Taxonomy of the Order Mononegavirales: Update 2019
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Taxonomy of the Order Mononegavirales: Second Update 2018
HHS Public Access Author manuscript Author ManuscriptAuthor Manuscript Author Arch Virol Manuscript Author . Author manuscript; Manuscript Author available in PMC 2020 April 01. Published in final edited form as: Arch Virol. 2019 April ; 164(4): 1233–1244. doi:10.1007/s00705-018-04126-4. Taxonomy of the order Mononegavirales: second update 2018 A full list of authors and affiliations appears at the end of the article. Abstract In October 2018, the order Mononegavirales was amended by the establishment of three new families and three new genera, abolishment of two genera, and creation of 28 novel species. This article presents the updated taxonomy of the order Mononegavirales as now accepted by the International Committee on Taxonomy of Viruses (ICTV). Keywords artovirid; Artoviridae; artovirus; bornavirid; Bornaviridae; bornavirus; filovirid; Filoviridae; filovirus; ICTV; International Committee on Taxonomy of Viruses; lispivirid; Lispiviridae; lispivirus; mononegavirad; Mononegavirales; mononegavirus; mymonavirid;; Mymonaviridae; mymonavirus; nyamivirid; Nyamiviridae; nyamivirus; paramyxovirid; Paramyxoviridae; paramyxovirus; pneumovirid; Pneumoviridae; pneumovirus; rhabdovirid; Rhabdoviridae; rhabdovirus; sunvirid; Sunviridae; sunvirus; virus classification; virus nomenclature; virus taxonomy; xinmovirid; Xinmoviridae; xinmovirus *Corresponding author: JHK: Integrated Research Facility at Fort Detrick (IRF-Frederick), Division of Clinical Research (DCR), National Institute of Allergy and Infectious Diseases (NIAID), National Institutes -
Entry and Early Infection of Non-Segmented Negative Sense Rna Viruses
University of Kentucky UKnowledge Theses and Dissertations--Molecular and Cellular Biochemistry Molecular and Cellular Biochemistry 2021 ENTRY AND EARLY INFECTION OF NON-SEGMENTED NEGATIVE SENSE RNA VIRUSES Jean Mawuena Branttie University of Kentucky, [email protected] Digital Object Identifier: https://doi.org/10.13023/etd.2021.248 Right click to open a feedback form in a new tab to let us know how this document benefits ou.y Recommended Citation Branttie, Jean Mawuena, "ENTRY AND EARLY INFECTION OF NON-SEGMENTED NEGATIVE SENSE RNA VIRUSES" (2021). Theses and Dissertations--Molecular and Cellular Biochemistry. 54. https://uknowledge.uky.edu/biochem_etds/54 This Doctoral Dissertation is brought to you for free and open access by the Molecular and Cellular Biochemistry at UKnowledge. It has been accepted for inclusion in Theses and Dissertations--Molecular and Cellular Biochemistry by an authorized administrator of UKnowledge. For more information, please contact [email protected]. STUDENT AGREEMENT: I represent that my thesis or dissertation and abstract are my original work. Proper attribution has been given to all outside sources. I understand that I am solely responsible for obtaining any needed copyright permissions. I have obtained needed written permission statement(s) from the owner(s) of each third-party copyrighted matter to be included in my work, allowing electronic distribution (if such use is not permitted by the fair use doctrine) which will be submitted to UKnowledge as Additional File. I hereby grant to The University of Kentucky and its agents the irrevocable, non-exclusive, and royalty-free license to archive and make accessible my work in whole or in part in all forms of media, now or hereafter known. -
Entry, Replication and Immune Evasion
University of Veterinary Medicine Hannover Institute of Virology & Research Center for Emerging Infections and Zoonoses Virus-cell interactions of mumps viruses and mammalian cells: Entry, replication and immune evasion THESIS Submitted in partial fulfilment of the requirements for the degree of Doctor of Natural Sciences Doctor rerum naturalium (Dr. rer. nat.) awarded by the University of Veterinary Medicine Hannover by Sarah Isabella Theresa Hüttl (Hannover) Hannover, Germany 2020 Main supervisor: PD Nadine Krüger, PhD Supervision group: PD Nadine Krüger, PhD Prof. Dr. Bernd Lepenies Prof. Dr. Jan Felix Drexler 1st Evaluation: PD Nadine Krüger, PhD Infection Biology Unit German Primate Center - Leibniz Institute for Primate Research, Göttingen Prof. Dr. Bernd Lepenies Institute of Infection Immunology Research Center for Emerging Infections and Zoonoses University of Veterinary Medicine Hannover Prof. Dr. Jan Felix Drexler Institute of Virology Charité - Universitätsmedizin Berlin 2nd Evaluation: PD Dr. Anne Balkema-Buschmann Institute of Novel and Emerging Infectious Diseases (INNT) Friedrich-Loeffler-Institut, Insel Riems Date of submission: 08.09.2020 Date of final exam: 29.10.2020 This project was funded by grants of the German Research Foundation (DFG) to Nadine Krüger (KR 4762/2-1). Parts of this thesis have been communicated or published previously in: Publications: N. Krüger, C. Sauder, S. Hüttl, J. Papies, K. Voigt, G. Herrler, K. Hardes, T. Steinmetzer, C. Örvell, J. F. Drexler, C. Drosten, S. Rubin, M. A. Müller, M. Hoffmann. 2018. Entry, Replication, Immune Evasion, and Neurotoxicity of Synthetically Engineered Bat-Borne Mumps Virus. Cell Rep. 25(2):312-320. S. Hüttl, M. Hoffmann, T. Steinmetzer, C. Sauder, N. -
Comparative Evolutionary and Phylogenomic Analysis of Avian Avulaviruses 1 to 20
Accepted Manuscript Comparative evolutionary and phylogenomic analysis of Avian avulaviruses 1 to 20 Aziz-ul-Rahman, Muhammad Munir, Muhammad Zubair Shabbir PII: S1055-7903(17)30947-8 DOI: https://doi.org/10.1016/j.ympev.2018.06.040 Reference: YMPEV 6223 To appear in: Molecular Phylogenetics and Evolution Received Date: 1 January 2018 Revised Date: 15 May 2018 Accepted Date: 25 June 2018 Please cite this article as: Aziz-ul-Rahman, Munir, M., Zubair Shabbir, M., Comparative evolutionary and phylogenomic analysis of Avian avulaviruses 1 to 20, Molecular Phylogenetics and Evolution (2018), doi: https:// doi.org/10.1016/j.ympev.2018.06.040 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. Comparative evolutionary and phylogenomic analysis of Avian avulaviruses 1 to 20 Aziz-ul-Rahman1,3, Muhammad Munir2, Muhammad Zubair Shabbir3# 1Department of Microbiology University of Veterinary and Animal Sciences, Lahore 54600, Pakistan https://orcid.org/0000-0002-3342-4462 2Division of Biomedical and Life Sciences, Furness College, Lancaster University, Lancaster LA1 4YG United Kingdomhttps://orcid.org/0000-0003-4038-0370 3 Quality Operations Laboratory University of Veterinary and Animal Sciences 54600 Lahore, Pakistan https://orcid.org/0000-0002-3562-007X # Corresponding author: Muhammad Zubair Shabbir E. -
2020 Taxonomic Update for Phylum Negarnaviricota (Riboviria: Orthornavirae), Including the Large Orders Bunyavirales and Mononegavirales
Archives of Virology https://doi.org/10.1007/s00705-020-04731-2 VIROLOGY DIVISION NEWS 2020 taxonomic update for phylum Negarnaviricota (Riboviria: Orthornavirae), including the large orders Bunyavirales and Mononegavirales Jens H. Kuhn1 · Scott Adkins2 · Daniela Alioto3 · Sergey V. Alkhovsky4 · Gaya K. Amarasinghe5 · Simon J. Anthony6,7 · Tatjana Avšič‑Županc8 · María A. Ayllón9,10 · Justin Bahl11 · Anne Balkema‑Buschmann12 · Matthew J. Ballinger13 · Tomáš Bartonička14 · Christopher Basler15 · Sina Bavari16 · Martin Beer17 · Dennis A. Bente18 · Éric Bergeron19 · Brian H. Bird20 · Carol Blair21 · Kim R. Blasdell22 · Steven B. Bradfute23 · Rachel Breyta24 · Thomas Briese25 · Paul A. Brown26 · Ursula J. Buchholz27 · Michael J. Buchmeier28 · Alexander Bukreyev18,29 · Felicity Burt30 · Nihal Buzkan31 · Charles H. Calisher32 · Mengji Cao33,34 · Inmaculada Casas35 · John Chamberlain36 · Kartik Chandran37 · Rémi N. Charrel38 · Biao Chen39 · Michela Chiumenti40 · Il‑Ryong Choi41 · J. Christopher S. Clegg42 · Ian Crozier43 · John V. da Graça44 · Elena Dal Bó45 · Alberto M. R. Dávila46 · Juan Carlos de la Torre47 · Xavier de Lamballerie38 · Rik L. de Swart48 · Patrick L. Di Bello49 · Nicholas Di Paola50 · Francesco Di Serio40 · Ralf G. Dietzgen51 · Michele Digiaro52 · Valerian V. Dolja53 · Olga Dolnik54 · Michael A. Drebot55 · Jan Felix Drexler56 · Ralf Dürrwald57 · Lucie Dufkova58 · William G. Dundon59 · W. Paul Duprex60 · John M. Dye50 · Andrew J. Easton61 · Hideki Ebihara62 · Toufc Elbeaino63 · Koray Ergünay64 · Jorlan Fernandes195 · Anthony R. Fooks65 · Pierre B. H. Formenty66 · Leonie F. Forth17 · Ron A. M. Fouchier48 · Juliana Freitas‑Astúa67 · Selma Gago‑Zachert68,69 · George Fú Gāo70 · María Laura García71 · Adolfo García‑Sastre72 · Aura R. Garrison50 · Aiah Gbakima73 · Tracey Goldstein74 · Jean‑Paul J. Gonzalez75,76 · Anthony Grifths77 · Martin H. Groschup12 · Stephan Günther78 · Alexandro Guterres195 · Roy A. -
Characterization of Perch Rhabdovirus (PRV) in Farmed Grayling Thymallus Thymallus
Vol. 106: 117–127, 2013 DISEASES OF AQUATIC ORGANISMS Published October 11 doi: 10.3354/dao02654 Dis Aquat Org FREEREE ACCESSCCESS Characterization of perch rhabdovirus (PRV) in farmed grayling Thymallus thymallus Tuija Gadd1,*, Satu Viljamaa-Dirks2, Riikka Holopainen1, Perttu Koski3, Miia Jakava-Viljanen1,4 1Finnish Food Safety Authority Evira, Mustialankatu 3, 00790 Helsinki, Finland 2Finnish Food Safety Authority Evira, Neulaniementie, 70210 Kuopio, Finland 3Finnish Food Safety Authority Evira, Elektroniikkatie 3, 90590 Oulu, Finland 4Ministry of Agriculture and Forestry, PO Box 30, 00023 Government, Finland ABSTRACT: Two Finnish fish farms experienced elevated mortality rates in farmed grayling Thy- mallus thymallus fry during the summer months, most typically in July. The mortalities occurred during several years and were connected with a few neurological disorders and peritonitis. Viro- logical investigation detected an infection with an unknown rhabdovirus. Based on the entire gly- coprotein (G) and partial RNA polymerase (L) gene sequences, the virus was classified as a perch rhabdovirus (PRV). Pairwise comparisons of the G and L gene regions of grayling isolates revealed that all isolates were very closely related, with 99 to 100% nucleotide identity, which suggests the same origin of infection. Phylogenetic analysis demonstrated that they were closely related to the strain isolated from perch Perca fluviatilis and sea trout Salmo trutta trutta caught from the Baltic Sea. The entire G gene sequences revealed that all Finnish grayling isolates, and both the perch and sea trout isolates, were most closely related to a PRV isolated in France in 2004. According to the partial L gene sequences, all of the Finnish grayling isolates were most closely related to the Danish isolate DK5533 from pike. -
Marine Oomycetes of the Genus Halophytophthora Harbor Viruses Related to Bunyaviruses
fmicb-11-01467 July 15, 2020 Time: 14:45 # 1 ORIGINAL RESEARCH published: 15 July 2020 doi: 10.3389/fmicb.2020.01467 Marine Oomycetes of the Genus Halophytophthora Harbor Viruses Related to Bunyaviruses Leticia Botella1,2*, Josef Janoušek1, Cristiana Maia3, Marilia Horta Jung1, Milica Raco1 and Thomas Jung1 1 Phytophthora Research Centre, Department of Forest Protection and Wildlife Management, Faculty of Forestry and Wood Technology, Mendel University in Brno, Brno, Czechia, 2 Biotechnological Centre, Faculty of Agriculture, University of South Bohemia, Ceske Budejovice, Czechia, 3 Centre for Marine Sciences (CCMAR), University of Algarve, Faro, Portugal We investigated the incidence of RNA viruses in a collection of Halophytophthora spp. from estuarine ecosystems in southern Portugal. The first approach to detect the presence of viruses was based on the occurrence of dsRNA, typically considered as a viral molecule in plants and fungi. Two dsRNA-banding patterns (∼7 and 9 kb) were observed in seven of 73 Halophytophthora isolates tested (9.6%). Consequently, two dsRNA-hosting isolates were chosen to perform stranded RNA sequencing for de novo virus sequence assembly. A total of eight putative novel virus species with genomic Edited by: affinities to members of the order Bunyavirales were detected and their full-length RdRp Ioly Kotta-Loizou, gene characterized by RACE. Based on the direct partial amplification of their RdRp Imperial College London, United Kingdom gene by RT-PCR multiple viral infections occur in both isolates selected. Likewise, Reviewed by: the screening of those viruses in the whole collection of Halophytophthora isolates Robert Henry Arnold Coutts, showed that their occurrence is limited to one single Halophytophthora species. -
Characterization of Farmington Virus, a Novel Virus from Birds That Is Distantly Related to Members of the Family Rhabdoviridae
Palacios et al. Virology Journal 2013, 10:219 http://www.virologyj.com/content/10/1/219 RESEARCH Open Access Characterization of Farmington virus, a novel virus from birds that is distantly related to members of the family Rhabdoviridae Gustavo Palacios1†, Naomi L Forrester2,3,4†, Nazir Savji5,7†, Amelia P A Travassos da Rosa2, Hilda Guzman2, Kelly DeToy5, Vsevolod L Popov2,4, Peter J Walker6, W Ian Lipkin5, Nikos Vasilakis2,3,4 and Robert B Tesh2,4* Abstract Background: Farmington virus (FARV) is a rhabdovirus that was isolated from a wild bird during an outbreak of epizootic eastern equine encephalitis on a pheasant farm in Connecticut, USA. Findings: Analysis of the nearly complete genome sequence of the prototype CT AN 114 strain indicates that it encodes the five canonical rhabdovirus structural proteins (N, P, M, G and L) with alternative ORFs (> 180 nt) in the N and G genes. Phenotypic and genetic characterization of FARV has confirmed that it is a novel rhabdovirus and probably represents a new species within the family Rhabdoviridae. Conclusions: In sum, our analysis indicates that FARV represents a new species within the family Rhabdoviridae. Keywords: Farmington virus (FARV), Family Rhabdoviridae, Next generation sequencing, Phylogeny Background Results Therhabdovirusesarealargeanddiversegroupofsingle- Growth characteristics stranded, negative sense RNA viruses that infect a wide Three litters of newborn (1–2 day old) ICR mice with aver- range of vertebrates, invertebrates and plants [1]. The family agesizeof10pupswereinoculated intracerebrally (ic) with Rhabdoviridae is currently divided into nine approved ge- 15–20 μl, intraperitoneally (ip) with 100 μlorsubcutane- nera (Vesiculovirus, Perhavirus, Ephemerovirus, Lyssavirus, ously (sc) with 100 μlofastockofVero-grownFARV(CT Tibrovirus, Sigmavirus, Nucleorhabdovirus, Cytorhabdovirus AN 114) virus containing approximately 107 plaque and Novirhabdovirus);however,alargenumberofanimal forming units (PFU) per ml. -
Differential Features of Fusion Activation Within the Paramyxoviridae
viruses Review Differential Features of Fusion Activation within the Paramyxoviridae Kristopher D. Azarm and Benhur Lee * Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA; [email protected] * Correspondence: [email protected]; Tel.: +1-212-241-2552 Received: 17 December 2019; Accepted: 29 January 2020; Published: 30 January 2020 Abstract: Paramyxovirus (PMV) entry requires the coordinated action of two envelope glycoproteins, the receptor binding protein (RBP) and fusion protein (F). The sequence of events that occurs during the PMV entry process is tightly regulated. This regulation ensures entry will only initiate when the virion is in the vicinity of a target cell membrane. Here, we review recent structural and mechanistic studies to delineate the entry features that are shared and distinct amongst the Paramyxoviridae. In general, we observe overarching distinctions between the protein-using RBPs and the sialic acid- (SA-) using RBPs, including how their stalk domains differentially trigger F. Moreover, through sequence comparisons, we identify greater structural and functional conservation amongst the PMV fusion proteins, as compared to the RBPs. When examining the relative contributions to sequence conservation of the globular head versus stalk domains of the RBP, we observe that, for the protein-using PMVs, the stalk domains exhibit higher conservation and find the opposite trend is true for SA-using PMVs. A better understanding of conserved and distinct features that govern the entry of protein-using versus SA-using PMVs will inform the rational design of broader spectrum therapeutics that impede this process. Keywords: paramyxovirus; viral envelope proteins; type I fusion protein; henipavirus; virus entry; viral transmission; structure; rubulavirus; parainfluenza virus 1. -
The Nucleotide Sequence of RNA1 of Lettuce Big-Vein Virus, Genus Varicosavirus, Reveals Its Relation to Nonsegmented Negative-Strand RNA Viruses
Virology 297, 289–297 (2002) doi:10.1006/viro.2002.1420 The Nucleotide Sequence of RNA1 of Lettuce big-vein virus, Genus Varicosavirus, Reveals Its Relation to Nonsegmented Negative-Strand RNA Viruses Takahide Sasaya,*,1 Koichi Ishikawa,* and Hiroki Koganezawa† *National Agricultural Research Center for Western Region, Zentsuji Campus, Zentsuji, Kagawa 765-8508, Japan; and †National Agricultural Research Center for Western Region, Fukuyama, Hiroshima 721-8514, Japan Received December 12, 2001; accepted February 14, 2002 The complete nucleotide sequence of RNA1 from Lettuce big-vein virus (LBVV), the type member of the genus Varicosa- virus, was determined. LBVV RNA1 consists of 6797 nucleotides and contains one large ORF that encodes a large (L) protein of 2040 amino acids with a predicted Mr of 232,092. Northern blot hybridization analysis indicated that the LBVV RNA1 is a negative-sense RNA. Database searches showed that the amino acid sequence of Lprotein is homologous to those of L polymerases of nonsegmented negative-strand RNA viruses. A cluster dendrogram derived from alignments of the LBVV L protein and the Lpolymerases indicated that the Lprotein is most closely related to the Lpolymerases of plant rhabdoviruses. Transcription termination/polyadenylation signal-like poly(U) tracts that resemble those in rhabdovirus and paramyxovirus RNAs were present upstream and downstream of the coding region. Although LBVV is related to rhabdovi- ruses, a key distinguishing feature is that the genome of LBVV is segmented. The results reemphasize the need to reconsider the taxonomic position of varicosaviruses. © 2002 Elsevier Science (USA) Key Words: Lettuce big-vein virus; Varicosavirus; rhabdovirus; RNA polymerase; nonsegmented negative-strand RNA virus. -
Increased Interseasonal Respiratory Syncytial Virus (RSV) Activity in Parts of the Southern United States
This is an official CDC Health Advisory Distributed via Health Alert Network June 10, 2021 3:00 PM 10490-CAD-06-10-2021-RSV Increased Interseasonal Respiratory Syncytial Virus (RSV) Activity in Parts of the Southern United States Summary The Centers for Disease Control and Prevention (CDC) is issuing this health advisory to notify clinicians and caregivers about increased interseasonal respiratory syncytial virus (RSV) activity across parts of the Southern United States. Due to this increased activity, CDC encourages broader testing for RSV among patients presenting with acute respiratory illness who test negative for SARS-CoV-2, the virus that causes COVID-19. RSV can be associated with severe disease in young children and older adults. This health advisory also serves as a reminder to healthcare personnel, childcare providers, and staff of long-term care facilities to avoid reporting to work while acutely ill – even if they test negative for SARS-CoV-2. Background RSV is an RNA virus of the genus Orthopneumovirus, family Pneumoviridae, primarily spread via respiratory droplets when a person coughs or sneezes, and through direct contact with a contaminated surface. RSV is the most common cause of bronchiolitis and pneumonia in children under one year of age in the United States. Infants, young children, and older adults with chronic medical conditions are at risk of severe disease from RSV infection. Each year in the United States, RSV leads to on average approximately 58,000 hospitalizations1 with 100-500 deaths among children younger than 5 years old2 and 177,000 hospitalizations with 14,000 deaths among adults aged 65 years or older.3 In the United States, RSV infections occur primarily during the fall and winter cold and flu season. -
Electronic Case Report Form (Ecrf)
BMJ Publishing Group Limited (BMJ) disclaims all liability and responsibility arising from any reliance Supplemental material placed on this supplemental material which has been supplied by the author(s) BMJ Open Supplementary Material 3 Electronic case report form (eCRF) Study: Validation and optimization of the utility of routine data for improving the quality of sepsis management in hospitals (Validierung und Optimierung der Nutzbarkeit von Routinedaten zur Qualitätsverbesserung des Sepsis-Managements im Krankenhaus) Study acronym: OPTIMISE Case-ID: |_________________________________| Explanations: - italic text: Gives explanation, is not presented in the eCRF - blue text: multiple answers possible - italic red text: condition for presentation of item or query rule 1 Schwarzkopf D, et al. BMJ Open 2020; 10:e035763. doi: 10.1136/bmjopen-2019-035763 BMJ Publishing Group Limited (BMJ) disclaims all liability and responsibility arising from any reliance Supplemental material placed on this supplemental material which has been supplied by the author(s) BMJ Open Supplementary Material 3 A. Identification of patients with sepsis 1000 random cases per study centre need to be documented by trained study physicians 0. Admission and discharge dates a. Where several stays 0 no merged to one case for billing 1 yes reasons? If a = yes, ____ how many stays/cases have Query rule: N >= 2 been merged? b. Admission and discharge Admission date: |__|__|____ Discharge date: |__|__|____ dates Admission date: |__|__|____ Discharge date: |__|__|____ Admission date: |__|__|____ Discharge date: |__|__|____ Admission date: |__|__|____ Discharge date: |__|__|____ Query rule: discharge date after admission date c.