The Case of Periodical Insects As Natural Prime Numbers Generators
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Supporting Information
Supporting Information Campbell et al. 10.1073/pnas.1421386112 SI Materials and Methods transformed into Escherichia coli JM109 High Efficiency Com- Genome Sequencing. The following amount of data were generated petent Cells. Transformed cells were grown in 3 mL of LB broth at for each sequencing technology: 136,081,956 pairs of 100 × 2 37 °C overnight, and plasmids were purified with E.Z.N.A. plas- short insert Illumina HiSeq reads for about 27 Gb total; 50,884,070 mid DNA mini kit I. The purified plasmids were used as PCR pairs of 100 × 2 large insert HiSeq reads for about 10 Gb total; templates to for further amplification of the probe region. The and 259,593 reads averaging 1600 nt for about 421 Mb total of amplified probes were subject to nick translation (>175 ng/μL PacBio data. DNA, 1× nick-translation buffer, 0.25 mM unlabeled dNTPs, 50 μM labeled dNTPs, 2.3 U/μL DNA polymerase I, 9 mU/μL Genome Annotation. Annotation of Hodgkinia DNA was done Dnase), using either Cy3 (MAGTRE006 and MAGTRE005), or using the phmmer module of HMMER v3.1b1 (1). All ORFs Cy5 (MAGTRE001 and MAGTRE012), and size selected for beginning with a start codon that overlapped a phmmer hit sizes in the range of 100–500 bp using Ampure XP beads. Probes were searched against a database of all Hodgkinia genes using with at least seven incorporated labeled dNTPs per 1,000 nucle- BLASTX 2.2.28+. MAGTRE Hodgkinia genes were considered otides as determined by spectroscopy were used for hybridization. -
Integrative Approach Unravels the Evolutionary History of Western Mediterranean Small Cicadas (Hemiptera: Cicadettini)
UNIVERSIDADE DE LISBOA FACULDADE DE CIÊNCIAS DEPARTAMENTO DE BIOLOGIA ANIMAL Integrative approach unravels the evolutionary history of Western Mediterranean small cicadas (Hemiptera: Cicadettini) Gonçalo João Barreto da Costa Mestrado em Biologia Evolutiva e Desenvolvimento Dissertação orientada por: Prof. Doutor Octávio Paulo Profª. Doutora Paula Simões 2017 "In the end we will conserve only what we love, we will love only what we understand, and we will understand only what we are taught." Baba Dioum Agradecimentos Antes de mais quero agradecer aos meus orientadores, Octávio Paulo e Paula Simões, por me terem apoiado durante este extenso (!) período de orientação. À Prof. Paula por me ter confiado as suas belas cigarras de Marrocos, e ter-me dado a oportunidade única de olhar com olhos de ver a sua colecção bem completa de cigarras mesmo interessantes! E falando em olhos... Por me ter emprestado os seus na descrição das cores das cigarras... Sem a Professora as cigarras ficavam-se por castanhas e pronto! A sua dedicação, boa disposição e acessibilidade quase ubíqua às minhas perguntas permitiu-me avançar sempre com o trabalho e com a escrita. O Prof. Octávio, chefe do grupo, já é conhecido pela genialidade quem tem em analisar os dados e ver para lá do que nos parece óbvio! Comprovei que é bem verdade quando trouxe dados preliminares do BEAST e o Professor para além de ver aquilo que era óbvio conseguiu ver para além lá daquela primeira camada e adicionar muito mais informação que aquela que conseguiria observar. Ainda que o Professor estivesse sempre 125% do tempo ocupado sempre conseguia arranjar um tempo para discutir novos métodos, novas abordagens aos meus datasets, novos artigos e resultados. -
And 17-Y Life Cycles Among Three Periodical Cicada Lineages
Independent divergence of 13- and 17-y life cycles SEE COMMENTARY among three periodical cicada lineages Teiji Sotaa,1, Satoshi Yamamotob, John R. Cooleyc, Kathy B. R. Hillc, Chris Simonc, and Jin Yoshimurad,e,f aDepartment of Zoology, Graduate School of Science, Kyoto University, Sakyo, Kyoto 606-8502, Japan; bGraduate School of Global Environmental Studies, Kyoto University, Sakyo, Kyoto 606-8501, Japan; cDepartment of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06268-3043; dDepartment of Systems Engineering, Shizuoka University, Hamamatsu 432-8561, Japan; eMarine Biosystems Research Center, Chiba University, Kamogawa 299-5502, Chiba, Japan; and fDepartment of Environmental and Forest Biology, State University of New York College of Environmental Science and Forestry, Syracuse, NY 13210 Edited by Mary Jane West-Eberhard, Smithsonian Tropical Research Institute, Ciudad Universitaria, Costa Rica, and approved February 22, 2013 (received for review November 16, 2012) The evolution of 13- and 17-y periodical cicadas (Magicicada)is group (6, 14–18), and only rough divergence times among species enigmatic because at any given location, up to three distinct spe- have been inferred (8, 10). Thus, a comprehensive molecular cies groups (Decim, Cassini, Decula) with synchronized life cycles phylogeny covering all of the extant broods, their phylogeography, are involved. Each species group is divided into one 13- and one and divergence time has been lacking until now. 17-y species with the exception of the Decim group, which con- We conducted molecular phylogenetic and population genetic tains two 13-y species—13-y species are Magicicada tredecim, analyses by using nuclear and mitochondrial DNA markers for Magicicada neotredecim, Magicicada tredecassini, and Magicicada samples collected over a 30-y period (1978–2008). -
Evolution of Cicadomorpha (Insecta, Hemiptera) 155-170 © Biologiezentrum Linz/Austria; Download Unter
ZOBODAT - www.zobodat.at Zoologisch-Botanische Datenbank/Zoological-Botanical Database Digitale Literatur/Digital Literature Zeitschrift/Journal: Denisia Jahr/Year: 2002 Band/Volume: 0004 Autor(en)/Author(s): Dietrich Christian O., Dietrich Christian O. Artikel/Article: Evolution of Cicadomorpha (Insecta, Hemiptera) 155-170 © Biologiezentrum Linz/Austria; download unter www.biologiezentrum.at Evolution of Cicadomorpha (Insecta, Hemiptera) C.H. DIETRICH Abstract Cicadomorpha (Cicadoidea, Cerco- and tribe. The origins of some family- poidea and Membracoidea) are one of the group taxa may also have coincided with dominant groups of plant-feeding insects, shifts in feeding or courtship strategies, or as evidenced by their extraordinary diver- the colonization of novel habitats (e.g., sity and ubiquity in habitats ranging from grasslands, deserts). The origins of genera tropical rainforest to tundra. Improve- and species, in many cases, can be attribu- ments on our knowledge of the phylogeny ted to shifts in habitat and host plant asso- of these insects, based on cladistic analysis ciation, as well as smaller scale biogeogra- of morphological and molecular data and phic vicariance. Many aspects of cicado- study of the fossil record, provide the morphan evolution remain poorly under- opportunity to examine the possible fac- stood. These include phenomena such as tors that led to their diversification. Fac- the coexistence of many closely related tors influencing early divergences among species on the same host plant and the major lineages apparently included shifts diversity of bizarre pronotal modifications in life history strategies, including a tran- found among Membracidae. Such questi- sition from subterranean or cryptic to ons are best addressed by further ecologi- arboreal nymphal stage, shifts in feeding cal and behavioral study, as well as phylo- strategy (xylem to phloem or parenchy- genetic analysis. -
Behavior and Evolution of Periodical Cicadas (Magicicada Spp.)
Behavior and evolution of periodical cicadas (Magicicada spp.) by David Crane Marshall A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy (Biology) The University of Michigan 2000 Copyright David C. Marshall Doctoral Committee: Professor Richard D. Alexander, Chair Professor George Estabrook Professor Gerald Smith Professor Priscilla Tucker ACKNOWLEDGMENTS Many individuals and organizations contributed generously to this research. The Frank Ammermann Endowment of the Insect Division of the University of Michigan Museum of Zoology provided essential financial assistance throughout the study. The Museum of Zoology supported portions of this research with grants from the Hinsdale- Walker and Tinkle Memorial Endowments. Early financial assistance was provided by the Horace H. Rackham School of Graduate Studies. Japan Television Workshop, Ltd., paid field expenses in 1998. It is difficult to predict where conditions appropriate for field studies of Magicicada behavior will exist in any given year, and many state and local government organizations were extremely tolerant of our last-minute arrival each Spring and willing to permit us access to government lands. Several private landholders allow prolonged access to their property without thought of compensation; we are strongly indebted to them for this assistance. I hope that future researchers will pay the utmost respect to the property rights of these individuals and organizations should future work at these locations be desired: Alum Springs Young Life Camp, Rockbridge Co., VA Washington and Lee University, Rockbridge Co., VA Horsepen Lake State Wildlife Management Area, Buckingham Co., VA Siloam Springs State Park, Brown and Adams Counties, IL Harold E. Alexander Wildlife Management Area, Sharp Co., AR M. -
Cooley, J. R. 1999. Sexual Behavior in North American Cicadas of The
Sexual behavior in North American cicadas of the genera Magicicada and Okanagana by John Richard Cooley A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy (Biology) The University of Michigan 1999 Doctoral Committee: Professor Richard D. Alexander, Chairman Professor George Estabrook Professor Brian Hazlett Associate Professor Warren Holmes John R. Cooley © 1999 All Rights Reserved To my wife and family ii ACKNOWLEDGMENTS This work was supported in part by the Horace H. Rackham School of Graduate Studies, the Department of Biology, the Museum of Zoology (UMMZ), the Frank W. Ammerman Fund of the UMMZ Insect Division, and by Japan Television Workshop Co., LTD. I thank the owners and managers of our field sites for their patience and understanding: Alum Springs Young Life Camp, Rockbridge County, VA. Horsepen Lake State Wildlife Management Area, Buckingham County, VA. Siloam Springs State Park, Brown and Adams Counties, IL. Harold E. Alexander Wildlife Management Area, Sharp County, AR. M. Downs, Jr., Sharp County, AR. Richard D. Alexander, Washtenaw County, MI. The University of Michigan Biological Station, Cheboygan and Emmet Counties, MI. John Zyla of the Battle Creek Cypress Swamp Nature Center, Calvert County, MD provided tape recordings and detailed distributions of Magicicada in Maryland. Don Herren, Gene Kruse, and Bill McClain of the Illinois Department of Natural Resources, and Barry McArdle of the Arkansas State Game and Fish Commission helped obtain permission to work on state lands. Keiko Mori and Mitsuhito Saito provided funding and high quality photography for portions of the 1998 field season. Laura Krueger performed the measurements in Chapter 7. -
Independent Divergence of 13- and 17-Y Life Cycles Among Three Periodical Cicada Lineages
Independent divergence of 13- and 17-y life cycles among three periodical cicada lineages Teiji Sotaa,1, Satoshi Yamamotob, John R. Cooleyc, Kathy B. R. Hillc, Chris Simonc, and Jin Yoshimurad,e,f aDepartment of Zoology, Graduate School of Science, Kyoto University, Sakyo, Kyoto 606-8502, Japan; bGraduate School of Global Environmental Studies, Kyoto University, Sakyo, Kyoto 606-8501, Japan; cDepartment of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06268-3043; dDepartment of Systems Engineering, Shizuoka University, Hamamatsu 432-8561, Japan; eMarine Biosystems Research Center, Chiba University, Kamogawa 299-5502, Chiba, Japan; and fDepartment of Environmental and Forest Biology, State University of New York College of Environmental Science and Forestry, Syracuse, NY 13210 Edited by Mary Jane West-Eberhard, Smithsonian Tropical Research Institute, Ciudad Universitaria, Costa Rica, and approved February 22, 2013 (received for review November 16, 2012) The evolution of 13- and 17-y periodical cicadas (Magicicada)is group (6, 14–18), and only rough divergence times among species enigmatic because at any given location, up to three distinct spe- have been inferred (8, 10). Thus, a comprehensive molecular cies groups (Decim, Cassini, Decula) with synchronized life cycles phylogeny covering all of the extant broods, their phylogeography, are involved. Each species group is divided into one 13- and one and divergence time has been lacking until now. 17-y species with the exception of the Decim group, which con- We conducted molecular phylogenetic and population genetic tains two 13-y species—13-y species are Magicicada tredecim, analyses by using nuclear and mitochondrial DNA markers for Magicicada neotredecim, Magicicada tredecassini, and Magicicada samples collected over a 30-y period (1978–2008). -
Characterization of the Complete Mitochondrial Genomes Of
www.nature.com/scientificreports OPEN Characterization of the complete mitochondrial genomes of Maiestas dorsalis and Japananus Received: 23 May 2017 Accepted: 17 October 2017 hyalinus (Hemiptera: Cicadellidae) Published: xx xx xxxx and comparison with other Membracoidea Yimin Du1, Chunni Zhang1, Christopher H. Dietrich2, Yalin Zhang1 & Wu Dai1 Only six mitochondrial genomes (mitogenomes) have been previously published for Cicadellidae, the largest family of Hemiptera. This study provides complete, annotated mitogenomes of two additional cicadellid, species Maiestas dorsalis and Japananus hyalinus, and the frst comparative mitogenome analysis across the superfamily Membracoidea. The mitogenomes of both sequenced species are similar to those of other studied hemipteran mitogenomes in organization and the lengths are 15,352 and 15,364 bp with an A + T content of 78.7% and 76.6%, respectively. In M. dorsalis, all sequenced genes are arranged in the putative ancestral insect gene arrangement, while the tRNA cluster trnW-trnC-trnY is rearranged to trnY-trnW-trnC in J. hyalinus, the frst reported gene rearrangement in Membracoidea. Phylogenetic analyses of the 11 available membracoid mitogenomes and outgroups representing the other two cicadomorphan superfamilies supported the monophyly of Membracoidea, and indicated that treehoppers are a derived lineage of leafoppers. ML and BI analyses yielded topologies that were congruent except for relationships among included representatives of subfamily Deltocephalinae. Exclusion of third codon positions -
I Principali Insetti Fitofagi Del Castagno a Rischio Di Introduzione in Italia
Giuseppino Sabbatini Peverieri - Pio Federico Roversi I principali insetti fitofagi castagnodel a rischio di introduzione in Italia rogetto «Bioinfocast» MiPAAF DD n. 4496 del 27/11/2012 P Giuseppino Sabbatini Peverieri - Pio Federico Roversi I principali insetti fitofagi castagnodel a rischio di introduzione in Italia Progetto «Bioinfocast» MiPAAF DD n. 4496 del 27/11/2012 Consiglio per la Ricerca e la sperimentazione in Agricoltura (CRA) ESCLUSIONE DI RESPONSABIILITÀ Lo scopo del presente documento è quello di fornire una panoramica sulle specie di insetti fitofagi delle piante del genere Castanea a livello mondiale, ma non è da consi- derarsi un lavoro omnicomprensivo. La presente pubblicazione può fornire importanti informazioni, ma gli autori non garantiscono che il contenuto sia privo di errori di alcun genere e non garantiscono la veridicità delle informazioni riportate in quanto ottenute attingendo dalla bibliografia disponibile sull’argomento in ambito internazionale. Le immagini riportate nel presente documento possono essere soggette a copyright o a limitazioni specifiche al loro uso. Gli autori declinano ogni responsabilità per eventua- li errori, perdite o altra conseguenza che possono derivare dall’uso delle informazioni del presente documento. Le denominazioni utilizzate e la presentazione del materiale in questa pubblicazione non implicano l'espressione di alcuna opinione da parte degli auto- ri relativa allo status giuridico di alcun paese, territorio, città o area o delle sue autorità o alla delimitazione delle loro frontiere o confini. GIUSEPPINO SABBATINI PEVERIERI, PIO FEDERICO ROVERSI CRA-ABP, Consiglio per la Ricerca e la sperimentazione in Agricoltura, Centro di Ricerca per l’Agrobiologia e la Pedologia, via di Lanciola 12a, 50125 Firenze e-mail: [email protected] [email protected] Citazione: Sabbatini Peverieri G., Roversi P.F., 2014. -
Hemiptera: Cicadidae) of North America, North of Mexico
Diversity 2013, 5, 166-239; doi:10.3390/d5020166 OPEN ACCESS diversity ISSN 1424-2818 www.mdpi.com/journal/diversity Article Biogeography of the Cicadas (Hemiptera: Cicadidae) of North America, North of Mexico Allen F. Sanborn 1,* and Polly K. Phillips 2 1 Department of Biology, Barry University, 11300 NE Second Avenue, Miami Shores, FL 33161-6695, USA 2 17446 SW 33rd Ct, Miramar, FL 33029, USA; E-Mail: [email protected] * Author to whom correspondence should be addressed; E-Mail: [email protected]; Tel.: +1-305-899-3219; Fax: +1-305-899-3225. Received: 28 January 2013; in revised form: 2 March 2013 / Accepted: 22 March 2013 / Published: 9 April 2013 Abstract: We describe and illustrate the biogeography of the cicadas inhabiting continental North America, north of Mexico. Species distributions were determined through our collecting efforts as well as label data from more than 110 institutional collections. The status of subspecies is discussed with respect to their distributions. As we have shown over limited geographic areas, the distribution of individual species is related to the habitat in which they are found. We discuss the biogeography of the genera with respect to their phylogenetic relationships. California is the state with the greatest alpha diversity (89 species, 46.6% of taxa) and unique species (35 species, 18.3% of taxa). Texas, Arizona, Colorado and Utah are the states with the next greatest alpha diversity with Texas, Arizona and Utah being next for unique species diversity. Maine, New Hampshire and Rhode Island are the states with the least amount of cicada diversity. -
One Hundred Mitochondrial Genomes of Cicadas
Journal of Heredity, 2019, 247–256 doi:10.1093/jhered/esy068 Brief Communication Advance Access publication December 22, 2018 Brief Communication One Hundred Mitochondrial Genomes of Cicadas Downloaded from https://academic.oup.com/jhered/article-abstract/110/2/247/5257979 by guest on 25 April 2019 Piotr Łukasik , Rebecca A. Chong, Katherine Nazario, Yu Matsuura, DeAnna C. Bublitz, Matthew A. Campbell, Mariah C. Meyer, James T. Van Leuven, Pablo Pessacq, Claudio Veloso, Chris Simon, and John P. McCutcheon From the Division of Biological Sciences, University of Montana, Missoula, MT (Łukasik, Bublitz, Campbell, Meyer, Van Leuven, and McCutcheon); the Department of Biology, University of Hawai’i at Mānoa, Honolulu, HI (Chong); the Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT (Nazario and Simon); the Tropical Biosphere Research Center, University of the Ryukyus, Japan (Matsuura); the Centro de Investigaciones Esquel de Montaña y Estepa Patagónicas (CIEMEP), Esquel, Chubut, Argentina (Pessacq); and the Department of Ecological Sciences, Science Faculty, University of Chile, Santiago, Chile (Veloso). Address correspondence to P. Łukasik at the address above, or e-mail: [email protected]. Received June 23, 2018; First decision July 20, 2018; Accepted December 21, 2018. Corresponding Editor: Warren Booth Abstract Mitochondrial genomes can provide valuable information on the biology and evolutionary histories of their host organisms. Here, we present and characterize the complete coding regions of 107 mitochondrial genomes (mitogenomes) of cicadas (Insecta: Hemiptera: Auchenorrhyncha: Cicadoidea), representing 31 genera, 61 species, and 83 populations. We show that all cicada mitogenomes retain the organization and gene contents thought to be ancestral in insects, with some variability among cicada clades in the length of a region between the genes nad2 and cox1, which encodes 3 tRNAs. -
One Hundred Mitochondrial Genomes of Cicadas Piotr Łukasik , Rebecca A
Journal of Heredity, 2019, 247–256 doi:10.1093/jhered/esy068 Brief Communication Advance Access publication December 22, 2018 Downloaded from https://academic.oup.com/jhered/article-abstract/110/2/247/5257979 by University of Montana - Mansfield Library user on 03 April 2019 Brief Communication One Hundred Mitochondrial Genomes of Cicadas Piotr Łukasik , Rebecca A. Chong, Katherine Nazario, Yu Matsuura, DeAnna C. Bublitz, Matthew A. Campbell, Mariah C. Meyer, James T. Van Leuven, Pablo Pessacq, Claudio Veloso, Chris Simon, and John P. McCutcheon From the Division of Biological Sciences, University of Montana, Missoula, MT (Łukasik, Bublitz, Campbell, Meyer, Van Leuven, and McCutcheon); the Department of Biology, University of Hawai’i at Mānoa, Honolulu, HI (Chong); the Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT (Nazario and Simon); the Tropical Biosphere Research Center, University of the Ryukyus, Japan (Matsuura); the Centro de Investigaciones Esquel de Montaña y Estepa Patagónicas (CIEMEP), Esquel, Chubut, Argentina (Pessacq); and the Department of Ecological Sciences, Science Faculty, University of Chile, Santiago, Chile (Veloso). Address correspondence to P. Łukasik at the address above, or e-mail: [email protected]. Received June 23, 2018; First decision July 20, 2018; Accepted December 21, 2018. Corresponding Editor: Warren Booth Abstract Mitochondrial genomes can provide valuable information on the biology and evolutionary histories of their host organisms. Here, we present and characterize the complete coding regions of 107 mitochondrial genomes (mitogenomes) of cicadas (Insecta: Hemiptera: Auchenorrhyncha: Cicadoidea), representing 31 genera, 61 species, and 83 populations. We show that all cicada mitogenomes retain the organization and gene contents thought to be ancestral in insects, with some variability among cicada clades in the length of a region between the genes nad2 and cox1, which encodes 3 tRNAs.