DOCSLIB.ORG

Carlos Costa Ioc Mest 2018.Pdf

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Carlos Costa Ioc Mest 2018.Pdf MINISTÉRIO DA SAÚDE FUNDAÇÃO OSWALDO CRUZ INSTITUTO OSWALDO CRUZ Mestrado no Programa de Pós-Graduação Biologia Computacional e Sistemas GENOMA MITOCONDRIAL DE SIMULIUM SPP. E ONCHOCERCA VOLVULUS DA AMAZÔNIA BRASILEIRA CARLOS HENRIQUE AGUIAR COSTA Rio de Janeiro Março de 2018 INSTITUTO OSWALDO CRUZ Programa de Pós-Graduação em Biologia Computacional e Sistemas Carlos Henrique Aguiar Costa Genoma mitocondrial de Simulium spp. e Onchocerca volvulus na Amazônia brasileira Dissertação apresentada ao Instituto Oswaldo Cruz como parte dos requisitos para obtenção do título de Mestre em Biologia Computacional e Sistemas Orientador: Dr(a). Ana Carolina Paulo Vicente RIO DE JANEIRO Março de 2018 INSTITUTO OSWALDO CRUZ Programa de Pós-Graduação em Biologia Computacional e Sistemas CARLOS HENRIQUE AGUIAR COSTA Genoma mitocondrial de Simulium spp. e Onchocerca volvulus na Amazônia brasileira Orientadora: Dra. Ana Carolina Paulo Vicente Aprovado em: 22/03/2018 Examinadores: Prof. Dr. Thiago Estevam Parente Martins - IOC/FIOCRUZ (Presidente) Prof. Dr. Adeilton Alves Brandão - IOC/FIOCRUZ Prof. Dr. André Elias Rodrigues Soares - LNCC/RJ Prof. Dr. Marcos Paulo Catanho de Souza - IOC/FIOCRUZ Prof. Drª. Nicole de Miranda Scherer - INCA/RJ RIO DE JANEIRO Março de 2018 "Para minha família" I AGRADECIMENTOS Agradeço aos meus pais, Felício e Perina, e aos meus irmãos, Angelo, Angélica e Rosângela, por sempre me apoiarem nos meus projetos e sonhos, sempre me mantendo com o pé no chão e a cabeça erguida, me ensinando meus valores éticos e morais. À minha orientadora, Ana Carolina Paulo Vicente, pela oportunidade de desenvolver este projeto junto ao grupo do Laboratório de Genética Molecular e Microorganismos. Aos meus colegas de laboratório: Liliane, Sérgio, Fernanda e Érica. Por todo apoio dentro e fora de laboratório. Ao pessoal do Instituto Leônidas e Maria Deane - ILMD, pelo apoio direto e indireto na realização deste projeto. Aos membros da coordenação da Pós-Graduação em Biologia Computacional e Sistemas, pela ajuda e atenção durante esses dois anos de Mestrado. À agência de fomento, Capes, por financiar este projeto. II INSTITUTO OSWALDO CRUZ GENOMA MITOCONDRIAL DE SIMULIUM SPP. E ONCHOCERCA VOLVULUS NA AMAZÔNIA BRASILEIRA RESUMO DISSERTAÇÃO DE MESTRADO EM BIOLOGIA COMPUTACIONAL E SISTEMAS CARLOS HENRIQUE AGUIAR COSTA As espécies de simulídeos são vetores de filárias, como as do gênero Onchocerca e Mansonella, que são os agentes etiológicos da oncocercose e mansonellose, respectivamente. Essas duas filárias ocorrem na região Amazônica brasileira e são transmitidas pelas seguintes espécies de vetores: Simulium incrustatum, S. limbatum, S. oyapockense, S. exiguum, S. guianense, e S. roraimense. As espécies de Simulium tem sido designada com base em caracteres morfológicos, os quais, em alguns casos, não são bem discriminativos. Recentemente, o gene mitocondrial Citocromo c-oxidase 1 (CO1) e a região nuclear Internal Transcribed Spacer (ITS) tem sido utilizados para descriminar espécies e definir populações dentro deste gênero. Entretanto, existe um grande gap acerca da informação genética de Simulium, o qual é considerado a linha de base para estudos ecológicos e populacionais. Considerando este cenário, nosso objetivo foi aplicar a metagenômica para recuperar genomas mitocondriais de amostras brasileiras S. incrustatum e S. oyapockense do foco de oncocercose e também a informação genética a respeito de seus microbiomas. O DNA total de dez simulídeos, morfologicamente identificados como S. incrustatum (3) e S. oyapockense (7) foram sequenciados randomicamente na plataforma Illumina HiSeq 2500. Nós recuperamos dez genomas mitocondriais com cobertura média de 15,591 bp e conteúdo médio de GC de 22,94 %, apresentando o mesmo conteúdo gênico e em sintenia. Baseado nestes mitogenomas, no gene mitocondrial CO1, e também na região nuclear (ITS), realizamos análises filogenéticas que mostraram a presença de três espécies conhecidas dentre as amostras: S. incrustatum, S. oyapockense e S. guianense, e também um grupo de amostras pertencentes à Simulium spp. Nós também recuperamos um genoma mitocondrial de Onchocerca volvulus da amostra aqui identificada como S. guianense. Análises filogenéticas baseadas neste genoma mitocondrial mostraram sua relação próxima com uma O. volvulus de um caso clínico da Amazônia brasileira. Análises taxonômicas do microbioma dos simulídeos revelaram Proteobacteria e Ascomycota como os filos mais abundantes. A análise funcional revelou que a família de enzimas das Transcriptases Reversas são as mais abundantes. Portanto, nós contribuímos com informação genética original preenchendo parte do viés a respeito das espécies de Simulium associadas ao foco brasileiro de oncocercose. III INSTITUTO OSWALDO CRUZ MITOCHONDRIAL GENOME OF SIMULIUM SPP. AND ONCHOCERCA VOLVULUS FROM BRAZILIAN AMAZON ABSTRACT MASTER DISSERTATION THESIS IN BIOLOGIA COMPUTACIONAL CARLOS HENRIQUE AGUIAR COSTA Simulium species are filarial vectors, such as those from Onchocerca and Mansonella genus that are the etiological agents of onchocerciasis and mansonelliasis, respectively. These two filariasis occur in the Brazilian Amazon region and are transmitted by the following vector species: Simulium incrustatum, S. limbatum, S. oyapockense, S. exiguum, S. guianense, and S. roraimense. Simulium species have been assigned based on morphological characters, which are not well discriminative in some cases. Recently, the mitochondrial gene Cytochrome c-oxidase 1 (CO1) and the nuclear Internal Transcribed Spacer (ITS) have been used to discriminate species and define populations within this genus. However, there is an enormous gap concerning Simulium genetic information, which is the base line for population and ecological studies. Considering this scenario, our aim was to apply metagenomics to recover mitochondrial genomes from S. incrustatum and S. oyapockense samples of the Brazilian onchocerciasis focus as well as the genetic information concerning their microbiome. Total DNA from ten simuliids morphologically identified as S. oyapockense (7) and S. incrustatum (3) were shotgun sequenced in the Illumina HiSeq 2500 Platform. We recovered ten simuliids mitochondrial genomes with an average length of 15,591 bp, and an average GC content of 22.94%, presenting the same gene content and synteny. Based on these mitogenomes, the CO1 mitochondrial gene, and the nuclear region (ITS) we performed phylogenetic analyses that showed the presence of three known species among the samples: S. incrustatum, S. oyapockense and S. guianense, and a group of samples belonging to Simulium spp. We also recovered an O. volvulus mitochondrial genome from the sample identified here as S. guianense. Phylogenetic analysis based on this mitochondrial genome showed its close relationship with a clinical O. volvulus from the Brazilian Amazon region. Taxonomic analysis of the simuliids microbiome revealed Proteobacteria and Ascomycota as the most abundant phyla. Functional analysis showed that Reverse Transcriptase was the most abundant protein family. Therefore, we contributed with original genetic information filling part of the gap concerning the Simulium species associated to the Brazilian Onchocerciasis focus. IV ÍNDICE RESUMO ................................................................................................................................... III ABSTRACT ............................................................................................................................... IV 1. INTRODUÇÃO ................................................................................................................... 1 1.1. Simulídeos ........................................................................................................... 2 1.3. Endossimbiontes de Insetos e Nemátodos............................................................. 3 1.3.1. Endosimbionte Wolbachia em simulídeos ..................................................... 5 1.4. Espécies de Simulium spp. no foco Amazônico de Oncocercose ............................ 5 1.5. Abordagens genética na identificação de simulídeos ............................................ 5 1.5.1. Sequências de genomas mitocondriais de simulídeos .................................... 6 1.6. Sequenciamento de Alto Desempenho (HTS) e Metagenômica............................. 6 1.7. Controle de qualidade de dados de sequenciamento ............................................ 6 1.8. Mapeamento e Identificação Taxonômica das reads. ........................................... 7 1.9. Montagem de genomas ........................................................................................ 8 1.10. Anotação de Genomas ...................................................................................... 9 1.10.1. Anotação de Metagenomas ........................................................................... 9 2. OBJETIVOS ...................................................................................................................... 11 2.1. Objetivo Geral ................................................................................................... 11 2.2. Objetivo Específico ............................................................................................ 11 3. MATERIAIS E MÉTODOS ............................................................................................. 12 3.1. Obtenção das amostras de Simulium oyapockense e Simulium incrustatum infectadas com filárias .................................................................................................
Load more

Recommended publications
  • Abstract Book
    The 3rd International Simuliidae Symposium, including the 29 th meeting of the British Simuliid Group, the 7 th European Simuliidae Symposium and EMCA Blackfly working group Abstract book Vilnius September 9 th – 12 th , 2008 The 3rd International Simuliidae Symposium, including the 29 th meeting of the British Simuliid Group, the 7 th European Simuliidae Symposium and EMCA Blackfly working group Abstract book Vilnius September 9 th – 12 th , 2008 ISBN: 2008 09 08. Tiražas 100 egz. Spausdino VŠ Į “Vilniaus universiteto leidykla”, Universiteto g. 1, LT-01122 Vilnius Editors: Vincas B ūda and Andrius Petraši ūnas Programme and Scientific committee: Organizing committee: Prof. Peter Adler, USA Prof. Sigitas Pod ėnas Prof. Dr. Ladislav Jedli čka, Slovakia Prof. Vincas B ūda Dr. Robert A. Fusco, USA Dr. Milda Žygutien ė Dr. John Davies, UK Dr. Rasa Bernotien ė Dr. Rory Post, UK Dr. Jolanta Rimšait ė Dr. Adrian Pont, UK M. Sc. Giedr ė Višinskien ė Dr. Manfred Car, Austria M. Sc. Andrius Petraši ūnas Dr. Jan Emil Raastad, Norway M. Sc. Pavel Visar čuk Dr. Doreen Werner, Germany M. Sc. Aleksandra Ignjatovi ć Ćupina, Serbia Hosting institutions: Institute of Ecology of Vilnius University Lithuanian Entomological Society Sponsors: LIETUVOS VALSTYBINIS MOKSLO IR STUDIJ Ų FONDAS Lithuanian State Science and Studies Foundation 4 ORAL PRESENTATIONS 5 WORLD PERSPECTIVE OF SIMULIIDAE Peter H. Adler Department of Entomology, Soils & Plant Sciences, Clemson University, 114 Long Hall, Box 340315, Clemson, SC 29634, USA. E-mail: [email protected] The total number of living, described species of black flies in the world is 2019. Black flies, therefore, represent 0.2% of all described species of insects and 1.3% of all described species of Diptera in the world.
    [Show full text]
  • The Black Flies of Minnesota (Simuliidae)
    92 - Technical Bulletin 192 August 1950 The Black Flies of Minnesota (Simuliidae) H. Page Nicholson and Clarence E. Mickel Division of Entomology and Economic Zoology fx° k SOS' cYCC' A University of Minnesota Agricultural Experiment Station The Black Flies of Minnesota (Simuliidae) H. Page Nicholson and Clarence E. Mickel Division of Entomology and Economic Zoology , University of Minnesota Agricultural Experiment Station Submitted for publication September 16, 1949 2500-4-50 TABLE OF CONTENTS Page PART I. Introduction 3 Economic Importance 3 PART II. Biology 6 PART III. Systematic Treatise 13 Methods of Collection 13 Classification 14 Key to genera 14 Genus Prosimulium 17 Key to species 17 P. gibsoni 18 P. hirtipes 20 Genus Cnephia 21 Key to females 22 Key tb males 22 C. dacotense 22 C. mutatum 25 C. invenustum 26 C. species 29 Genus Simu/ium 30 Key to females 32 Key to males 33 S. johannseni 34 S. aureum 37 S. /atipes 40 S. croxtoni 41 S. vittatum 42 S. pictipes 46 S. occidentale 47 S. venustum 48 S. jenningsi subsp. jenningsi 52 S. jenningsi subsp. luggeri 54 S. decorum 55 S. corbis 58 S. rugglesi 60 Summary 61 Literature Cited 62 The Black Flies of Minnesota (Simuliidae) H. Page Nicholson' and Clarence E. Mickel2 PART I. INTRODUCTION THE SIMULIIDAE are known throughout the world as biting pests of man and animals and as transmitters of several disease producing agents. Important contributions to our taxonomic knowledge of the group in North America have been made by Malloch (21), Dyar and Shannon (8), Twinn (39), Stains and Knowlton (32), and Vargas, et a/.( 42 ) ( 43 ).
    [Show full text]
  • DNA Barcoding of Blackflies (Diptera: Simuliidae) As a Tool for Species
    Ruiz-Arrondo et al. Parasites & Vectors (2018) 11:463 https://doi.org/10.1186/s13071-018-3046-7 RESEARCH Open Access DNA barcoding of blackflies (Diptera: Simuliidae) as a tool for species identification and detection of hidden diversity in the eastern regions of Spain Ignacio Ruiz-Arrondo1,2*, Luis M. Hernández-Triana3*, Aleksandra Ignjatović-Ćupina4, Nadya Nikolova5, Javier Alfonso Garza-Hernández6, Mario Alberto Rodríguez-Pérez7, José A. Oteo1, Anthony R. Fooks3,8 and Javier Lucientes Curdi2 Abstract Background: Blackflies have negative impact on public and animal health due to the haematophagous habit of females. In recent times, in some regions in Spain, blackfly outbreaks are becoming more and more frequent, threatening the public health. However, there is still a paucity of data concerning the Spanish blackfly fauna. Correct identification of species is of paramount importance in order to provide correct information on species distribution, biology and behaviour, so that control measures could be implemented appropriately. Methods: Blackflies specimens (larvae, pupae, reared adults and biting females) were collected in the period 2015–2017 in and near rivers and streams from different regions in Spain. A modified Hotshot technique was used for the DNA extraction and the cox1 DNA barcoding region of the cytochrome c oxidase subunit 1 was sequenced from the specimens collected. Results: In total, we collected 239 specimens representing 22 species. Of these, six species are new records for the Aragón region: P. tomosvaryi, S. bertrandi, S. galloprovinciale, S. lineatum, S. rubzovianum and S. xanthinum. Cox1DNA barcode sequences for 21 species were recovered, including four species of the genus Prosimulium and 17 species of the genus Simulium [Boophthora (1 species), Eusimulium (1 species), Nevermannia (4 species), Simulium (s.s.) (6 species), Trichodagmia (1 species) and Wilhelmia (4 species)].
    [Show full text]
  • Programme and Abstract Book
    5th International Simuliid Symposium including the 32th Meeting of the British Simuliid Group Programme and abstract book Faculty of Natural Sciences Comenius University in Bratislava Slovakia September 3 – 7, 2012 Organising committee: Matúš Kúdela, Viera Stloukalová, Tatiana Brúderová Editors of the book of abstracts: Matúš Kúdela & Viera Stloukalová 5th International Simuliid Symposium Bratislava, Slovakia, September 3 – 7, 2012 PROGRAMME Monday 3 September since 16:00 Registration (botel Fairway) 19:00 – 21:00 Welcome party (botel Fairway) Tuesday 4 September 8:30 – 9:00 Registration (Faculty of Natural Sciences, Comenius University) 9:00 – 9:30 opening of the Symposium 9:30 – 13:10 presentations 13:10 – 15:00 lunch break 15:00 – 16:00 presentations 16:30 – 22:00 Visit of the Červený kameň castle and the wine cellar Fuggerov dom in village of Častá, dinner Wednesday 5 September whole day field trip departure of the boat 8:30 arrival with bus cca 20:00 Thursday 6 September 9:00 – 13:10 presentations 13:10 – 15:00 lunch break 15:00 – 18:00 presentations 19:30 gala dinner 1 5th International Simuliid Symposium Bratislava, Slovakia, September 3 – 7, 2012 ORAL PRESENTATIONS Tuesday 4 September 9:30 – 10:10 Peter H. Adler: Biodiversity, ancient DNA barcodes, and symbiotic sur- prises in the Simuliidae 10:10 – 10:30 Matúš Kúdela, Ladislav Jedlička, Tatiana Brúderová & Rasa Bernotiene: Simulium reptans, Simulium galeratum and similar species in Europe 10:30 – 10:50 Tatiana Brúderová, Matúš Kúdela: Morphological and genetic variability of Simulium colombaschense – the type species of the genus Simulium 10:50 – 11:10 Matúš Kúdela, Ladislav Jedlička & Rasa Bernotiene: Status of Simulium (Wilhelmia) lineatum and Simulium (Wilhelmia) balcanicum according to analysis of mtDNA COI gene 11:10 – 11:30 COFFEE BREAK 11:30 – 11:50 Peter H.
    [Show full text]
  • Downloaded from the NCBI Nucleotide Database (Accession Numbers Are Shown in Supplementary Table 4.3.8 a and B)
    Analysis of Population Structure of Simulium damnosum sensu lato In the Ecological Transition Zone of Central Ghana Submitted by Ernest Tawiah Gyan BSc. Environmental Science, 2006 University of Cape Coast MPhil Zoology, 2013 University of Ghana A thesis submitted in total fulfilment of the requirements for the degree of Doctor of Philosophy School of Life Sciences College of Health Sciences and Engineering La Trobe University Victoria, Australia October 2019 Table of Contents Analysis of Population Structure of Simulium damnosum sensu lato In the Ecological Transition Zone of Central Ghana ........................................................................................................................... Table of Contents ................................................................................................................................... I Abstract ............................................................................................................................................... VIII Statement of Authorship ..................................................................................................................... IX Dedication .............................................................................................................................................. X Acknowledgement ................................................................................................................................ XI List of Abbreviations ........................................................................................................................
    [Show full text]
  • Assessing Hydromorphological Degradation of Sand-Bottom Lowland Rivers in Central Europe Using Benthic Macroinvertebrates
    Assessing hydromorphological degradation of sand-bottom lowland rivers in Central Europe using benthic macroinvertebrates Inaugural-Dissertation zur Erlangung des Doktorgrades Dr. rer. nat. des Fachbereichs Biologie und Geografie an der Universität Duisburg-Essen vorgelegt von Christian K. Feld geboren in Emsdetten Februar, 2005 Tag der mündlichen Prüfung: 19.07.2005 Gutachter: 1. PD. Dr. Daniel Hering, Essen 2. Prof. Dr. Elisabeth I. Meyer, Münster Die der vorliegenden Arbeit zugrunde liegenden Experimente wurden am Institut für Ökologie in der Abteilung Hydrobiologie der Universität Duisburg-Essen durchge- führt. 1. Gutachter/in: PD Dr. Daniel Hering, Universität Duisburg-Essen, Essen 2. Gutachter/in: Prof. Dr. Elisabeth I. Meyer, Westfälische Wilhelms-Universität Münster 3. Gutachter/in: -- Vorsitzender des Prüfungsausschusses: Prof. Dr. Kuttler, Universität Duisburg-Essen, Essen Tag der mündlichen Prüfung: 19.07.2005 Acknowledgements First of all I would like to thank my advisor Prof. Dr. Helmut Schuhmacher for the offer to prepare my thesis in his department at the University of Duisburg-Essen. I’m especially grateful to PD Dr. D. Hering for his exceptional and always constructive guidance through the last years. This includes the opportunity to work in several international and national research projects. Thank you very much Daniel! Numerous helping hands have contributed to this thesis by assistance during the field and lab work. Special thanks to Marta Wenikajtys and Jörg Tenholtern for company and help during the long-term sample trips throughout the Central European lowland and the lab processing of many samples. I’m grateful to Dr. Armin Lorenz and Peter Rolauffs for their contribution to the identification of the benthic invertebrates and together with Dr.
    [Show full text]
  • Behavioural Response of Blackfly Larvae (Simuliidae, Diptera) to Different Current Velocities
    Limnologica 31 (2001) 179-183 LIMNOLOGICA http://www.urbanfischer.de/j ournals/limno © by Urban & Fischer Verlag Institute for Nature Conservation and Environmental Education, University of Vechta, Vechta, Germany Behavioural Response of Blackfly Larvae (Simuliidae, Diptera) to Different Current Velocities ELLEN KIEL With 3 Figures Key words: Blackfly species, current velocity, looping activity Abstract Video equipment was used to record and to compare the behaviour of bend down to the substratum, apply new silk, release the grip different blackfly species at two flow velocities 0.25 m s-~ and of their abdominal hooks from the old silk pad and attach 1.35 m s 1. Simulium noelleri FRIEDERICHS,Simulium ornatum (com- themselves to the new one. Compared with their feeding po- plex) MEIGEN and Simulium variegatum MEIGEN were studied. Ef- sition, this so called 'looping behaviour' seems to be less fects of flow velocity on larval locomotive activities were analysed. streamlined and secure: video-studies have revealed that Looping activity and the time needed to attach for filter feeding again most larvae detach while looping (REIDELBACtt & KIEL were affectet to some extend, depending on species and flow veloci- ty. While in S. ornatum no differences were recorded in locomotive 1990). activity, larvae of S. noelleri and S. variegatum were less active at This laboratory study was conducted in order to determine high flow velocities. Larvae of S. noelleri also moved over shorter whether current velocity affects larval locomotive behaviour. distances when exposed to high flow velocities. Consequences of the It was carried out in an artificial flume, and compared the be- differences in behavioural response to flow velocities are discussed havioural responses of larvae of three blackfly species.
    [Show full text]
  • Diptera: Simuliidae) of Turkish Thrace, with a New Record for Turkey
    Biodiversity Data Journal 3: e4834 doi: 10.3897/BDJ.3.e4834 Taxonomic Paper Black flies (Diptera: Simuliidae) of Turkish Thrace, with a new record for Turkey Ümit Davut Şirin‡, Hakan Çalışkan‡‡, Yalçın Şahin ‡ Eskişehir Osmangazi University, Faculty of Science and Art, Biology Department, Eskişehir, Turkey Corresponding author: Ümit Davut Şirin ([email protected]) Academic editor: Gunnar Kvifte Received: 06 Mar 2015 | Accepted: 20 Apr 2015 | Published: 22 Apr 2015 Citation: Şirin Ü, Çalışkan H, Şahin Y (2015) Black flies (Diptera: Simuliidae) of Turkish Thrace, with a new record for Turkey. Biodiversity Data Journal 3: e4834. doi: 10.3897/BDJ.3.e4834 Abstract Background This paper includes 2742 specimens of 18 species of black flies (Diptera: Simuliidae) collected from 132 lotic sites in Turkish Thrace, the European part of Turkey, in the early summer of 2002 and 2003 and the spring of 2005 and 2006. New information All species are recorded from this region for the first time, and Metacnephia nigra (Rubtsov, 1940) is a new record for Turkey. Distributional and taxonomical remarks are given for each species. Keywords Black flies, Thrace, Turkey, biodiversity © Şirin Ü et al. This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. & Şirin Ü et al. Introduction Black flies (Simuliidae) are blood-sucking flies, considered the third most medically and veterinary important arthropod group (Adler et al. 2004). A total of 2,177 living, formally described species of black flies are currently recognized as valid, with new species continuing to be discovered (Adler and Crosskey 2015) The immature stages play an important ecological role in streams and rivers where they often dominate the benthos (Crosskey 1990).
    [Show full text]
  • Characterization of the Complete Mitochondrial Genome of Simulium (Byssodon) Maculatum (Diptera: Simuliidae) and Its Phylogenetic Implications
    International Journal of Biological Macromolecules 121 (2019) 152–160 Contents lists available at ScienceDirect International Journal of Biological Macromolecules journal homepage: http://www.elsevier.com/locate/ijbiomac Characterization of the complete mitochondrial genome of Simulium (Byssodon) maculatum (Diptera: Simuliidae) and its phylogenetic implications Gang Wang, Min Huang ⁎ Key Laboratory of Plant Protection Resources and Pest Management of the Ministry of Education, Entomological Museum, Northwest A&F University, Yangling, Shaanxi 712100, China article info abstract Article history: The mitochondrial (mt) genome of the black fly Simulium (Byssodon) maculatum, a pest of great importance for Received 4 September 2018 both humans and livestock, is sequenced and annotated for the first time. The genome structure, gene order and Received in revised form 27 September 2018 codon usage are typical among Diptera mt genomes. The mt genome is circular and 15,799 bp in length with 13 Accepted 27 September 2018 protein coding genes (PCGs), 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNAs) and a control Available online 1 October 2018 region (CR), and with weakly positive AT-skew (0.02) and negative GC-skew (−0.12). Phylogenetic relationships fi Keywords: of 16 species representing ve families of Culicomorpha and two outgroups, based on mt genome data, were Simulium (Byssodon) maculatum analyzed using both Maximum Likelihood and Bayesian methods. The monophyly of Culicomorpha is well Mitochondrial genome supported, while Chironomoidea is indicated as a paraphyletic group. The well supported monophyletic Phylogenetic analysis Simuliidae is the sister group to Culicidae. © 2018 Elsevier B.V. All rights reserved. 1. Introduction and structural homogeneity in morphology of simuliids have hindered attempts to infer phylogenetic relationships of this group based on Black flies are significant vectors of disease agents and pests of morphological characteristics [9].
    [Show full text]
  • Ercġyes Daği Akarsularinda Simulium Türlerġnġn Araġtirilmasi Ve Moleküler Klasġfġkasyonu
    T.C. ERCĠYES ÜNĠVERSĠTESĠ SAĞLIK BĠLĠMLERĠ ENSTĠTÜSÜ VETERĠNER PARAZĠTOLOJĠ ANABĠLĠM DALI ERCĠYES DAĞI AKARSULARINDA SİMULİUM TÜRLERĠNĠN ARAġTIRILMASI VE MOLEKÜLER KLASĠFĠKASYONU Hazırlayan Ahmet DEMĠRCĠOĞLU DanıĢman Prof. Dr. Abdullah ĠNCĠ Yüksek Lisans Tezi Haziran 2014 KAYSERĠ T.C. ERCĠYES ÜNĠVERSĠTESĠ SAĞLIK BĠLĠMLERĠ ENSTĠTÜSÜ VETERĠNER PARAZĠTOLOJĠ ANABĠLĠM DALI ERCĠYES DAĞI AKARSULARINDA SİMULİUM TÜRLERĠNĠN ARAġTIRILMASI VE MOLEKÜLER KLASĠFĠKASYONU Hazırlayan Ahmet DEMĠRCĠOĞLU DanıĢman Prof. Dr. Abdullah ĠNCĠ Yüksek Lisans Tezi Bu çalıĢma Erciyes Üniversitesi Bilimsel AraĢtırma Projeleri Birimi tarafından TYL-2013-4317 nolu proje ile desteklenmiĢtir. Haziran 2014 KAYSERĠ II IV V TEġEKKÜR Tez çalıĢmalarımın her aĢamasında beni cesaretlendiren, bilgi, beceri ve tecrübesinden faydalandığım, eleĢtirileri ve yardımları ile her zaman yol gösterici olan, çalıĢma disiplini, iĢine gösterdiği hassasiyet ile örnek aldığım hocam ve tez danıĢmanım sayın Prof. Dr. Abdullah ĠNCĠ, saha ve laboratuar çalıĢmalarım esnasında her türlü destek ve yardımlarını esirgemeyen Prof. Dr. Alparslan YILDIRIM baĢta olmak üzere diğer öğretim elemanları Yrd. Doç. Dr. Önder DÜZLÜ, Öğr. Gör. Dr. Zuhal ÖNDER ve AraĢ. Gör. Arif ÇĠLOĞLU‟na, laboratuvar çalıĢmalarıma yardımcı olan yüksek lisans öğrencileri Biyolog Zekiye KOÇER, Biyolog Gözde ġAHĠNGÖZ, Vet. Hek. Gamze YETĠġMĠġ‟e ve çalıĢma süresince malzeme bazında TYL-2013-4317 kodlu proje ile destek sağlayan Erciyes Üniversitesi Bilimsel AraĢtırma Projeleri Birimi‟ne teĢekkür ederim. VI ERCĠYES DAĞI AKARSULARINDA SİMULİUM TÜRLERĠNĠN ARAġTIRILMASI VE MOLEKÜLER KLASĠFĠKASYONU Ahmet DEMĠRCĠOĞLU T.C. Erciyes Üniversitesi, Sağlık Bilimleri Enstitüsü Veteriner Parazitoloji Anabilim Dalı Yüksek Lisans Tezi, Haziran 2014 DanıĢman: Prof. Dr. Abdullah ĠNCĠ ÖZET Bu çalıĢma, Erciyes dağı akarsularında simuliid türlerinin moleküler karakterizasyonunun yapılması amacıyla planlanmıĢtır. Bu amaçla Mayıs-Eylül 2013 tarihleri arasında Erciyes dağı akarsularında üç istasyondan toplam 100 adet simuliid larva örneklemesi yapılmıĢtır.
    [Show full text]
  • Mitochondrial Genomes Provide Insights Into the Phylogeny of Culicomorpha (Insecta: Diptera)
    International Journal of Molecular Sciences Article Mitochondrial Genomes Provide Insights into the Phylogeny of Culicomorpha (Insecta: Diptera) Xiao Zhang 1,2,†, Zehui Kang 1,2,†, Shuangmei Ding 2, Yuyu Wang 3 , Chris Borkent 4 , Toyohei Saigusa 5 and Ding Yang 2,* 1 Key Lab of Integrated Crop Pest Management of Shandong Province, College of Plant Health and Medicine, Qingdao Agricultural University, Qingdao 266109, China; [email protected] (X.Z.); [email protected] (Z.K.) 2 Department of Entomology, China Agricultural University, Beijing 100193, China; [email protected] 3 College of Plant Protection, Hebei Agricultural University, Baoding 071001, China; [email protected] 4 California State Collection of Arthropods, California Department of Food and Agriculture, 3294 Meadowview Road, Sacramento, CA 95832, USA; [email protected] 5 Saigusa Institute of Insect Natural History, Clover Heights Ropponmatsu 402, 7-1, Baikoen 2-chome, Fukuoka-shi 810-0035, Japan; [email protected] * Correspondence: [email protected]; Tel.: +86-10-6273-2999 † These authors contributed equally to this work. Received: 26 December 2018; Accepted: 7 February 2019; Published: 11 February 2019 Abstract: Culicomorpha is a monophyletic group containing most bloodsucking lower dipterans, including many important vectors of pathogens. However, the higher-level phylogenetic relationships within Culicomorpha are largely unresolved, with multiple competing hypotheses based on molecular sequence data. Here we sequenced four nearly complete mitochondrial (mt) genomes representing four culicomorph families, and combined these new data with published mt genomes to reconstruct the phylogenetic relationships of all eight extant culicomorph families. We estimated phylogenies using four datasets and three methods. We also used four-cluster likelihood mapping to study potential incongruent topologies supported by the different datasets and phylogenetic questions generated by the previous studies.
    [Show full text]
  • Proceedings of the 4 International Simuliidae Symposium
    4th International Simuliidae Symposium Proceedings of the 4th International Simuliidae Symposium 31st British Simuliid Group Meeting 8 th European Simuliidae Symposium EMCA Blackfly Working Group Edited by Dr. Selim Sualp Caglar MSc.Kahraman İpekdal Organized by Hacettepe University Biodiversity Research and Application Center (HUBIOM) 12‐15 October 2010 Antalya, Turkey 4th International Simuliidae Symposium ISBN: 975‐97294‐0‐9 Published October 2010 Ankara‐Turkey 4th International Simuliidae Symposium 4th International Simuliidae Symposium 31st British Simuliid Group Meeting 8 th European Simuliidae Symposium EMCA Blackfly Working Group SCIENTIFIC COMMITTEE Dr. Peter Adler(USA) Dr. Ladislav Jedlička (Slovakia) Dr. Marija Zgomba (Serbia) Dr. John Davies (UK) Dr. Rory Post (UK) Dr. Doreen Werner (Germany) MSc Aleksandra Ignjatović Ćupina (Serbia) Dr. Rasa Bernotiene (Lithuania) Dr. Dusan Petric (Serbia) Dr. Umit Sirin (Turkey) Dr. Selim Sualp Caglar (Turkey) ORGANIZING COMMITTEE Dr. Selim Sualp Caglar (Hacettepe Univ., Turkey) Dr. Major Dhillon (SOVE, USA) Dr. Norbert Becker (EMCA, Germany) Dr. Asghar Talbalaghi (EMCA, Italy) Dr. Mustafa Akiner (Rize Univ., Turkey) Dr. Ismail Saglam (Hacettepe Univ., Turkey) Dr. Oner Kocak (Hacettepe Univ., Turkey) Aleksandra I. Cupina (Univ. of Novi Sad, Serbia) Kahraman İpekdal (Ahi Evran Univ., Turkey) Cagasan Karacaoglu (Hacettepe Univ., Turkey) Arda Cem Kuyucu (Hacettepe Univ., Turkey) Abdullah Yılmaz (Plant Prot. Res. Ins., Turkey) 4th International Simuliidae Symposium 4th International Simuliidae Symposium ORAL PRESENTATIONS 4th International Simuliidae Symposium The phenology of Simuliidae in Southwest Germany and their control Foroutan Saravi R.1, Ignjatovic‐Cupina A.2, Marinkovic D.2 and Becker N.1,3 1) University of Heidelberg, Faculty for BioSciences, Im Neuenheimer Feld 230, 69120 Heidelberg, Germany 2) University of Novi Sad, Faculty of Agriculture, Novi Sad, Serbia 3) German Mosquito Control Association (KABS), 67165 Waldsee In Germany approximately 50 Simuliidae species are described.
    [Show full text]