Testing Host-Plant Driven Speciation in Phytophagous Insects
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Insecta: Phasmatodea) and Their Phylogeny
insects Article Three Complete Mitochondrial Genomes of Orestes guangxiensis, Peruphasma schultei, and Phryganistria guangxiensis (Insecta: Phasmatodea) and Their Phylogeny Ke-Ke Xu 1, Qing-Ping Chen 1, Sam Pedro Galilee Ayivi 1 , Jia-Yin Guan 1, Kenneth B. Storey 2, Dan-Na Yu 1,3 and Jia-Yong Zhang 1,3,* 1 College of Chemistry and Life Science, Zhejiang Normal University, Jinhua 321004, China; [email protected] (K.-K.X.); [email protected] (Q.-P.C.); [email protected] (S.P.G.A.); [email protected] (J.-Y.G.); [email protected] (D.-N.Y.) 2 Department of Biology, Carleton University, Ottawa, ON K1S 5B6, Canada; [email protected] 3 Key Lab of Wildlife Biotechnology, Conservation and Utilization of Zhejiang Province, Zhejiang Normal University, Jinhua 321004, China * Correspondence: [email protected] or [email protected] Simple Summary: Twenty-seven complete mitochondrial genomes of Phasmatodea have been published in the NCBI. To shed light on the intra-ordinal and inter-ordinal relationships among Phas- matodea, more mitochondrial genomes of stick insects are used to explore mitogenome structures and clarify the disputes regarding the phylogenetic relationships among Phasmatodea. We sequence and annotate the first acquired complete mitochondrial genome from the family Pseudophasmati- dae (Peruphasma schultei), the first reported mitochondrial genome from the genus Phryganistria Citation: Xu, K.-K.; Chen, Q.-P.; Ayivi, of Phasmatidae (P. guangxiensis), and the complete mitochondrial genome of Orestes guangxiensis S.P.G.; Guan, J.-Y.; Storey, K.B.; Yu, belonging to the family Heteropterygidae. We analyze the gene composition and the structure D.-N.; Zhang, J.-Y. -
De Novo Characterization of the Timema Cristinae Transcriptome Facilitates Marker Discovery and Inference of Genetic Divergence
Molecular Ecology Resources (2012) doi: 10.1111/j.1755-0998.2012.03121.x De novo characterization of the Timema cristinae transcriptome facilitates marker discovery and inference of genetic divergence AARON A. COMEAULT,* MATHEW SOMMERS,* TANJA SCHWANDER,† C. ALEX BUERKLE,‡ TIMOTHY E. FARKAS,* PATRIK NOSIL* and THOMAS L. PARCHMAN‡ *Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO 80303, USA, †Center for Ecology and Evolutionary Studies, University of Groningen, 9700CC Groningen, The Netherlands, ‡Department of Botany, University of Wyoming, Laramie, WY 82071, USA Abstract Adaptation to different ecological environments can promote speciation. Although numerous examples of such ‘ecological speciation’ now exist, the genomic basis of the process, and the role of gene flow in it, remains less understood. This is, at least in part, because systems that are well characterized in terms of their ecology often lack genomic resources. In this study, we characterize the transcriptome of Timema cristinae stick insects, a system that has been researched intensively in terms of ecological speciation, but for which genomic resources have not been previously developed. Specifically, we obtained >1 million 454 sequencing readsthatassembledinto84937contigsrepresenting approximately 18 282 unique genes and tens of thousands of potential molecular markers. Second, as an illustration of their utility, we used these geno- mic resources to assess multilocus genetic divergence within both an ecotype pair and a species pair of Timema stick insects. The results suggest variable levels of genetic divergence and gene flow among taxon pairs and genes and illustrate afirststeptowardsfuturegenomicworkinTimema. Keywords: gene flow, isolation with migration, next-generation sequencing, speciation, transcriptome Received 3 November 2011; revision received 6 January 2012; accepted 13 January 2012 Introduction resources (some notable exceptions aside, such as three- spine stickleback; Peichel et al. -
Phasmida (Stick and Leaf Insects)
● Phasmida (Stick and leaf insects) Class Insecta Order Phasmida Number of families 8 Photo: A leaf insect (Phyllium bioculatum) in Japan. (Photo by ©Ron Austing/Photo Researchers, Inc. Reproduced by permission.) Evolution and systematics Anareolatae. The Timematodea has only one family, the The oldest fossil specimens of Phasmida date to the Tri- Timematidae (1 genus, 21 species). These small stick insects assic period—as long ago as 225 million years. Relatively few are not typical phasmids, having the ability to jump, unlike fossil species have been found, and they include doubtful almost all other species in the order. It is questionable whether records. Occasionally a puzzle to entomologists, the Phasmida they are indeed phasmids, and phylogenetic research is not (whose name derives from a Greek word meaning “appari- conclusive. Studies relating to phylogeny are scarce and lim- tion”) comprise stick and leaf insects, generally accepted as ited in scope. The eggs of each phasmid are distinctive and orthopteroid insects. Other alternatives have been proposed, are important in classification of these insects. however. There are about 3,000 species of phasmids, although in this understudied order this number probably includes about 30% as yet unidentified synonyms (repeated descrip- Physical characteristics tions). Numerous species still await formal description. Stick insects range in length from Timema cristinae at 0.46 in (11.6 mm) to Phobaeticus kirbyi at 12.9 in (328 mm), or 21.5 Extant species usually are divided into eight families, in (546 mm) with legs outstretched. Numerous phasmid “gi- though some researchers cite just two, based on a reluctance ants” easily rank as the world’s longest insects. -
Coupling, Reinforcement, and Speciation Roger Butlin, Carole Smadja
Coupling, Reinforcement, and Speciation Roger Butlin, Carole Smadja To cite this version: Roger Butlin, Carole Smadja. Coupling, Reinforcement, and Speciation. American Naturalist, Uni- versity of Chicago Press, 2018, 191 (2), pp.155-172. 10.1086/695136. hal-01945350 HAL Id: hal-01945350 https://hal.archives-ouvertes.fr/hal-01945350 Submitted on 5 Dec 2018 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Distributed under a Creative Commons Attribution| 4.0 International License vol. 191, no. 2 the american naturalist february 2018 Synthesis Coupling, Reinforcement, and Speciation Roger K. Butlin1,2,* and Carole M. Smadja1,3 1. Stellenbosch Institute for Advanced Study, Wallenberg Research Centre at Stellenbosch University, Stellenbosch 7600, South Africa; 2. Department of Animal and Plant Sciences, The University of Sheffield, Sheffield S10 2TN, United Kingdom; and Department of Marine Sciences, University of Gothenburg, Tjärnö SE-45296 Strömstad, Sweden; 3. Institut des Sciences de l’Evolution, Unité Mixte de Recherche 5554 (Centre National de la Recherche Scientifique–Institut de Recherche pour le Développement–École pratique des hautes études), Université de Montpellier, 34095 Montpellier, France Submitted March 15, 2017; Accepted August 28, 2017; Electronically published December 15, 2017 abstract: During the process of speciation, populations may di- Introduction verge for traits and at their underlying loci that contribute barriers Understanding how reproductive isolation evolves is key fl to gene ow. -
Ecological Epigenetics in Timema Cristinae Stick Insects: on the Patterns, Mechanisms and Ecological Consequences of DNA Methylation in the Wild
Ecological epigenetics in Timema cristinae stick insects: On the patterns, mechanisms and ecological consequences of DNA methylation in the wild Clarissa Ferreira de Carvalho A thesis submitted in partial fulfilment of the requirements for the degree of Doctor of Philosophy The University of Sheffield Faculty of Science Department of Animal and Plant Sciences Submission Date April 2019 I II Abstract Epigenetic factors can contribute to phenotypic diversity and to ecological processes. For instance, DNA methylation can influence gene regulation, and thus phenotypic plasticity. However, little is yet known about how and why methylation varies in the wild. In this dissertation, I build on this knowledge by combining ecological, genetic and DNA methylation data from natural and experimental populations of the stick insect Timema cristinae. This species is an important system to ecological genetics studies, which provides good starting point for the investigation of the patterns, drivers, and the possible ecological consequences of natural methylation variation. I obtained methylation data using whole- genome bisulfite sequencing (BS-seq) and genetic data from restriction site associated DNA sequencing (RAD-seq). From a population survey, I found natural methylation variation in T. cristinae (1) is characteristic of “Hemimetabola” insects; (2) is structured in geographical space; and (3) is strongly correlated to genetic variation. In addition, an experiment simulating a host shift was carried out to test for the direct effects of host plant species on T. cristinae methylation levels. In both the population survey and in the experiment, binomial mixed models were used to perform a methylome scan in search of candidate single methylation polymorphisms (SMPs) associated with host plant use. -
Ecological Speciation in Phytophagous Insects
DOI: 10.1111/j.1570-7458.2009.00916.x MINI REVIEW Ecological speciation in phytophagous insects Kei W. Matsubayashi1, Issei Ohshima2 &PatrikNosil3,4* 1Department of Natural History Sciences, Hokkaido University, Sapporo 060-0810, Japan, 2Department of Evolutionary Biology, National Institute for Basic Biology, Okazaki 444-8585, Japan, 3Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO 80309, USA, and 4Wissenschaftskolleg, Institute for Advanced Study, Berlin, 14193, Germany Accepted: 7 August 2009 Key words: host adaptation, genetics of speciation, natural selection, reproductive isolation, herbivo- rous insects Abstract Divergent natural selection has been shown to promote speciation in a wide range of taxa. For exam- ple, adaptation to different ecological environments, via divergent selection, can result in the evolution of reproductive incompatibility between populations. Phytophagous insects have been at the forefront of these investigations of ‘ecological speciation’ and it is clear that adaptation to differ- ent host plants can promote insect speciation. However, much remains unknown. For example, there is abundant variability in the extent to which divergent selection promotes speciation, the sources of divergent selection, the types of reproductive barriers involved, and the genetic basis of divergent adaptation. We review these factors here. Several findings emerge, including the observation that although numerous different sources of divergent selection and reproductive isolation can be involved in insect speciation, their order of evolution and relative importance are poorly understood. Another finding is that the genetic basis of host preference and performance can involve loci of major effect and opposing dominance, factors which might facilitate speciation in the face of gene flow. In addition, we raise a number of other recent issues relating to phytophagous insect speciation, such as alternatives to ecological speciation, the geography of speciation, and the molecular signatures of spe- ciation. -
10 Walking Sticks: Natural Selection for Cryptic Coloration on Different Host Plants
Case Studies in Ecology and Evolution DRAFT 10 Walking sticks: natural selection for cryptic coloration on different host plants While she was a graduate student at the University of California, Christina Sandoval discovered a new species of insect. Timema christinae is an inconspicuous stick insect that lives in the chaparral of Southern California. It is only about 2 cm long and it feeds mostly at night. During the day it remains still and hides by mimicking the branches and leaves of its host plant. Because they are such good mimics of the host plants they feed on they are called “stick insects” or “walking sticks”. Eggs hatch on ground and young climb into a nearby host plant. Sometimes they never leave that single plant. Despite their inactivity, Sandoval noticed some very interesting differences between the insects. There were two color types. Some of the walking sticks were plain green while the others had a long white stripe on their http://paradisereserve.ucnrs.org/Timem a.html back. Moreover, those two color morphs were associated with two different species of host plant, with one type found on one host plant and the other on the second host. One of the first possibilities she considered was that the two forms were different species. Sandoval brought them back to the lab and found that the two types could interbreed freely, which showed that they were simply color variants of a single species of walking stick. Why, then, were there two colors types? Why were they segregated on different host plant species? She suspected that this was an example of natural selection at work. -
Classification: Phamatodea
NOMINA INSECTA NEARCTICA 637 CLASSIFICATION The primary data comes from unpublished database files of the author. The classification is based on: Bradley, J.D., and B.S. Galil. 1977. The taxonomic arrangement of the Phasmatodea with keys to the subfamilies and tribes. Proceedings of the Entomological Society of Washington, 79:176-208. HETERONEMIIDAE Heteronemiinae: Diapheromera, Manomera, Megaphasma, Pseudosermyle, Sermyle. Pachymorphinae: Parabacillus. PHASMATIDAE Cladomorphinae: Aplopus. TIMEMATIDAE Timema. PSEUDOPHASMATIDAE Pseudophasmatinae: Anisomorpha. Family # Names # Valid Heteronemiidae 29 20 Phasmatidae 1 1 Pseudophasmatidae 5 2 Timematidae 10 10 Total 45 33 PHASMATODEA 638 NOMINA INSECTA NEARCTICA HETERONEMIIDAE Anisomorpha Gray 1835 Anisomorpha buprestoides Stoll 1813 (Phasma) Diapheromera Gray 1835 Phasma vermicularis Stoll 1813 Syn. Spectrum bivittatum Say 1828 Syn. Diapheromera arizonensis Caudell 1903 (Diapheromera) Phasma calamus Burmeister 1838 Syn. Diapheromera carolina Scudder 1901 (Diapheromera) Anisomorpha ferruginea Beauvois 1805 (Phasma) Diapheromera covilleae Rehn and Hebard 1909 (Diapheromera) Diapheromera femoratum Say 1824 (Spectrum) Diapheromera sayi Gray 1835 Syn. Bacunculus laevissimus Brunner 1907 Syn. Diapheromera persimilis Caudell 1904 (Diapheromera) TIMEMATIDAE Bacunculus texanus Brunner 1907 Syn. Diapheromera dolichocephala Brunner 1907 Syn. Diapheromera tamaulipensis Rehn 1909 (Diapheromera) Diapheromera torquata Hebard 1934 (Diapheromera) Timema Scudder 1895 Diapheromera velii Walsh 1864 (Diapheromera) -
Ecological Speciation with Gene Flow in Neodiprion Pinetum and N. Lecontei
University of Kentucky UKnowledge Theses and Dissertations--Biology Biology 2020 FROM GENES TO SPECIES: ECOLOGICAL SPECIATION WITH GENE FLOW IN NEODIPRION PINETUM AND N. LECONTEI Emily E. Bendall University of Kentucky, [email protected] Author ORCID Identifier: https://orcid.org/0000-0003-2524-088X Digital Object Identifier: https://doi.org/10.13023/etd.2020.221 Right click to open a feedback form in a new tab to let us know how this document benefits ou.y Recommended Citation Bendall, Emily E., "FROM GENES TO SPECIES: ECOLOGICAL SPECIATION WITH GENE FLOW IN NEODIPRION PINETUM AND N. LECONTEI" (2020). Theses and Dissertations--Biology. 62. https://uknowledge.uky.edu/biology_etds/62 This Doctoral Dissertation is brought to you for free and open access by the Biology at UKnowledge. It has been accepted for inclusion in Theses and Dissertations--Biology by an authorized administrator of UKnowledge. For more information, please contact [email protected]. STUDENT AGREEMENT: I represent that my thesis or dissertation and abstract are my original work. Proper attribution has been given to all outside sources. I understand that I am solely responsible for obtaining any needed copyright permissions. I have obtained needed written permission statement(s) from the owner(s) of each third-party copyrighted matter to be included in my work, allowing electronic distribution (if such use is not permitted by the fair use doctrine) which will be submitted to UKnowledge as Additional File. I hereby grant to The University of Kentucky and its agents the irrevocable, non-exclusive, and royalty-free license to archive and make accessible my work in whole or in part in all forms of media, now or hereafter known. -
Multilocus Phylogeography of the Flightless Darkling Beetle
Biological Journal of the Linnean Society, 2010, 99, 424–444. With 5 figures Multilocus phylogeography of the flightless darkling beetle Nyctoporis carinata (Coleoptera: Tenebrionidae) in the California Floristic Province: deciphering an evolutionary mosaic MAXI POLIHRONAKIS* and MICHAEL S. CATERINO Department of Invertebrate Zoology, Santa Barbara Museum of Natural History, 2559 Puesta del Sol Road, Santa Barbara, CA 93105, USA Received 16 July 2009; accepted for publication 9 September 2009bij_1360 424..444 The California Floristic Province (CFP) is considered a global biodiversity hotspot because of its confluence of high species diversity across a wide range of threatened habitats. To understand how biodiversity hotspots such as the CFP maintain and generate diversity, we conducted a phylogeographic analysis of the flightless darkling beetle, Nyctoporis carinata, using multiple genetic markers. Analyses of both nuclear and mitochondrial loci revealed an east–west genetic break through the Transverse Ranges and high genetic diversity and isolation of the southern Sierra Nevada Mountains. Overall, the results obtained suggest that this species has a deep evolutionary history whose current distribution resulted from migration out of a glacial refugium in the southern Sierra Nevada via the Transverse Ranges. This finding is discussed in light of similar genetic patterns found in other taxa to develop a foundation for understanding the biodiversity patterns of this dynamic area. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 99, 424–444. ADDITIONAL KEYWORDS: cytochrome oxidase I (COI/CoxI) – guftagu – southern Sierra Nevada. INTRODUCTION will develop a better understanding of how these regions accumulate and maintain diversity (Avise, The California Floristic Province (CFP) is simulta- 2000). -
Extreme Convergence in Egg-Laying Strategy Across Insect Orders
OPEN Extreme convergence in egg-laying SUBJECT AREAS: strategy across insect orders PHYLOGENETICS Julia Goldberg1, Joachim Bresseel2, Jerome Constant2, Bruno Kneubu¨hler3, Fanny Leubner1, Peter Michalik4 EVOLUTIONARY BIOLOGY & Sven Bradler1 Received 1Johann-Friedrich-Blumenbach-Institute of Zoology and Anthropology, Georg-August-University Go¨ttingen, Berliner Str. 28, 37073 14 August 2014 Go¨ttingen, Germany, 2Royal Belgian Institute of Natural Sciences, Vautier Street 29, 1000 Brussels, Belgium, 3Scha¨dru¨tihalde 47c, 6006 Lucerne, Switzerland, 4Zoological Institute and Museum, Ernst-Moritz-Arndt-University, Johann-Sebastian-Bach-Str. 11/12, Accepted 17489 Greifswald, Germany. 12 December 2014 Published The eggs of stick and leaf insects (Phasmatodea) bear strong resemblance to plant seeds and are commonly 16 January 2015 dispersed by females dropping them to the litter. Here we report a novel egg-deposition mode for Phasmatodea performed by an undescribed Vietnamese species of the enigmatic subfamily Korinninae that produces a complex egg case (ootheca), containing numerous eggs in a highly ordered arrangement. This Correspondence and novel egg-deposition mode is most reminiscent of egg cases produced by members of unrelated insect orders, e.g. by praying mantises (Mantodea) and tortoise beetles (Coleoptera: Cassidinae). Ootheca requests for materials production constitutes a striking convergence and major transition in reproductive strategy among stick should be addressed to insects, viz. a shift from dispersal of individual eggs -
Insect Egg Size and Shape Evolve with Ecology but Not Developmental Rate Samuel H
ARTICLE https://doi.org/10.1038/s41586-019-1302-4 Insect egg size and shape evolve with ecology but not developmental rate Samuel H. Church1,4*, Seth Donoughe1,3,4, Bruno A. S. de Medeiros1 & Cassandra G. Extavour1,2* Over the course of evolution, organism size has diversified markedly. Changes in size are thought to have occurred because of developmental, morphological and/or ecological pressures. To perform phylogenetic tests of the potential effects of these pressures, here we generated a dataset of more than ten thousand descriptions of insect eggs, and combined these with genetic and life-history datasets. We show that, across eight orders of magnitude of variation in egg volume, the relationship between size and shape itself evolves, such that previously predicted global patterns of scaling do not adequately explain the diversity in egg shapes. We show that egg size is not correlated with developmental rate and that, for many insects, egg size is not correlated with adult body size. Instead, we find that the evolution of parasitoidism and aquatic oviposition help to explain the diversification in the size and shape of insect eggs. Our study suggests that where eggs are laid, rather than universal allometric constants, underlies the evolution of insect egg size and shape. Size is a fundamental factor in many biological processes. The size of an 526 families and every currently described extant hexapod order24 organism may affect interactions both with other organisms and with (Fig. 1a and Supplementary Fig. 1). We combined this dataset with the environment1,2, it scales with features of morphology and physi- backbone hexapod phylogenies25,26 that we enriched to include taxa ology3, and larger animals often have higher fitness4.