The Genome Sequence of the Malaria of the Most Efficient Malaria Vectors in the World
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Genomics and Expected Benefits for Vector Entomology
4 Genomics and expected benefits for vector entomology Christos Louis# Abstract This paper summarizes the gains expected for vector entomology from the acquisition of the genome sequence of disease-transmitting arthropods. The results of this kind of high-throughput science, especially the direct consequences that could be summarily described as post-genomic activities, may lead to a better understanding of the biology of the vectors, including population studies, interactions with the disease agents and, finally, the direct development of tools, biological or bioinformatics- based, to be used in their control. Keywords: genome sequencing; genome mining; comparative genomics The facts and the prospects Although the etymology of the term genomics is obvious, in contrast, its definition is fairly vague. Interestingly, unless one would encompass in it the notion of ‘high- throughput research’, Bridges’ pioneering work on the cytogenetic mapping using the polytene chromosomes of Drosophila (Bridges 1935) would definitely qualify as genomic research, possibly marking the beginning of the discipline. The particularly tedious and time-consuming closing of gaps in the whole genome sequence (WGS) of the same organism, on the other hand, can hardly be described as ‘high throughput’, thus its inclusion in the category of ‘-ics’ science could theoretically merely be done as a typical example of ‘post-genomics’. In spite of these philological considerations genomics has not only found its place in biological research, even more so, it represents a constantly expanding field, also due to the continual development of new biotechnological, technological and informatics-based tools. The first reported completion of the sequence of a large segment of eukaryotic DNA, that of chromosome XI of Saccharomyces cerevisiae (Dujon et al. -
The Molecular Biology of Insect Disease Vectors
THE MOLECULAR BIOLOGY OF INSECT DISEASE VECTORS JOIN US ON THE INTERNET VIA WWW, GOPHER, FTP OR EMAIL: WWW: http://www.thomson.com GOPHER: gopher.thomson.com A service of ICDP® FTP: ftp.thomson.com EMAIL: [email protected] THE MOLECULAR BIOLOGY OF INSECT DISEASE VECTORS A METHODS MANUAL Edited by J.M. CRAMPTON Division of Molecular Biology and Immunology, Liverpool School of Tropical Medicine, UK C.B. BEARD Centers for Disease Control and Prevention, Atlanta, USA and C. LOUIS Department of Biology, University of Crete m CHAPMAN & HALL London· Weinheim . New York· Tokyo· Melbourne· Madras Published by Chapman & Ball, 2-6 Boundary Row, London SEt 8HN, UK Chapman & Hall, 2-6 Boundary Row, London SEI 8HN, UK Chapman & Hall GmbH, Pappelallee 3, 69469 Weinheim, Gennany Chapman & Hall USA, 115 Fifth Avenue, New York. NY 10003. USA Chapman & Hall Japan, ITP-Japan, Kyowa Building, 3F. 2-2-1 Hirakawacho, Chiyoda-ku, Tokyo 102, Japan Chapman & Hall Australia, 102 Dodds Street, South Melbourne. Victoria 3205. Australia Chapman & Hall India, R. Seshadri, 32 Second Main Road. CIT East. Madras 600 035. India First edition 1997 © 1997 Chapman & Hall Softcover reprint of the hardcover I st edition 1997 Typeset by Saxon Graphics Ltd .• Derby ISBN-13: 978-94-010-7185-7 e-ISBN-13: 978-94-009-1535-0 DOl: 10.1007/978-94-009-1535-0 Apart from any fair dealing for the purposes of research or private study. or criticism or review. as permitted under the UK Copyright Designs and Patents Act. 1988. this publication may not be reproduced. stored, or transmitted, in any form or by any means, without the prior permission in writing of the publishers, or in the case of reprographic reproduction only in accordance with the terms of the licences issued by the Copyright Licensing Agency in the UK. -
BRIDGING LABORATORY and FIELD RESEARCH for GENETIC CONTROL of DISEASE VECTORS Wageningen UR Frontis Series
BRIDGING LABORATORY AND FIELD RESEARCH FOR GENETIC CONTROL OF DISEASE VECTORS Wageningen UR Frontis Series VOLUME 11 Series editor: R.J. Bogers Frontis – Wageningen International Nucleus for Strategic Expertise, Wageningen University and Research Centre, Wageningen, The Netherlands Online version at http://www.wur.nl/frontis BRIDGING LABORATORY AND FIELD RESEARCH FOR GENETIC CONTROL OF DISEASE VECTORS Edited by B.G.J. KNOLS International Atomic Energy Agency (IAEA), Seibersdorf, Austria and Laboratory of Entomology, Wageningen University and Research Centre, Wageningen, The Netherlands and C. LOUIS Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology, Heraklion, Crete, Greece A C.I.P. Catalogue record for this book is available from the Library of Congress. ISBN-10 1-4020-3800-3 (PB) ISBN-13 978-1-4020-3800-6 (PB) ISBN-10 1-4020-3799-6 (HB) ISBN-13 978-1-4020-3799-3 (HB) Published by Springer, P.O. Box 17, 3300 AA Dordrecht, The Netherlands. www.springer.com Printed on acid-free paper All Rights Reserved © 2006 Springer No part of this work may be reproduced, stored in a retrieval system, or transmitted in any form or by any means, electronic, mechanical, photocopying, microfilming, recording or otherwise, without written permission from the Publisher, with the exception of any material supplied specifically for the purpose of being entered and executed on a computer system, for exclusive use by the purchaser of the work. Printed in the Netherlands. Contents Preface ix 1. Executive summary 1 2. Report of the working-group meeting 5 Christos Louis (Greece) and Bart G.J. Knols (Austria) (rapporteurs) Lessons learnt and anticipated benefits 3. -
The Phaeodactylum Genome Reveals the Dynamic Nature and MultiLineage Evolutionary History of Diatom Genomes
The Phaeodactylum genome reveals the dynamic nature and multilineage evolutionary history of diatom genomes Chris Bowler1,2, Andrew E. Allen1,3*, Jonathan H. Badger3*, Jane Grimwood4*, Kamel Jabbari1*, Alan Kuo5*, Uma Maheswari1*, Cindy Martens6*, Florian Maumus1*, Robert P. Otillar5*, Edda Rayko1*, Asaf Salamov5*, Klaas Vandepoele6*, Bank Beszteri7, Ansgar Gruber8, Marc Heijde1, Michael Katinka9, Thomas Mock10, Klaus Valentin7, Fréderic Vérret11, John A. Berges12, Colin Brownlee11, Jean-Paul Cadoret13, Anthony Chiovitti14, Chang Jae Choi12, Sacha Coesel2$, Alessandra De Martino1, J. Chris Detter5, Colleen Durkin10, Angela Falciatore2, Jérome Fournet15, Miyoshi Haruta16, Marie Huysman17, Bethany D. Jenkins18, Katerina Jiroutova19, Richard E. Jorgensen20, Yolaine Joubert15, Aaron Kaplan21, Nils Kroeger22, Peter Kroth8, Julie La Roche23, Erica Lindquist5, Markus Lommer23,Véronique Martin-Jézéquel15, Pascal J. Lopez1, Susan Lucas5, Manuela Mangogna2, KarenMcGinnis20, Linda K. Medlin7, Anton Montsant1,2, Marie-Pierre Oudot- Le Secq24, CarolynNapoli20, Miroslav Obornik19, Jean-Louis Petit9, Betina M. Porcel9, Nicole Poulsen25, Matthew Robison16, Leszek Rychlewski26, Tatiana A. Rynearson27, Jeremy Schmutz4, Micaela Schnitzler Parker10, Harris Shapiro5, Magali Siaut2§, Michele Stanley28, Michael J., Sussman16, Alison Taylor11,29, Assaf Vardi1,30, Peter von Dassow31, Wim Vyverman17, Anusuya Willis14, Lucjan S. Wyrwicz26, Daniel S. Rokhsar5, Jean Weissenbach9, E. Virginia Armbrust10, Beverley R. Green24, Yves Van de Peer6, and Igor V. Grigoriev5 -
Identification and Characterization of Differentially Expressed Cdnas of the Vector Mosquito, Anopheles Gambiae
Proc. Natl. Acad. Sci. USA Vol. 93, pp. 13066–13071, November 1996 Genetics Identification and characterization of differentially expressed cDNAs of the vector mosquito, Anopheles gambiae GEORGE DIMOPOULOS*†‡,ADAM RICHMAN‡,ALESSANDRA DELLA TORRE*§,FOTIS C. KAFATOS‡, AND CHRISTOS LOUIS*† *Institute of Molecular Biology and Biotechnology, Foundation of Research and Technology–Hellas, GR-711 10 Heraklion, Crete, Greece; †Department of Biology, University of Crete, GR-711 10 Heraklion, Crete, Greece; §Istituto di Parassitologia, Fondazione Cenci Bolognetti, Universita`degli Studi ‘‘La Sapienza,’’ I-00185 Rome, Italy; and ‡European Molecular Biology Laboratory, D-69117 Heidelberg, Germany Contributed by Fotis C. Kafatos, August 19, 1996 ABSTRACT The isolation and study of Anopheles gambiae More broadly, isolation of differentially expressed mosquito genes that are differentially expressed in development, notably genes should provide tools for analyzing development and phys- in tissues associated with the maturation and transmission of iology, potentially contributing to our understanding of how the the malaria parasite, is important for the elucidation of basic vector interacts with insect-specific stages of the malaria parasite. molecular mechanisms underlying vector–parasite interac- Until recently, the methods of choice for identification of tions. We have used the differential display technique to differentially expressed genes were construction of subtracted screen for mRNAs specifically expressed in adult males, cDNA libraries, or differential screening of ordinary genomic or females, and midgut tissues of blood-fed and unfed females. cDNA libraries. In both cases, the availability of sufficient starting We also screened for mRNAs specifically induced upon bac- material can represent a problem, as is often true for mosquito terial infection of larval stage mosquitoes. -
The Rise of Genomics
G Model CRASS3-3444; No. of Pages 9 C. R. Biologies xxx (2016) xxx–xxx Contents lists available at ScienceDirect Comptes Rendus Biologies ww w.sciencedirect.com Trajectories of genetics, 150 years after Mendel/Trajectoires de la ge´ne´tique, 150 ans apre`s Mendel The rise of genomics L’essor de la ge´nomique a,b,c, Jean Weissenbach * a Commissariat a` l’e´nergie atomique et aux e´nergies alternatives, Institut de ge´nomique, Genoscope, 2, rue Gaston-Cre´mieux, 91000 E´vry, France b CNRS, Unite´ de ge´nomique me´tabolique UMR8030, 2, rue Gaston-Cre´mieux, 91000 E´vry, France c Universite´ d’E´vry, Unite´ de ge´nomique me´tabolique UMR8030, 2, rue Gaston-Cre´mieux, 91000 E´vry, France A R T I C L E I N F O A B S T R A C T Article history: A brief history of the development of genomics is provided. Complete sequencing of Received 28 March 2016 genomes of uni- and multicellular organisms is based on important progress in sequencing Accepted after revision 19 April 2016 and bioinformatics. Evolution of these methods is ongoing and has triggered an explosion Available online xxx in data production and analysis. Initial analyses focused on the inventory of genes encoding proteins. Completeness and quality of gene prediction remains crucial. Genome analyses Keywords: profoundly modified our views on evolution, biodiversity and contributed to the detection Sequencing of new functions, yet to be fully elucidated, such as those fulfilled by non-coding RNAs. Genomes Genomics has become the basis for the study of biology and provides the molecular support Bioinformatics for a bunch of large-scale studies, the omics. -
Daily Newspaper View of Dengue Fever Epidemic, Athens, Greece, 1927–1931 Christos Louis
HISTORICAL REVIEW Daily Newspaper View of Dengue Fever Epidemic, Athens, Greece, 1927–1931 Christos Louis During the late summers of 1927 and 1928, a biphasic unpaved; electric service was intermittent; a citywide dengue epidemic affected the Athens, Greece, metropolitan sewage system was nonexistent; and the potable water area; >90% of the population became sick, and >1,000 supply was rudimentary, often forcing residents to persons (1,553 in the entire country) died. This epidemic was store water in containers. Moreover, the population of the most recent and most serious dengue fever epidemic in the metropolitan Athens area, like the remainder of the Europe. Review of all articles published by one of the most country, had increased markedly because of the exchange infl uential Greek daily newspapers (I Kathimerini) during the epidemic and the years that followed it did not shed light on of populations between Turkey and Greece after the war the controversy about whether the high number of deaths between the 2 countries and the defeat of Greece in 1922 resulted from dengue hemorrhagic fever after sequential (6). The Hellenic National Statistical Agency reported infections with dengue virus types 1 and 2 or to a particularly the arrival to Greece of ≈1 million refugees, leading to a virulent type 1 virus. Nevertheless, study of the old reports 23.68% increase of the population during 1920–1928. is crucial considering the relatively recent introduction of In the Athens metropolitan area, the increase was ≈68%, Aedes albopictus mosquitoes and the frequent warnings of and most of the newcomers were destitute and lived in a possible reemergence of dengue fever in Europe. -
The Anopheles Gambiae Detoxification Chip: a Highly Specific Microarray to Study Metabolic-Based Insecticide Resistance in Malaria Vectors
The Anopheles gambiae detoxification chip: A highly specific microarray to study metabolic-based insecticide resistance in malaria vectors Jean-Philippe David*, Clare Strode*, John Vontas†‡, Dimitra Nikou*‡, Ashley Vaughan*, Patricia M. Pignatelli*, Christos Louis†§, Janet Hemingway*, and Hilary Ranson*¶ *Vector Research Group, Liverpool School of Tropical Medicine, Pembroke Place, Liverpool L35QA, United Kingdom; †Institute of Molecular Biology and Biochemistry, Foundation for Research and Technology, Hellas, Vassilika Vouton, P.O. Box 1527, 711 10 Heraklion, Crete, Greece; and §Department of Biology, University of Crete, 714 09 Heraklion, Crete, Greece Edited by Barry J. Beaty, Colorado State University, Fort Collins, CO, and approved February 7, 2005 (received for review December 16, 2004) Metabolic pathways play an important role in insecticide resis- equivalent assays can be developed for metabolic resistance tance, but the full spectra of the genes involved in resistance has mechanisms, candidate genes must be identified, and their role not been established. We constructed a microarray containing in insecticide metabolism must be verified. As a first step in this unique fragments from 230 Anopheles gambiae genes putatively process, we developed a simple microarray for simultaneously involved in insecticide metabolism [cytochrome P450s (P450s), examining the transcription profile of the superfamilies of genes GSTs, and carboxylesterases and redox genes, partners of the P450 involved in insecticide detoxification. Several large-scale mi- oxidative metabolic complex, and various controls]. We used this croarrays have already been developed for An. gambiae (ref. 9 detox chip to monitor the expression of the detoxifying genes in and www.malaria.mr4.org), but none of these microarrays are insecticide resistant and susceptible An. -
An Assessment of Progress in Human Genome Programmes Worldwide (A Support Study for the Evaluation of the EC Human Genome Analysis Programme)
EUR 15. U \Z$ ISSN 1018-5593 European Commission An assessment of progress in Human Genome Programmes worldwide (A support study for the evaluation of the EC Human Genome Analysis Programme) Report Research evaluation EUR 15412 EN European Commission An assessment of progress in Human Genome Programmes worldwide (A support study for the evaluation of the EC Human Genome Analysis Programme) Authors: B.R. Jordan The opinions contained in this report are the sole responsibility of the author and do not necessarily reflect the official position of the European Commission. " """'"■■""■•»»Τ*«»*«»··!·»—■-■w·^·^ 1994 NC EUR 15412 EN C1. Published by the EUROPEAN COMMISSION DIRECTORATE GENERAL XIII Telecommunications, Information Market and Exploitation of Research L-2920 Luxembourg LEGAL NOTICE Neither the European Commission nor any person acting on behalf of the Commission is responsible for the use which might be made of the following information Cataloguing data can be found at the end of this publication Luxembourg: Office for Official Publications of the European Communities, 1994 ISBN 92-826-8226-9 © ECSC-EC-EAEC Brussels · Luxembourg, 1994 Printed in Belgium TABLE OF CONTENTS FOREWORD I. INTRODUCTION 1 Π. REVIEW OF MAJOR NATIONAL PROGRAMMES 5 Π A. UNITED STATES 5 Π A 1. Current plan and major participants Π A 2. Assessment of progress A caveat The DOE juggernaut The NIH kaleidoscope Π A 3. General comments (scientific) Genetic maps Physical maps Cytogenetics Sequencing Π A 4. General comments (organizational) DOE vs NIH Manpower Informatics and instrumentation Π A 5. Recent developments Π Β. JAPAN 11 Π Β 1. Current plan and major participants Π Β 2. -
New Susceptibility Locus for Rheumatoid Arthritis Suggested by a Genome-Wide Linkage Study
Proc. Natl. Acad. Sci. USA Vol. 95, pp. 10746–10750, September 1998 Genetics New susceptibility locus for rheumatoid arthritis suggested by a genome-wide linkage study FRANC¸OIS CORNE´LIS*†‡,SABINE FAURE´†,MARIA MARTINEZ§,JEAN-FRANC¸OIS PRUD’HOMME†,PIERRE FRITZ*†, \ \ COLETTE DIB†,HELENA ALVES¶,PILAR BARRERA ,NIEK DE VRIES ,ALEJANDRO BALSA**, DORA PASCUAL-SALCEDO**, KRISTIN MAENAUT††,RENE´ WESTHOVENS††,PAOLA MIGLIORINI‡‡,TUYET-HOA TRAN*, ARNAUD DELAYE*, NATHALIE PRINCE*, CAROLINE LEFEVRE*, GAE¨LLE THOMAS†,MURIELLE POIRIER†,STE´PHANE SOUBIGOU†, OLIVIER ALIBERT†,SANDRA LASBLEIZ†,SYLVAINE FOUIX†,CHRISTIANE BOUCHIER†,FRE´DE´RIC LIOTE´*, MARIE-NOE¨LLE LOSTE§§,VIRGINIA LEPAGE§§,DOMINIQUE CHARRON§§,GABOR GYAPAY†,ANTONIO LOPES-VAZ¶, DANIEL KUNTZ*, THOMAS BARDIN*, AND JEAN WEISSENBACH†¶¶ FOR ECRAF *Poˆle Ge´ne´tiquedes Maladies Auto-immunes, Laboratoire de Radiologie Expe´rimentale et de Physiopathologie Articulaire, Centre Viggo-Petersen, Hoˆpital Lariboisie`re,75010 Paris, France; †Ge´ne´thon-CentreNational de la Recherche Scientifique Unite´de Recherche Associe´e1922, 91002 Evry, France; §Institut National de la Sante´et de la Recherche Me´dicaleU358, and §§Laboratoire d’Histocompatibilite´,Hoˆpital Saint-Louis, 75010 Paris, France; ¶Hospital S Joao, 4200 \ Porto, Portugal; Department of Rheumatology, NL6500 HB, Nijmegen, The Netherlands; **Hospital La Paz, 28046 Madrid, Spain; ††Katholieke Universiteit Leuven, 3212 Pellenberg, Belgium; ‡‡Instito Patologia Medica-56126 Pisa, Italy; and ¶¶ECRAF (The European Consortium on Rheumatoid Arthritis Families), which includes: T.B., D.C., F.C. (coordinator), S.F., D.K., M.M., J.F.P., J.W. (France); R.W., J. Dequeker (Belgium); A.B., D.P.-S. (Spain); M. Spyropoulou, C. Stavropoulos (Greece); P.M., S. Bombardieri (Italy); P.B., L. -
The Sequence of the Tip of the X Chromosome of Drosophila Melanogaster, a Comparison of Two Sequencing Strategies
Downloaded from genome.cshlp.org on March 9, 2017 - Published by Cold Spring Harbor Laboratory Press Letter From First Base: The Sequence of the Tip of the X Chromosome of Drosophila melanogaster, a Comparison of Two Sequencing Strategies Panayiotis V. Benos,1,15 Melanie K. Gatt,2,11 Lee Murphy,3 David Harris,3 Bart Barrell,3 Concepcion Ferraz,4 Sophie Vidal,4 Christine Brun,4 Jacques Demaille,4 Edouard Cadieu,5 Stephane Dreano,5 Stéphanie Gloux,5 Valerie Lelaure,5 Stephanie Mottier,5 Francis Galibert,5 Dana Borkova,6 Belen Miñana,6 Fotis C. Kafatos,6 Slava Bolshakov,6,7 Inga Sidén-Kiamos,7 George Papagiannakis,7 Lefteris Spanos,7 Christos Louis,7,8 Encarnacio´n Madueño,9 Beatriz de Pablos,9 Juan Modolell,9 Annette Peter,10 Petra Schöttler,10 Meike Werner,10 Fotini Mourkioti,10 Nicole Beinert,10 Gordon Dowe,10 Ulrich Schäfer,10 Herbert Jäckle,10 Alain Bucheton,4 Debbie Callister,11 Lorna Campbell,11 Nadine S. Henderson,11 Paul J. McMillan,11 Cathy Salles,11 Evelyn Tait,11 Phillipe Valenti,11 Robert D.C. Saunders,11,12 Alain Billaud,13 Lior Pachter,14 David M. Glover,2,11 and Michael Ashburner1,2,16 1EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK; 2Department of Genetics, University of Cambridge, Cambridge, CB2 3EH, UK; 3Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK; 4Montpellier University Medical School, IGH-Institut de Ge´ne´tique Humaine-CNRS, 34396 Montpellier Cedex 5, France; 5UPR 41, CNRS, Recombinaisons Ge´ne´tiques, Faculte -
Journal of Biomedical Semantics
Journal of Biomedical Semantics This Provisional PDF corresponds to the article as it appeared upon acceptance. Fully formatted PDF and full text (HTML) versions will be made available soon. The Ontology for Parasite Lifecycle (OPL): towards a consistent vocabulary of lifecycle stages in parasitic organisms Journal of Biomedical Semantics 2012, 3:5 doi:10.1186/2041-1480-3-5 Priti P Parikh ([email protected]) Jie Zheng ([email protected]) Flora Logan-Klumper ([email protected]) Christian J Stoeckert Jr. ([email protected]) Christos Louis ([email protected]) Pantelis Topalis ([email protected]) Anna V Protasio ([email protected]) Amit P Sheth ([email protected]) Mark Carrington ([email protected]) Matthew Berriman ([email protected]) Satya S Sahoo ([email protected]) ISSN 2041-1480 Article type Research Submission date 7 October 2011 Acceptance date 23 May 2012 Publication date 23 May 2012 Article URL http://www.jbiomedsem.com/content/3/1/5 This peer-reviewed article was published immediately upon acceptance. It can be downloaded, printed and distributed freely for any purposes (see copyright notice below). Articles in Journal of Biomedical Semantics are listed in PubMed and archived at PubMed Central. For information about publishing your research in Journal of Biomedical Semantics or any BioMed Central journal, go to http://www.jbiomedsem.com/authors/instructions/ For information about other BioMed Central publications go to © 2012 Parikh et al. ; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.