DOCSLIB.ORG

Characterization of the Fecal Virome and Fecal Virus Shedding Patterns of Commercial Mink (Neovison Vison)

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Characterization of the Fecal Virome and Fecal Virus Shedding Patterns of Commercial Mink (Neovison Vison) Characterization of the Fecal Virome and Fecal Virus Shedding Patterns of Commercial Mink (Neovison vison) by Xiao Ting (Wendy) Xie A Thesis presented to The University of Guelph In partial fulfilment of requirements for the degree of Master of Science in Pathobiology Guelph, Ontario, Canada © Xiao Ting Xie, September, 2017 ABSTRACT Characterization of the Fecal Virome and Fecal Virus Shedding Patterns of Commercial Mink (Neovison vison) Wendy Xie Advisor: University of Guelph, 2017 Dr. Patricia V. Turner This study characterized the mink fecal virome using next-generation sequencing and investigated fecal shedding of mink-specific astrovirus, rotavirus and hepatitis E virus (HEV) over 4-years, using pooled fecal samples from commercial adult females and kits. Sequencing of 30 female and 37 kit pooled fecal samples resulted in 112,144 viral sequences with similarity to existing genomes. Of 109,612 bacteriophage sequences, Escherichia and Enterococcus–associated phage (16% and 11%, respectively) were most prevalent. Of 1237 vertebrate sequences, viral families Parvoviridae and Circoviridae were most prevalent and 27% of viral sequences identified were of avian origin. Astrovirus, rotavirus, and HEV were detected in 14%, 3%, and 9% of samples, respectively. HEV was detected in significantly more kit than female samples (p<0.0001), and astrovirus in more summer samples than winter samples (p=0.001). This research permits improved understanding of potential causative agents of mink gastroenteritis, as well as virus shedding in healthy commercial mink. ii ACKNOWLEDGEMENTS Firstly, thank you to Dr. Patricia V. Turner for all the opportunities, experiences, and mentorship in the time that I have been a part of this wonderful lab. Thank you for allowing me to learn and grow as a researcher, and pushing me to achieve my goals in the field of microbiology. Perhaps most importantly, you have helped me to discover what I truly wish to accomplish in this field, and been unreserved in your commitment to my progress, both in this program and in my future. To my lab members and friends, Nicole Compo, Elein Hernández, Abbie Viscardi, and Jessica Walsh, thank you for the mountains of encouragement and advice over the past two years. I must also acknowledge my committee members Dr. Eva Nagy and Dr. J. Scott Weese, who have acted as the cornerstones of this project, and have provided their invaluable knowledge, time, and experience to ensure my success in this program. This work would not have been possible without the support of Brian Tapscott for the collection of samples, as well as Dr. Jutta Hammermeuller, Rachel Macdonald, and Deirdre Stuart for their tremendous technical contributions. It was an honour to work with you all. Additionally, thank you to Joyce Rousseau and Diego Gomez-Nieto, who must be acknowledged for dealing with my numerous emails filled with many questions during the beginning of my research. A thank you is also extended to Nicol Janecko of the Laboratory for Foodborne Zoonosis, Public Health Agency of Canada for her help in bacterial culture and susceptibility testing. Special thank you to the Ontario Veterinary College and the Canadian Mink Breeders Association for their financial support, with which all of my work, and the work of many others dedicated to the health and welfare of animals, have been made possible. Finally, I would like to acknowledge the two most important people in my life, my parents, who have provided me with unconditional love and support in all of my endeavors. - iii DECLARATION OF WORK PERFORMED All work presented in this thesis was completed by myself, with the following exceptions: • Collection of fecal samples was completed by Brian Tapscott (OMAFRA) • Initial receipt of fecal samples was conducted by Dr. Jutta Hammermeuller • Virus-specific PCRs were done in part by summer students Rachel MacDonald, Brianne Mercer, Sabrina Stevens, and Deidre Stuart • Culture and susceptibility testing was conducted by Nicol Janecko at the Laboratory for Foodborne Zoonosis in Guelph, ON, a branch of the Public Health Agency of Canada, Ottawa, ON • Fecal virome sequencing using Illumina NextSeq was conducted by the Donnelly Centre, University of Toronto • Sequence trimming and assembly was performed using iVirus (CyVerse, AZ USA) and SeqManNGen 12 (DNAStar, Lasergene, WI USA) • Sequence identification was performed using Geneious 10.1.3 software provided by Dr. Andrew Kropinski • Identification of antimicrobial resistance genes was performed using the CARD database provided by Dr. J Scott Weese iv TABLE OF CONTENTS ABSTRACT ........................................................................................................................... ii Acknowledgements ............................................................................................................... iii Declaration of Work Performed .......................................................................................... iv List of Tables ....................................................................................................................... viii List of Figures ........................................................................................................................ ix List of Appendices .................................................................................................................. x Abbreviations ........................................................................................................................ xi CHAPTER 1: VIRAL METAGENOMICS IN MINK: IMPORTANT EUKARYOTIC VIRUSES AND BACTERIOPHAGE AND THEIR ROLES IN MINK HEALTH 1.1 Introduction .......................................................................................................... 1 1.2 Commercial Mink Farming ................................................................................ 1 1.3 Viral Metagenomics in Domestic and Wild Mammal Species ......................... 2 1.3.1 Felids ....................................................................................................... 3 1.3.2 Ferrets ..................................................................................................... 7 1.3.3 Wild Carnivores and Rodents ................................................................. 9 1.4 Viral Diseases of Commercial Mink ................................................................. 12 1.4.1 Aleutian Disease ................................................................................... 12 1.4.2 Canine Distemper Virus ........................................................................ 14 1.4.3 Influenza A ............................................................................................ 15 1.4.4 Mink Viral Enteritis .............................................................................. 16 1.4.5 Shaking Mink Syndrome ...................................................................... 17 1.4.6 Catarrhal Gastroenteritis ....................................................................... 17 1.5 Other Enteric Viruses ........................................................................................ 18 1.5.1 Enteric Astrovirus Infections ................................................................ 18 1.5.2 Rotavirus Infections .............................................................................. 19 1.5.3 Hepatitis E Virus (HEV) Infections ...................................................... 19 1.6 Antimicrobial-resistance genes (ARG) in Phage Viruses and the Mink Microbiome ............................................................................................................... 20 1.6.1 Antimicrobial Resistance Genes in Phage ............................................ 21 1.6.2 Antimicrobial Resistance in Commercial Mink ................................... 22 1.7 Study Rationale .................................................................................................. 23 1.8 Study Objectives and Hypotheses .................................................................... 23 1.8.1 Study Objectives and Methods ............................................................. 23 v 1.8.2 Study Hypotheses.................................................................................. 24 CHAPTER 2: PREVALENCE OF ASTROVIRUS, ROTAVIRUS, AND HEPATITIS E VIRUS SHEDDING IN ONTARIO FARMED MINK (NEOVISON VISON) 2.1 Introduction ........................................................................................................ 26 2.2 Materials and Methods ...................................................................................... 28 2.2.1 Sample Collection ............................................................................................ 28 2.2.2 RNA Extraction and cDNA Synthesis ........................................................... 28 2.2.3 PCR Protocols and Gel Imaging .................................................................... 29 2.2.4 Data analysis ................................................................................................... 29 2.3 Results ................................................................................................................. 30 2.4 Discussion ........................................................................................................... 32 CHAPTER 3: PREVALENT EUKARYOTIC VIRUSES AND BACTERIOPHAGE IN ONTARIO FARMED MINK (NEOVISON VISON) 3.1 Introduction .......................................................................................................
Load more

Recommended publications
  • 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 ...............................................................................................
    [Show full text]
  • Nucleotide Amino Acid Size (Nt) #Orfs Marnavirus Heterosigma Akashiwo Heterosigma Akashiwo RNA Heterosigma Lang Et Al
    Supplementary Table 1: Summary of information for all viruses falling within the seven Marnaviridae genera in our analyses. Accession Genome Genus Species Virus name Strain Abbreviation Source Country Reference Nucleotide Amino acid Size (nt) #ORFs Marnavirus Heterosigma akashiwo Heterosigma akashiwo RNA Heterosigma Lang et al. , 2004; HaRNAV AY337486 AAP97137 8587 One Canada RNA virus 1 virus akashiwo Tai et al. , 2003 Marine single- ASG92540 Moniruzzaman et Classification pending Q sR OV 020 KY286100 9290 Two celled USA ASG92541 al ., 2017 eukaryotes Marine single- Moniruzzaman et Classification pending Q sR OV 041 KY286101 ASG92542 9328 One celled USA al ., 2017 eukaryotes APG78557 Classification pending Wenzhou picorna-like virus 13 WZSBei69459 KX884360 9458 One Bivalve China Shi et al ., 2016 APG78557 Classification pending Changjiang picorna-like virus 2 CJLX30436 KX884547 APG79001 7171 One Crayfish China Shi et al ., 2016 Beihai picorna-like virus 57 BHHQ57630 KX883356 APG76773 8518 One Tunicate China Shi et al ., 2016 Classification pending Beihai picorna-like virus 57 BHJP51916 KX883380 APG76812 8518 One Tunicate China Shi et al ., 2016 Marine single- ASG92530 Moniruzzaman et Classification pending N OV 137 KY130494 7746 Two celled USA ASG92531 al ., 2017 eukaryotes Hubei picorna-like virus 7 WHSF7327 KX884284 APG78434 9614 One Pill worm China Shi et al ., 2016 Classification pending Hubei picorna-like virus 7 WHCC111241 KX884268 APG78407 7945 One Insect China Shi et al ., 2016 Sanxia atyid shrimp virus 2 WHCCII13331 KX884278 APG78424 10445 One Insect China Shi et al ., 2016 Classification pending Freshwater atyid Sanxia atyid shrimp virus 2 SXXX37884 KX883708 APG77465 10400 One China Shi et al ., 2016 shrimp Labyrnavirus Aurantiochytrium single Aurantiochytrium single stranded BAE47143 Aurantiochytriu AuRNAV AB193726 9035 Three4 Japan Takao et al.
    [Show full text]
  • Julia Villarroel Phd Thesis 18October2017
    Downloaded from orbit.dtu.dk on: Oct 10, 2021 Isolation and characterization of bacteriophages with therapeutic potential Villarroel, Julia Publication date: 2018 Document Version Publisher's PDF, also known as Version of record Link back to DTU Orbit Citation (APA): Villarroel, J. (2018). Isolation and characterization of bacteriophages with therapeutic potential. Technical University of Denmark. General rights Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights. Users may download and print one copy of any publication from the public portal for the purpose of private study or research. You may not further distribute the material or use it for any profit-making activity or commercial gain You may freely distribute the URL identifying the publication in the public portal If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim. Ph.D. Thesis Doctor of Philosophy in Bioinformatics Isolation and characterization of bacteriophages with therapeutic potential Julia Villarroel Kongens Lyngby 2018 DTU Bioinformatics Department of Bio and Health Informatics Technical University of Denmark Kemitorvet, Building 208 2800 Kongens Lyngby, Denmark www.bioinformatics.dtu.dk There is a vitality, a life force, an energy, a quickening, that is translated through you into action, and because there is only one of you in all time, this expression is unique. And if you block it, it will never exist through any other medium and will be lost.
    [Show full text]
  • Computational Exploration of Virus Diversity on Transcriptomic Datasets
    Computational Exploration of Virus Diversity on Transcriptomic Datasets Digitaler Anhang der Dissertation zur Erlangung des Doktorgrades (Dr. rer. nat.) der Mathematisch-Naturwissenschaftlichen Fakultät der Rheinischen Friedrich-Wilhelms-Universität Bonn vorgelegt von Simon Käfer aus Andernach Bonn 2019 Table of Contents 1 Table of Contents 1 Preliminary Work - Phylogenetic Tree Reconstruction 3 1.1 Non-segmented RNA Viruses ........................... 3 1.2 Segmented RNA Viruses ............................. 4 1.3 Flavivirus-like Superfamily ............................ 5 1.4 Picornavirus-like Viruses ............................. 6 1.5 Togavirus-like Superfamily ............................ 7 1.6 Nidovirales-like Viruses .............................. 8 2 TRAVIS - True Positive Details 9 2.1 INSnfrTABRAAPEI-14 .............................. 9 2.2 INSnfrTADRAAPEI-16 .............................. 10 2.3 INSnfrTAIRAAPEI-21 ............................... 11 2.4 INSnfrTAORAAPEI-35 .............................. 13 2.5 INSnfrTATRAAPEI-43 .............................. 14 2.6 INSnfrTBERAAPEI-19 .............................. 15 2.7 INSytvTABRAAPEI-11 .............................. 16 2.8 INSytvTALRAAPEI-35 .............................. 17 2.9 INSytvTBORAAPEI-47 .............................. 18 2.10 INSswpTBBRAAPEI-21 .............................. 19 2.11 INSeqtTAHRAAPEI-88 .............................. 20 2.12 INShkeTCLRAAPEI-44 .............................. 22 2.13 INSeqtTBNRAAPEI-11 .............................. 23 2.14 INSeqtTCJRAAPEI-20
    [Show full text]
  • Viral Diversity in Tree Species
    Universidade de Brasília Instituto de Ciências Biológicas Departamento de Fitopatologia Programa de Pós-Graduação em Biologia Microbiana Doctoral Thesis Viral diversity in tree species FLÁVIA MILENE BARROS NERY Brasília - DF, 2020 FLÁVIA MILENE BARROS NERY Viral diversity in tree species Thesis presented to the University of Brasília as a partial requirement for obtaining the title of Doctor in Microbiology by the Post - Graduate Program in Microbiology. Advisor Dra. Rita de Cássia Pereira Carvalho Co-advisor Dr. Fernando Lucas Melo BRASÍLIA, DF - BRAZIL FICHA CATALOGRÁFICA NERY, F.M.B Viral diversity in tree species Flávia Milene Barros Nery Brasília, 2025 Pages number: 126 Doctoral Thesis - Programa de Pós-Graduação em Biologia Microbiana, Universidade de Brasília, DF. I - Virus, tree species, metagenomics, High-throughput sequencing II - Universidade de Brasília, PPBM/ IB III - Viral diversity in tree species A minha mãe Ruth Ao meu noivo Neil Dedico Agradecimentos A Deus, gratidão por tudo e por ter me dado uma família e amigos que me amam e me apoiam em todas as minhas escolhas. Minha mãe Ruth e meu noivo Neil por todo o apoio e cuidado durante os momentos mais difíceis que enfrentei durante minha jornada. Aos meus irmãos André, Diego e meu sobrinho Bruno Kawai, gratidão. Aos meus amigos de longa data Rafaelle, Evanessa, Chênia, Tati, Leo, Suzi, Camilets, Ricardito, Jorgito e Diego, saudade da nossa amizade e dos bons tempos. Amo vocês com todo o meu coração! Minha orientadora e grande amiga Profa Rita de Cássia Pereira Carvalho, a quem escolhi e fui escolhida para amar e fazer parte da família.
    [Show full text]
  • Araçatuba Virus: a Vaccinialike Virus Associated with Infection In
    RESEARCH Araçatuba Virus: A Vaccinialike Virus Associated with Infection in Humans and Cattle Giliane de Souza Trindade,* Flávio Guimarães da Fonseca,† João Trindade Marques,* Maurício Lacerda Nogueira,† Luiz Claudio Nogueira Mendes,‡ Alexandre Secorun Borges,‡§ Juliana Regina Peiró,‡ Edviges Maristela Pituco,¶ Cláudio Antônio Bonjardim,* Paulo César Peregrino Ferreira,* and Erna Geessien Kroon* We describe a vaccinialike virus, Araçatuba virus, associ- bovine herpes mammillitis, pseudocowpox, and cowpox infec- ated with a cowpoxlike outbreak in a dairy herd and a related tions (9–12). case of human infection. Diagnosis was based on virus growth After clinical and initial laboratory analysis, cowpox virus characteristics, electron microscopy, and molecular biology (CPXV) was considered to be the obvious etiologic agent techniques. Molecular characterization of the virus was done causing this human and cattle infection. CPXV (genus Ortho- by using polymerase chain reaction amplification, cloning, and poxvirus) is the causative agent of localized and painful vesic- DNA sequencing of conserved orthopoxvirus genes such as the vaccinia growth factor (VGF), thymidine kinase (TK), and ular lesions. The virus is believed to persist in wild host hemagglutinin. We used VGF-homologous and TK gene nucle- reservoirs (including mammals, birds, and rodents), cattle, zoo otide sequences to construct a phylogenetic tree for compari- animals, and domestic animals, including cats in parts of son with other poxviruses. Gene sequences showed 99% Europe and Asia. Contact of these reservoirs with susceptible homology with vaccinia virus genes and were clustered animals and people can trigger the onset of disease (13,14). together with the isolated virus in the phylogenetic tree. When humans are affected, the lesions occur on the hands and Araçatuba virus is very similar to Cantagalo virus, showing the sometimes on the arms, usually followed by axillary adenopa- same signature deletion in the gene.
    [Show full text]
  • Cowpox Virus: a New and Armed Oncolytic Poxvirus
    Cowpox Virus: A New and Armed Oncolytic Poxvirus. Marine Ricordel, Johann Foloppe, Christelle Pichon, Nathalie Sfrontato, Delphine Antoine, Caroline Tosch, Sandrine Cochin, Pascale Cordier, Eric Quéméneur, Christelle Camus-Bouclainville, et al. To cite this version: Marine Ricordel, Johann Foloppe, Christelle Pichon, Nathalie Sfrontato, Delphine Antoine, et al.. Cowpox Virus: A New and Armed Oncolytic Poxvirus.. Molecular Therapy - Oncolytics, Elsevier, 2017, 7, pp.1-11. 10.1016/j.omto.2017.08.003. hal-02622526 HAL Id: hal-02622526 https://hal.inrae.fr/hal-02622526 Submitted on 26 May 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Distributed under a Creative Commons Attribution - NonCommercial - NoDerivatives| 4.0 International License Original Article Cowpox Virus: A New and Armed Oncolytic Poxvirus Marine Ricordel,1 Johann Foloppe,1 Christelle Pichon,1 Nathalie Sfrontato,1 Delphine Antoine,1 Caroline Tosch,1 Sandrine Cochin,1 Pascale Cordier,1 Eric Quemeneur,1 Christelle Camus-Bouclainville,2 Stéphane Bertagnoli,2 and Philippe Erbs1 1TRANSGENE S.A, 400 Boulevard Gonthier d’Andernach, 67400 Illkirch, France; 2IHAP, Université de Toulouse, INRA, ENVT, 31058 Toulouse, France Oncolytic virus therapy has recently been recognized as a prom- therapy,4,5 make it an ideal oncolytic agent for cancer treatment.
    [Show full text]
  • Arenaviridae Astroviridae Filoviridae Flaviviridae Hantaviridae
    Hantaviridae 0.7 Filoviridae 0.6 Picornaviridae 0.3 Wenling red spikefish hantavirus Rhinovirus C Ahab virus * Possum enterovirus * Aronnax virus * * Wenling minipizza batfish hantavirus Wenling filefish filovirus Norway rat hunnivirus * Wenling yellow goosefish hantavirus Starbuck virus * * Porcine teschovirus European mole nova virus Human Marburg marburgvirus Mosavirus Asturias virus * * * Tortoise picornavirus Egyptian fruit bat Marburg marburgvirus Banded bullfrog picornavirus * Spanish mole uluguru virus Human Sudan ebolavirus * Black spectacled toad picornavirus * Kilimanjaro virus * * * Crab-eating macaque reston ebolavirus Equine rhinitis A virus Imjin virus * Foot and mouth disease virus Dode virus * Angolan free-tailed bat bombali ebolavirus * * Human cosavirus E Seoul orthohantavirus Little free-tailed bat bombali ebolavirus * African bat icavirus A Tigray hantavirus Human Zaire ebolavirus * Saffold virus * Human choclo virus *Little collared fruit bat ebolavirus Peleg virus * Eastern red scorpionfish picornavirus * Reed vole hantavirus Human bundibugyo ebolavirus * * Isla vista hantavirus * Seal picornavirus Human Tai forest ebolavirus Chicken orivirus Paramyxoviridae 0.4 * Duck picornavirus Hepadnaviridae 0.4 Bildad virus Ned virus Tiger rockfish hepatitis B virus Western African lungfish picornavirus * Pacific spadenose shark paramyxovirus * European eel hepatitis B virus Bluegill picornavirus Nemo virus * Carp picornavirus * African cichlid hepatitis B virus Triplecross lizardfish paramyxovirus * * Fathead minnow picornavirus
    [Show full text]
  • Burrow Dusting Or Oral Vaccination Prevents Plague-Associated Prairie
    EcoHealth DOI: 10.1007/s10393-017-1236-y Ó 2017 The Author(s). This article is an open access publication Original Contribution Burrow Dusting or Oral Vaccination Prevents Plague- Associated Prairie Dog Colony Collapse Daniel W. Tripp,1 Tonie E. Rocke,2 Jonathan P. Runge,3 Rachel C. Abbott,2 and Michael W. Miller1 1Colorado Division of Parks and Wildlife, Wildlife Health Program, 4330 Laporte Avenue, Fort Collins, CO 80521-2153 2United States Geological Survey, National Wildlife Health Center, 6006 Schroeder Road, Madison, WI 53711 3Colorado Division of Parks and Wildlife, Terrestrial Resources Program, 317 West Prospect Road, Fort Collins, CO 80526-2097 Abstract: Plague impacts prairie dogs (Cynomys spp.), the endangered black-footed ferret (Mustela nigripes) and other sensitive wildlife species. We compared efficacy of prophylactic treatments (burrow dusting with deltamethrin or oral vaccination with recombinant ‘‘sylvatic plague vaccine’’ [RCN-F1/V307]) to placebo treatment in black-tailed prairie dog (C. ludovicianus) colonies. Between 2013 and 2015, we measured prairie dog apparent survival, burrow activity and flea abundance on triplicate plots (‘‘blocks’’) receiving dust, vaccine or placebo treatment. Epizootic plague affected all three blocks but emerged asynchronously. Dust plots had fewer fleas per burrow (P < 0.0001), and prairie dogs captured on dust plots had fewer fleas (P < 0.0001) than those on vaccine or placebo plots. Burrow activity and prairie dog density declined sharply in placebo plots when epizootic plague emerged. Patterns in corresponding dust and vaccine plots were less consistent and appeared strongly influenced by timing of treatment applications relative to plague emergence. Deltamethrin or oral vaccination enhanced apparent survival within two blocks.
    [Show full text]
  • 2018-2019 Update from the ICTV Bacterial and Archaeal Viruses
    Archives of Virology (2020) 165:1253–1260 https://doi.org/10.1007/s00705-020-04577-8 VIROLOGY DIVISION NEWS: Taxonomy of prokaryotic viruses: 2018‑2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee Evelien M. Adriaenssens1 · Matthew B. Sullivan2 · Petar Knezevic3 · Leonardo J. van Zyl4 · B. L. Sarkar5 · Bas E. Dutilh6,7 · Poliane Alfenas‑Zerbini8 · Małgorzata Łobocka9 · Yigang Tong10 · James Rodney Brister11 · Andrea I. Moreno Switt12 · Jochen Klumpp13 · Ramy Karam Aziz14 · Jakub Barylski15 · Jumpei Uchiyama16 · Rob A. Edwards17,18 · Andrew M. Kropinski19,20 · Nicola K. Petty21 · Martha R. J. Clokie22 · Alla I. Kushkina23 · Vera V. Morozova24 · Siobain Dufy25 · Annika Gillis26 · Janis Rumnieks27 · İpek Kurtböke28 · Nina Chanishvili29 · Lawrence Goodridge19 · Johannes Wittmann30 · Rob Lavigne31 · Ho Bin Jang32 · David Prangishvili33,34 · Francois Enault35 · Dann Turner36 · Minna M. Poranen37 · Hanna M. Oksanen37 · Mart Krupovic33 Published online: 11 March 2020 © Springer-Verlag GmbH Austria, part of Springer Nature 2020 Abstract This article is a summary of the activities of the ICTV’s Bacterial and Archaeal Viruses Subcommittee for the years 2018 and 2019. Highlights include the creation of a new order, 10 families, 22 subfamilies, 424 genera and 964 species. Some of our concerns about the ICTV’s ability to adjust to and incorporate new DNA- and protein-based taxonomic tools are discussed. Introduction Taxonomic updates The prokaryotic virus community is represented in the Inter- Over the past two years, our subcommittee
    [Show full text]
  • Desenvolvimento E Avaliação De Uma Plataforma De Diagnóstico Para Meningoencefalites Virais Por Pcr Em Tempo Real
    DANILO BRETAS DE OLIVEIRA DESENVOLVIMENTO E AVALIAÇÃO DE UMA PLATAFORMA DE DIAGNÓSTICO PARA MENINGOENCEFALITES VIRAIS POR PCR EM TEMPO REAL Orientadora: Profa. Dra. Erna Geessien Kroon Co-orientador: Dr. Gabriel Magno de Freitas Almeida Co-orientador: Prof. Dr. Jônatas Santos Abrahão Belo Horizonte Janeiro de 2015 DANILO BRETAS DE OLIVEIRA DESENVOLVIMENTO E AVALIAÇÃO DE UMA PLATAFORMA DE DIAGNÓSTICO PARA MENINGOENCEFALITES VIRAIS POR PCR EM TEMPO REAL Tese de doutorado apresentada ao Programa de Pós-Graduação em Microbiologia do Instituto de Ciências Biológicas da Universidade Federal de Minas Gerais, como requisito à obtenção do título de doutor em Microbiologia. Orientadora: Profa. Dra. Erna Geessien Kroon Co-orientador: Dr. Gabriel Magno de Freitas Almeida Co-orientador: Prof. Dr. Jônatas Santos Abrahão Belo Horizonte Janeiro de 2015 SUMÁRIO LISTA DE FIGURAS .......................................................................................... 7 LISTA DE TABELAS ........................................................................................ 10 LISTA DE ABREVIATURAS ............................................................................. 11 I. INTRODUÇÃO .............................................................................................. 17 1.1. INFECÇÕES VIRAIS NO SISTEMA NERVOSO CENTRAL (SNC) ....... 18 1.2. AGENTES VIRAIS CAUSADORES DE MENINGOENCEFALITES .......... 22 1.2.1. VÍRUS DA FAMÍLIA Picornaviridae ........................................................ 22 1.2.1.1.VÍRUS DO GÊNERO Enterovirus .......................................................
    [Show full text]
  • TESIS DOCTORAL Estudio Metagenómico De La Comunidad De
    TESIS DOCTORAL Estudio metagenómico de la comunidad de virus y de su interacción con la microbiota en la cavidad bucal humana Marcos Parras Moltó Madrid, 2019 Estudio metagenómico de la comunidad de virus y de su interacción con la microbiota en la cavidad bucal humana Memoria presentada por Marcos Parras Moltó para optar al título de Doctor por la Universidad Autónoma de Madrid Esta Tesis se ha realizado en el Centro de Biología Molecular Severo Ochoa bajo la supervisión del Tutor y Director Alberto López Bueno, en el Programa de Doctorado en Biociencias Moleculares (RD 99/2011) Universidad Autónoma de Madrid Facultad de Ciencias Departamento de Biología Molecular Centro de Biología Molecular Severo Ochoa (CBMSO) Madrid, 2019 El Dr. Alberto López Bueno, Profesor Contratado Doctor en el Departamento de Biología Molecular de la Universidad Autónoma de Madrid (UAM) e investigador en el Centro de Biología Molecular Severo Ochoa (CBMSO): CERTIFICA: Haber dirigido y supervisado la Tesis Doctoral titulada "Estudio metagenómico de la comunidad de virus y de su interacción con la microbiota en la cavidad bucal humana” realizada por D. Marcos Parras Moltó, en el Programa de Doctorado en Biociencias Moleculares de la Universidad Autónoma de Madrid, por lo que autoriza la presentación de la misma. Madrid, a 23 de Abril de 2019, Alberto López Bueno La presente tesis doctoral ha sido posible gracias a la concesión de una “Ayuda para Contratos Predoctorales para la Formación de Doctores” convocatoria de 2013 (BES-2013-064773) asociada al proyecto SAF2012-38421 del Ministerio de Economía y Competitividad. Durante esta tesis se realizó una estancia de dos meses en el laboratorio del Catedrático Francisco Rodríguez Valera, director de grupo de investigación: Evolutionary Genomics Group de la Universidad Miguel Hernández de Elche (San Juan de Alicante), gracias a una “Ayuda a la Movilidad Predoctoral para la Realización de Estancias Breves en Centros de I+D” convocatoria de 2015 (EEBB-I-16-11876) concedida por el Ministerio de Economía y Competitividad.
    [Show full text]