Chantal Reusken [email protected] Distribution Arboviruses with public health impact have a global and ever changing distribution © by author ESCMID Online Lecture Library Notifications of vector-borne diseases in the last 6 months on Healthmap.org Syndromes of arboviral diseases 1) Febrile syndrome: – Fever & Malaise – Headache & retro-orbital pain – Myalgia 2) Neurological syndrome: – Meningitis, encephalitis & myelitis – Convulsions & coma – Paralysis 3) Hemorrhagic syndrome: – Low platelet count, liver enlargement – Petechiae © by author – Spontaneous or persistent bleeding – Shock 4) Arthralgia,ESCMID Arthritis and Online Rash: Lecture Library – Exanthema or maculopapular rash – Polyarthralgia & polyarthritis Human arboviruses: 4 main virus families Family Genus Species examples Flaviviridae flavivirus Dengue 1-5 (DENV) West Nile virus (WNV) Yellow fever virus (YFV) Zika virus (ZIKV) Tick-borne encephalitis virus (TBEV) Togaviridae alphavirus Chikungunya virus (CHIKV) O’Nyong Nyong virus (ONNV) Mayaro virus (MAYV) Sindbis virus (SINV) Ross River virus (RRV) Barmah forest virus (BFV) Bunyaviridae nairo-, phlebo-©, orthobunyavirus by authorCrimean -Congo heamoragic fever (CCHFV) Sandfly fever virus -
Diversity and Evolution of Viral Pathogen Community in Cave Nectar Bats (Eonycteris Spelaea)
viruses Article Diversity and Evolution of Viral Pathogen Community in Cave Nectar Bats (Eonycteris spelaea) Ian H Mendenhall 1,* , Dolyce Low Hong Wen 1,2, Jayanthi Jayakumar 1, Vithiagaran Gunalan 3, Linfa Wang 1 , Sebastian Mauer-Stroh 3,4 , Yvonne C.F. Su 1 and Gavin J.D. Smith 1,5,6 1 Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore 169857, Singapore; [email protected] (D.L.H.W.); [email protected] (J.J.); [email protected] (L.W.); [email protected] (Y.C.F.S.) [email protected] (G.J.D.S.) 2 NUS Graduate School for Integrative Sciences and Engineering, National University of Singapore, Singapore 119077, Singapore 3 Bioinformatics Institute, Agency for Science, Technology and Research, Singapore 138671, Singapore; [email protected] (V.G.); [email protected] (S.M.-S.) 4 Department of Biological Sciences, National University of Singapore, Singapore 117558, Singapore 5 SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753, Singapore 6 Duke Global Health Institute, Duke University, Durham, NC 27710, USA * Correspondence: [email protected] Received: 30 January 2019; Accepted: 7 March 2019; Published: 12 March 2019 Abstract: Bats are unique mammals, exhibit distinctive life history traits and have unique immunological approaches to suppression of viral diseases upon infection. High-throughput next-generation sequencing has been used in characterizing the virome of different bat species. The cave nectar bat, Eonycteris spelaea, has a broad geographical range across Southeast Asia, India and southern China, however, little is known about their involvement in virus transmission. -
Diversity, Geography, and Host Range of Emerging Mosquito-Associated Viruses — China, 2010–2020
China CDC Weekly Commentary Diversity, Geography, and Host Range of Emerging Mosquito-Associated Viruses — China, 2010–2020 Yuan Fang1,2; Tian Hang2; Jinbo Xue1,2; Yuanyuan Li1; Lanhua Li3; Zixin Wei1; Limin Yang1; Yi Zhang1,2,# Epidemics of emerging and neglected infectious mosquitoes and humans in China even before the diseases are severe threats to public health and are international public health emergency. The sudden largely driven by the promotion of globalization and by outbreak of egg drop syndrome caused by the international multi-border cooperation. Mosquito- Tembusu virus (TMUV) quickly swept the coastal borne viruses are among the most important agents of provinces and neighboring regions in 2010, resulting these diseases, with an associated mortality of over one in severe economic loss in the poultry industry (8). To million people worldwide (1). The well-known date, records of TMUV have covered 18 provinces in mosquito-borne diseases (MBDs) with global scale China, and are mainly comprised of reports from the include malaria, dengue fever, chikungunya, and West last decade (9). Similarly, the Getah virus, which is Nile fever, which are the largest contributor to the mainly transmitted between mosquitoes and domestic disease burden. However, the morbidity of some livestock, has been spreading across China since 2010 MBDs has sharply decreased due to expanded (10), with an outbreak on a swine farm in Hunan in programs on immunization and more efficient control 2017 (11). Moreover, despite having a relatively short strategies (e.g., for Japanese encephalitis and yellow history (first detected in 1997), the Liao ning virus fever). Nevertheless, the global distribution and burden (LNV) has been recorded in most of Northern China, of dengue fever, chikungunya, and Zika fever are including Beijing. -
Origin and Evolution of Emerging Liaoning Virus(Genus Seadornavirus, Family Reoviridae)
Origin and Evolution of Emerging Liaoning Virusgenus Seadornavirus, family Reoviridae) Jun Zhang Shandong University of Technology Hong Liu ( [email protected] ) Shandong University of Technology https://orcid.org/0000-0002-5182-4750 Jiahui Wang Shandong University of Technology Jiheng Wang Shandong University of Technology Jianming Zhang Shandong University of Technology Jiayue Wang Shandong University of Technology Xin Zhang Shandong University of Technology Hongfang Ji Shandong University of Technology Zhongfen Ding Shandong University of Technology Han Xia Chinese Academy of Sciences Chunyang Zhang Shandong University of Technology Qian Zhao Shandong University of Technology Guodong Liang Chinese Center for Disease Control and Prevention Research Keywords: Liaoning virus, LNV, Seadornavirus, Evolution, Migration Posted Date: January 15th, 2020 DOI: https://doi.org/10.21203/rs.2.20915/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/13 Abstract Background:Liaoning virus(LNV) is a member of the genus Seadornavirus, family Reoviridae and has been isolated from kinds of sucking insects in Asia and Australia. However, there are no systematic studies describe the molecular genetic evolution and migration of LNVs isolated from different time, regions and vectors. Methods:Here, a phylogenetic analysis using Bayesian Markov chain Monte Carlo simulations was conducted on the LNVs isolated from a variety of vectors during 1990-2014,worldwide. Results:The phylogenetic analysis demonstrated that the LNV could be divided into 3 genotypes, of which genotype 1 mainly composed of LNVs isolated from Australia during 1990 to 2014 as well as the original LNV strain(LNV-NE97-31) isolated from Liaoning province in northern China in 1997,genotype 2 comprised of the isolates all from Xinjiang province in western China and genotype 3 consisted the isolates from Qinghai and Shanxi province of central China.