Understanding the Intracellular Trafficking and Intercellular Transport
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Entry of the Membrane-Containing Bacteriophages Into Their Hosts
Entry of the membrane-containing bacteriophages into their hosts - Institute of Biotechnology and Department of Biosciences Division of General Microbiology Faculty of Biosciences and Viikki Graduate School in Molecular Biosciences University of Helsinki ACADEMIC DISSERTATION To be presented for public examination with the permission of the Faculty of Biosciences, University of Helsinki, in the auditorium 3 of Info center Korona, Viikinkaari 11, Helsinki, on June 18th, at 8 a.m. HELSINKI 2010 Supervisor Professor Dennis H. Bamford Department of Biosciences University of Helsinki, Finland Reviewers Professor Martin Romantschuk Department of Ecological and Environmental Sciences University of Helsinki, Finland Professor Mikael Skurnik Department of Bacteriology and Immunology University of Helsinki, Finland Opponent Dr. Alasdair C. Steven Laboratory of Structural Biology Research National Institute of Arthritis and Musculoskeletal and Skin Diseases National Institutes of Health, USA ISBN 978-952-10-6280-3 (paperback) ISBN 978-952-10-6281-0 (PDF) ISSN 1795-7079 Yliopistopaino, Helsinki University Printing House Helsinki 2010 ORIGINAL PUBLICATIONS This thesis is based on the following publications, which are referred to in the text by their roman numerals: I. 6 - Verkhovskaya R, Bamford DH. 2005. Penetration of enveloped double- stranded RNA bacteriophages phi13 and phi6 into Pseudomonas syringae cells. J Virol. 79(8):5017-26. II. Gaidelyt A*, Cvirkait-Krupovi V*, Daugelaviius R, Bamford JK, Bamford DH. 2006. The entry mechanism of membrane-containing phage Bam35 infecting Bacillus thuringiensis. J Bacteriol. 188(16):5925-34. III. Cvirkait-Krupovi V, Krupovi M, Daugelaviius R, Bamford DH. 2010. Calcium ion-dependent entry of the membrane-containing bacteriophage PM2 into Pseudoalteromonas host. -
Wo 2007/056463 A2
(12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (10) International Publication Number (43) International Publication Date PCT 18 May 2007 (18.05.2007) WO 2007/056463 A2 (51) International Patent Classification: (74) Agents: WILLIAMS, Kathleen et al.; Edwards Angell C12Q 1/70 (2006.01) C12Q 1/68 (2006.01) Palmer & Dodge LLP, P.O. Box 55874, Boston, MA 02205 (US). (21) International Application Number: (81) Designated States (unless otherwise indicated, for every PCT/US2006/043502 kind of national protection available): AE, AG, AL, AM, AT,AU, AZ, BA, BB, BG, BR, BW, BY, BZ, CA, CH, CN, (22) International Filing Date: CO, CR, CU, CZ, DE, DK, DM, DZ, EC, EE, EG, ES, FI, 9 November 2006 (09.1 1.2006) GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IS, JP, KE, KG, KM, KN, KP, KR, KZ, LA, LC, LK, LR, LS, (25) Filing Language: English LT, LU, LV,LY,MA, MD, MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, OM, PG, PH, PL, PT, RO, RS, (26) Publication Language: English RU, SC, SD, SE, SG, SK, SL, SM, SV, SY, TJ, TM, TN, TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW (30) Priority Data: (84) Designated States (unless otherwise indicated, for every 60/735,085 9 November 2005 (09. 11.2005) US kind of regional protection available): ARIPO (BW, GH, GM, KE, LS, MW, MZ, NA, SD, SL, SZ, TZ, UG, ZM, (71) Applicant (for all designated States except US): ZW), Eurasian (AM, AZ, BY, KG, KZ, MD, RU, TJ, TM), PRIMERA BIOSYSTEMS, INC. -
Tamada-Text R3 HK-TT
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Okayama University Scientific Achievement Repository Tamada & Kondo - 1 Journal of General Plant Pathology Biological and genetic diversity of plasmodiophorid-transmitted viruses and their vectors Tetsuo Tamada* and Hideki Kondo Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan. Current address for T. Tamada: Kita 10, Nishi 1, 13-2-606, Sapporo, 001-0010, Japan. *Corresponding author: Tetsuo Tamada; E-mail: [email protected] Total text pages 32 Word counts: 10 words (title); 147 words (Abstract); 6004 words (Main Text) Tables: 3; Figure: 1; Supplementary figure: 1 Tamada & Kondo - 2 Abstract About 20 species of viruses belonging to five genera, Benyvirus, Furovirus, Pecluvirus, Pomovirus and Bymovirus, are known to be transmitted by plasmodiophorids. These viruses have all positive-sense single-stranded RNA genomes that consist of two to five RNA components. Three species of plasmodiophorids are recognized as vectors: Polymyxa graminis, P. betae, and Spongospora subterranea. The viruses can survive in soil within the long-lived resting spores of the vector. There are biological and genetic variations in both virus and vector species. Many of the viruses have become the causal agents of important diseases in major crops, such as rice, wheat, barley, rye, sugar beet, potato, and groundnut. Control measure is dependent on the development of the resistant cultivars. During the last half a century, several virus diseases have been rapidly spread and distributed worldwide. For the six major virus diseases, their geographical distribution, diversity, and genetic resistance are addressed. -
Viruses Virus Diseases Poaceae(Gramineae)
Viruses and virus diseases of Poaceae (Gramineae) Viruses The Poaceae are one of the most important plant families in terms of the number of species, worldwide distribution, ecosystems and as ingredients of human and animal food. It is not surprising that they support many parasites including and more than 100 severely pathogenic virus species, of which new ones are being virus diseases regularly described. This book results from the contributions of 150 well-known specialists and presents of for the first time an in-depth look at all the viruses (including the retrotransposons) Poaceae(Gramineae) infesting one plant family. Ta xonomic and agronomic descriptions of the Poaceae are presented, followed by data on molecular and biological characteristics of the viruses and descriptions up to species level. Virus diseases of field grasses (barley, maize, rice, rye, sorghum, sugarcane, triticale and wheats), forage, ornamental, aromatic, wild and lawn Gramineae are largely described and illustrated (32 colour plates). A detailed index Sciences de la vie e) of viruses and taxonomic lists will help readers in their search for information. Foreworded by Marc Van Regenmortel, this book is essential for anyone with an interest in plant pathology especially plant virology, entomology, breeding minea and forecasting. Agronomists will also find this book invaluable. ra The book was coordinated by Hervé Lapierre, previously a researcher at the Institut H. Lapierre, P.-A. Signoret, editors National de la Recherche Agronomique (Versailles-France) and Pierre A. Signoret emeritus eae (G professor and formerly head of the plant pathology department at Ecole Nationale Supérieure ac Agronomique (Montpellier-France). Both have worked from the late 1960’s on virus diseases Po of Poaceae . -
Pmtv, Pomovirus)
Gil et al. Actual Biol 33 (94): 69-84, 2011 CARACTERIZACIÓN GENOTÍPICA DE AISLAMIENTOS COLOMBIANOS DEL POTATO MOP-TOP VIRUS (PMTV, POMOVIRUS) GENOTYPIC CHARACTERIZATION OF COLOMBIAN ISOLATES OF POTATO MOP-TOP VIRUS (PMTV, POMOVIRUS) José F. Gil1, 4, Pablo A. Gutiérrez1, 5, José M. Cotes2, 6, Elena P. González3, 7, Mauricio Marín1, 8 Resumen Recientemente se detectó en Colombia la presencia del virus mop-top de la papa (PMTV, Pomovirus), transmitido por zoosporas del protozoo Spongospora subterranea f. sp. subterranea, agente causal de la sarna polvosa de la papa. Esta investigación se planteó con el fin de evaluar las características genotípicas de las cepas virales del PMTV obtenidas a partir de 20 muestras de suelos de cultivos de papa de los departamentos de Antioquia, Boyacá, Cundinamarca y Nariño. Para esto, se amplificaron mediante RT-PCR las regiones parciales que codifican para los genes de la cápside (CP) y del segundo gen del triple bloque de genes (TGB2), secuenciándose y comparándose con las secuencias de este virus depositadas en las bases de datos moleculares. Adicionalmente, se seleccionaron dos cepas del virus para aumentar el cubrimiento de las secuencias de los segmentos dos y tres (ARN 2 y ARN 3) del genoma viral. Los resultados reconfirmaron la presencia del virus PMTV en Colombia, detectándose dos variantes principales (I y II), una de ellas correspondiente al genotipo distribuido mundialmente (I); mientras que la otra variante (II) representa aislamientos virales de PMTV no registrados hasta ahora en otros países del mundo. Se espera que la información generada en esta investigación sea considerada en los programas de certificación de tubérculo semilla y del manejo cuarentenario de patógenos del cultivo de papa en el país. -
ICTV Code Assigned: 2011.001Ag Officers)
This form should be used for all taxonomic proposals. Please complete all those modules that are applicable (and then delete the unwanted sections). For guidance, see the notes written in blue and the separate document “Help with completing a taxonomic proposal” Please try to keep related proposals within a single document; you can copy the modules to create more than one genus within a new family, for example. MODULE 1: TITLE, AUTHORS, etc (to be completed by ICTV Code assigned: 2011.001aG officers) Short title: Change existing virus species names to non-Latinized binomials (e.g. 6 new species in the genus Zetavirus) Modules attached 1 2 3 4 5 (modules 1 and 9 are required) 6 7 8 9 Author(s) with e-mail address(es) of the proposer: Van Regenmortel Marc, [email protected] Burke Donald, [email protected] Calisher Charles, [email protected] Dietzgen Ralf, [email protected] Fauquet Claude, [email protected] Ghabrial Said, [email protected] Jahrling Peter, [email protected] Johnson Karl, [email protected] Holbrook Michael, [email protected] Horzinek Marian, [email protected] Keil Guenther, [email protected] Kuhn Jens, [email protected] Mahy Brian, [email protected] Martelli Giovanni, [email protected] Pringle Craig, [email protected] Rybicki Ed, [email protected] Skern Tim, [email protected] Tesh Robert, [email protected] Wahl-Jensen Victoria, [email protected] Walker Peter, [email protected] Weaver Scott, [email protected] List the ICTV study group(s) that have seen this proposal: A list of study groups and contacts is provided at http://www.ictvonline.org/subcommittees.asp . -
Overlapping Genes Produce Proteins with Unusual Sequence Properties And
JVI Accepts, published online ahead of print on 29 July 2009 J. Virol. doi:10.1128/JVI.00595-09 Copyright © 2009, American Society for Microbiology and/or the Listed Authors/Institutions. All Rights Reserved. 1 Overlapping genes produce proteins with unusual sequence properties and 2 offer insight into de novo protein creation 3 4 Corinne Rancurel1, Mahvash Khosravi2, Keith A. Dunker2, Pedro R. Romero2*, and David Karlin3* 5 6 1 Architecture et Fonction des Macromolécules Biologiques, Case 932, Campus de Luminy, 13288 Marseille 7 Cedex 9, France 8 2 Center for Computational Biology and Bioinformatics, 410 West 10th Street, Suite 5000, Indiana University 9 - Purdue University, Indianapolis, IN 46202-5122, USA, Downloaded from 10 3 25, rue de Casssis, 13008 Marseille, FRANCE 11 12 * Corresponding authors: [email protected], [email protected] 13 14 Running Title : Overlapping proteins have unusual sequence properties http://jvi.asm.org/ 15 Keywords 16 de novo gene creation; de novo protein creation; novel proteins; new proteins; orphan proteins; orphan 17 genes; ORFans; overlapping genes; overlapping reading frames; overprinting; unstructured proteins; 18 disordered proteins; intrinsic disorder; structural disorder; disorder prediction; profile-profile comparison; on April 22, 2020 by guest 19 PFAM; viral genomics; viral bioinformatics; viral structural genomics. 20 21 Abbreviations 22 Only abbreviations used in the main text are listed here; others are given in the figure captions. 23 30K, conserved domain of the 30K family of movement proteins; aa, amino acid; dsRNA, double-stranded 24 RNA; GT, guanylyltransferase; MP, movement protein; MT, methyltransferase; N, nucleoprotein; NSs, non 25 structural protein of orthobunyaviruses; ORF, open reading frame; PDB, protein databank (database of 26 protein structures); PFAM, Protein families (database of families of protein sequences); ssRNA, single- 27 stranded RNA; TGB, triple gene block; RE, relative (compositional) entropy; tm, transmembrane segment. -
Tamada-Text R3 HK-TT
Tamada & Kondo - 1 Journal of General Plant Pathology Biological and genetic diversity of plasmodiophorid-transmitted viruses and their vectors Tetsuo Tamada* and Hideki Kondo Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan. Current address for T. Tamada: Kita 10, Nishi 1, 13-2-606, Sapporo, 001-0010, Japan. *Corresponding author: Tetsuo Tamada; E-mail: [email protected] Total text pages 32 Word counts: 10 words (title); 147 words (Abstract); 6004 words (Main Text) Tables: 3; Figure: 1; Supplementary figure: 1 Tamada & Kondo - 2 Abstract About 20 species of viruses belonging to five genera, Benyvirus, Furovirus, Pecluvirus, Pomovirus and Bymovirus, are known to be transmitted by plasmodiophorids. These viruses have all positive-sense single-stranded RNA genomes that consist of two to five RNA components. Three species of plasmodiophorids are recognized as vectors: Polymyxa graminis, P. betae, and Spongospora subterranea. The viruses can survive in soil within the long-lived resting spores of the vector. There are biological and genetic variations in both virus and vector species. Many of the viruses have become the causal agents of important diseases in major crops, such as rice, wheat, barley, rye, sugar beet, potato, and groundnut. Control measure is dependent on the development of the resistant cultivars. During the last half a century, several virus diseases have been rapidly spread and distributed worldwide. For the six major virus diseases, their geographical distribution, diversity, and genetic resistance are addressed. Keywords Soil-borne viruses; Benyvirus; Furovirus; Pecluvirus; Pomovirus; Bymovirus; Vector transmission; Plasmodiophorids; Polymyxa; Spongospora Introduction There is a group of viruses to be transmitted by olpidium and plasmodiophorid vectors, which is called soil-borne fungus-transmitted viruses. -
Small Hydrophobic Viral Proteins Involved in Intercellular Movement of Diverse Plant Virus Genomes Sergey Y
AIMS Microbiology, 6(3): 305–329. DOI: 10.3934/microbiol.2020019 Received: 23 July 2020 Accepted: 13 September 2020 Published: 21 September 2020 http://www.aimspress.com/journal/microbiology Review Small hydrophobic viral proteins involved in intercellular movement of diverse plant virus genomes Sergey Y. Morozov1,2,* and Andrey G. Solovyev1,2,3 1 A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, Russia 2 Department of Virology, Biological Faculty, Moscow State University, Moscow, Russia 3 Institute of Molecular Medicine, Sechenov First Moscow State Medical University, Moscow, Russia * Correspondence: E-mail: [email protected]; Tel: +74959393198. Abstract: Most plant viruses code for movement proteins (MPs) targeting plasmodesmata to enable cell-to-cell and systemic spread in infected plants. Small membrane-embedded MPs have been first identified in two viral transport gene modules, triple gene block (TGB) coding for an RNA-binding helicase TGB1 and two small hydrophobic proteins TGB2 and TGB3 and double gene block (DGB) encoding two small polypeptides representing an RNA-binding protein and a membrane protein. These findings indicated that movement gene modules composed of two or more cistrons may encode the nucleic acid-binding protein and at least one membrane-bound movement protein. The same rule was revealed for small DNA-containing plant viruses, namely, viruses belonging to genus Mastrevirus (family Geminiviridae) and the family Nanoviridae. In multi-component transport modules the nucleic acid-binding MP can be viral capsid protein(s), as in RNA-containing viruses of the families Closteroviridae and Potyviridae. However, membrane proteins are always found among MPs of these multicomponent viral transport systems. -
Type D Primate Retroviruses: a Review1
[CANCER RESEARCH 38, 3123-3139, October 1978] Type D Primate Retroviruses: A Review1 Donald Fine and Gerald Schochetman Viral Oncology Program, Frederick Cancer Research Center. Frederick, Maryland 21701 Abstract The prototype virus of the type D retroviruses is the techniques. The retrovirus associated with the induction of Mason-Pfizer monkey virus (MPMV). MPMV was originally mammary cancer in mice, MMTV,2 is morphologically dis isolated from a breast carcinoma of a female rhesus tinct from the type C viruses and is the prototype of the type monkey (an Old World monkey). MPMV is of obvious B virus group (30). A retrovirus group of primate origin, importance in that it is the only retrovirus thus far isolated which has properties similar to the type C and type B from a mammary tumor of a primate and has been shown viruses but is morphologically distinct from them, has been to have transforming potential for primate cells in vitro. designated genus Oncornavirus D (30). The prototype virus Subsequent to the isolation of MPMV, viruses morpholog of this genus is the MPMV. MPMV was originally isolated ically and ¡mmunologicallyindistinguishable from MPMV from a mammary carcinoma of a female rhesus monkey (an have been isolated from normal placenta and lactating Old World monkey) (19, 60). Because mammary carcinomas mammary glands of other rhesus monkeys in captivity. represent the most prevalent form of neoplasia in humans Recently, viruses morphologically resembling MPMV have and, furthermore, because the incidence of mammary tu been isolated from a langur monkey (another Old World mors in subhuman primates is rare (61, 62, 70, 78), MPMV monkey) and from squirrel monkeys (a New World mon is of obvious potential importance because it is the only key). -
Knowledge of Tobamovirus-Plant Interactions Helps in Understanding and Managing the New Invasive Tomato Brown Regose Fruit Virus (Tobrfv)
Knowledge of tobamovirus-plant interactions helps in understanding and managing the new invasive tomato brown regose fruit virus (ToBRFV) Robert L. Gilbertson Department of Plant Pathology University of California Davis Photos: N. Salem What is a tobamovirus? • It is a member of a genus (Tobamovirus) in the family Virgaviridae • The tobamovirus type species is Tobacco mosaic virus (TMV), a very famous plant virus! • 37 species currently recognized • Tobamoviruses have similar features -rigid rod-shaped virus particles (18 X 300 nm) -single positive-sense RNA genome of ~6.4 kb -similar genome -transmitted by contact and seed, no insect vector • Many cause economically important diseases! Multiple tobamoviruses infect tomato • At least five tobamoviruses infect tomato and induce similar symptoms: -Tobacco mosaic virus (TMV) -Tomato mosaic virus (ToMV) -Tobacco mild green mosaic virus (TMGMV) -Tomato mottle mosaic virus (ToMMV) -Tomato brown rugose fruit virus (ToBRFV) Symptoms Symptoms Virus Emergent Leaves Fruit Tm-22 Distribution Importance TMV No Mo, Di, SS Browning* Resistant WW Low ToMV No Mo. Di, SS Browning* Resistant WW High TGMMV No Mo, Di, SS Few or none Resistant WW Medium ToMMV Yes (2013) Mo, Di, SS Few or none Resistant* MX, USA, Medium ME, Spain ToBRFV Yes (2015) Mo, Di, SS Necrotic Susceptible ME, MX, High lesions* USA, Europe Type of tomato production and potential ToBRFV impact • Open field *Processing tomatoes in CA Minimal touching and 3 month tomato free period No findings in 2020 **Fresh market production (various) -
No Evidence Known Viruses Play a Role in the Pathogenesis of Onchocerciasis-Associated Epilepsy
pathogens Article No Evidence Known Viruses Play a Role in the Pathogenesis of Onchocerciasis-Associated Epilepsy. An Explorative Metagenomic Case-Control Study Michael Roach 1 , Adrian Cantu 2, Melissa Krizia Vieri 3 , Matthew Cotten 4,5,6, Paul Kellam 5, My Phan 5,6 , Lia van der Hoek 7 , Michel Mandro 8, Floribert Tepage 9, Germain Mambandu 10, Gisele Musinya 11, Anne Laudisoit 12 , Robert Colebunders 3 , Robert Edwards 1,2,13 and John L. Mokili 13,* 1 College of Science and Engineering, Flinders University, Adelaide, SA 5001, Australia; michael.roach@flinders.edu.au (M.R.); robert.edwards@flinders.edu.au (R.E.) 2 Computational Sciences Research Center, Biology Department, San Diego State University, San Diego, CA 92182, USA; [email protected] 3 Global Health Institute, University of Antwerp, 2160 Antwerp, Belgium; [email protected] (M.K.V.); [email protected] (R.C.) 4 Wellcome Trust Sanger Institute, Hinxton CB10 1RQ, UK; [email protected] 5 MRC/UVRI and London School of Hygiene and Tropical Medicine, Entebbe, Uganda; [email protected] (P.K.); [email protected] (M.P.) 6 Centre for Virus Research, MRC-University of Glasgow, Glasgow G61 1QH, UK 7 Laboratory of Experimental Virology, Department of Medical Microbiology and Infection Prevention, Amsterdam UMC, University of Amsterdam, 1012 WX Amsterdam, The Netherlands; [email protected] 8 Provincial Health Division Ituri, Ministry of Health, Ituri, Congo; [email protected] Citation: Roach, M.; Cantu, A.; Vieri, 9 Provincial Health Division Bas Uélé, Ministry of Health, Bas Uélé, Congo; fl[email protected] M.K.; Cotten, M.; Kellam, P.; Phan, M.; 10 Provincial Health Division Tshopo, Ministry of Health, Tshopo, Congo; [email protected] Hoek, L.v.d.; Mandro, M.; Tepage, F.; 11 Médecins Sans Frontières, Bunia, Congo; [email protected] Mambandu, G.; et al.