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A Solution for Universal Classification of Species Based on Genomic
Hindawi Publishing Corporation International Journal of Plant Genomics Volume 2007, Article ID 27894, 8 pages doi:10.1155/2007/27894 Research Article A Solution for Universal Classification of Species Based on Genomic DNA Mariko Kouduka,1 Daisuke Sato,1 Manabu Komori,1 Motohiro Kikuchi,2 Kiyoshi Miyamoto,3 Akinori Kosaku,3 Mohammed Naimuddin,1, 4 Atsushi Matsuoka,5 and Koichi Nishigaki1, 6 1 Department of Functional Materials Science, Saitama University, Saitama, Japan 2 Chitose Salmon Aquarium Chitose, Youth Educational Foundation, Chitose, Hokkaido, Japan 3 Institute of Medical Science, Dokkyo Medical University, Tochigi, Japan 4 Biol. Res. and Functions, National Inst. AIST, Tsukuba, Ibaraki, Japan 5 Department of Geology, Niigata University, Niigata, Japan 6 Rational Evolutionary Design of Advanced Biomolecules, Saitama Small Enterprise Promotion Corporation, SKIP City, Saitama, Japan Received 22 July 2006; Revised 8 October 2006; Accepted 8 October 2006 Recommended by Cheng-Cang Wu Traditionally, organisms have been classified on the basis of their phenotype. Recently, genotype-based classification has become possible through the development of sequencing technology. However, it is still difficult to apply sequencing approaches to the analysis of a large number of species due to the cost and labor. In most biological fields, the analysis of complex systems compris- ing various species has become an important theme, demanding an effective method for handling a vast number of species. In this paper, we have demonstrated, using plants, fish, and insects, that genome profiling, a compact technology for genome analysis, can classify organisms universally. Surprisingly, in all three of the domains of organisms tested, the phylogenetic trees generated from the phenotype topologically matched completely those generated from the genotype. -
Frontiers in Zoology Biomed Central
Frontiers in Zoology BioMed Central Research Open Access Does the DNA barcoding gap exist? – a case study in blue butterflies (Lepidoptera: Lycaenidae) Martin Wiemers* and Konrad Fiedler Address: Department of Population Ecology, Faculty of Life Sciences, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria Email: Martin Wiemers* - [email protected]; Konrad Fiedler - [email protected] * Corresponding author Published: 7 March 2007 Received: 1 December 2006 Accepted: 7 March 2007 Frontiers in Zoology 2007, 4:8 doi:10.1186/1742-9994-4-8 This article is available from: http://www.frontiersinzoology.com/content/4/1/8 © 2007 Wiemers and Fiedler; 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. Abstract Background: DNA barcoding, i.e. the use of a 648 bp section of the mitochondrial gene cytochrome c oxidase I, has recently been promoted as useful for the rapid identification and discovery of species. Its success is dependent either on the strength of the claim that interspecific variation exceeds intraspecific variation by one order of magnitude, thus establishing a "barcoding gap", or on the reciprocal monophyly of species. Results: We present an analysis of intra- and interspecific variation in the butterfly family Lycaenidae which includes a well-sampled clade (genus Agrodiaetus) with a peculiar characteristic: most of its members are karyologically differentiated from each other which facilitates the recognition of species as reproductively isolated units even in allopatric populations. -
Error-Robust Nature of Genome Profiling Applied for Clustering of Species Demonstrated by Computer Simulation
World Academy of Science, Engineering and Technology International Journal of Bioengineering and Life Sciences Vol:1, No:5, 2007 Error-Robust Nature of Genome Profiling Applied for Clustering of Species Demonstrated by Computer Simulation Shamim Ahmed and Koichi Nishigaki factors [4], and the insufficiency in the number of experts [5]. Abstract—Genome profiling (GP), a genotype based technology, Recently, genotype-based approach has become possible which exploits random PCR and temperature gradient gel owing to the development of sequencing technology. electrophoresis, has been successful in identification/classification of organisms. In this technology, spiddos (Species identification dots) However, it is still difficult to apply sequencing approaches to and PaSS (Pattern similarity score) were employed for measuring the the analysis of a large number of species due to logistic closeness (or distance) between genomes. Based on the closeness reason. In most biological fields, the analysis of complex (PaSS), we can buildup phylogenetic trees of the organisms. We systems comprising various species has been an important noticed that the topology of the tree is rather robust against the experimental fluctuation conveyed by spiddos. This fact was theme, demanding an effective method for handling a vast confirmed quantitatively in this study by computer-simulation, number of species. A realistic solution to these problems has providing the limit of the reliability of this highly powerful been to characterize organisms according to the sequence of methodology. As a result, we could demonstrate the effectiveness of their small subunit ribosomal RNA (16S/18S rRNA), an the GP approach for identification/classification of organisms. approach that has been applied to various organisms, initiated Keywords—Fluctuation, Genome profiling (GP), Pattern by Woese and his collaborators [6]~[8]. -
Colourful Butterfly Wings: Scale Stacks, Iridescence and Sexual Dichromatism of Pieridae Doekele G
158 entomologische berichten 67(5) 2007 Colourful butterfly wings: scale stacks, iridescence and sexual dichromatism of Pieridae Doekele G. Stavenga Hein L. Leertouwer KEY WORDS Coliadinae, Pierinae, scattering, pterins Entomologische Berichten 67 (5): 158-164 The colour of butterflies is determined by the optical properties of their wing scales. The main scale structures, ridges and crossribs, scatter incident light. The scales of pierid butterflies have usually numerous pigmented beads, which absorb light at short wavelengths and enhance light scattering at long wavelengths. Males of many species of the pierid subfamily Coliadinae have ultraviolet-iridescent wings, because the scale ridges are structured into a multilayer reflector. The iridescence is combined with a yellow or orange-brown colouration, causing the common name of the subfamily, the yellows or sulfurs. In the subfamily Pierinae, iridescent wing tips are encountered in the males of most species of the Colotis-group and some species of the tribe Anthocharidini. The wing tips contain pigments absorbing short-wavelength light, resulting in yellow, orange or red colours. Iridescent wings are not found among the Pierini. The different wing colours can be understood from combinations of wavelength-dependent scattering, absorption and iridescence, which are characteristic for the species and sex. Introduction often complex and as yet poorly understood optical phenomena The colour of a butterfly wing depends on the interaction of encountered in lycaenids and papilionids. The Pieridae have light with the material of the wing and its spatial structure. But- two main subfamilies: Coliadinae and Pierinae. Within Pierinae, terfly wings consist of a wing substrate, upon which stacks of the tribes Pierini and Anthocharidini are distinguished, together light-scattering scales are arranged. -
Diversity of Moth Fauna in the West Bengal State University Campus: a Pictorial Catalogue
International Journal of Zoology Studies International Journal of Zoology Studies ISSN: 2455-7269 Impact Factor: RJIF 5.14 www.zoologyjournals.com Volume 3; Issue 1; January 2018; Page No. 35-38 Diversity of moth fauna in the West Bengal state university campus: A pictorial catalogue Dr. Samir Kumar Saha Assistant Professor, Department of Zoology, West Bengal State University, Berunanpukuria, Malikapur, Kolkata, West Bengal, India Abstract An attempt has been taken to study the diversity of Moth fauna in West Bengal State University (WBSU) campus. A total of 30 genera were recorded under ten families from the study area from November 2017 to December, 2017. The family Erebidae with 12 genera followed by family Crambidae with 9 genera, family Noctuidae with 2 genera, rest of the family Arctiidae, Sphingidae, Pterophoridae, Uraniidae, Geometridae, Scythrididae and Stathmopodidae with 1 genus each were recorded inside campus area. As 30 different genera of moth recorded within a short span of time, it can be presumed to have a good diversity of moth species inside campus area. Keywords: moth, diversity, WBSU, West Bengal, India 1. Introduction Moth fauna. WBSU Campus is located in between 88° 25′ E Lepidoptera is one of the large order of insects that include longitudes and 44°46′ N latitude in the state of West Bengal, butterflies and moths and is probably one of the most suitable India (Fig. 1). groups for most quantitative comparisons between insect Photographs and observations were taken during the day light faunas to be valid, for the many reasons elaborated by hours. Individual images of Moths were photo-documented Holloway [1]. -
ABSTRACT ZHA, CHEN. Evaluating the Dynamics of Anti-Fungal Compounds in Lepidoptera Larvae
ABSTRACT ZHA, CHEN. Evaluating the Dynamics of Anti-Fungal Compounds in Lepidoptera Larvae. (Under the direction of Allen Cohen.) Mold control is one of the most vital issues in insect rearing systems. Mold outbreaks can alter the nutritional value of the diet, do harm to the insects, and even threaten the health of people who work in insectaries. Antifungal agents are widely used in insect diets to suppress the growth of mold; however, the potential detrimental effects of antifungal agents on insects are always a concern. When there is a high level of antifungal agents in artificial diets, the growth, development, survivorship and fecundity of insects are often negatively affected. To study the mechanisms underlying those deleterious effects, nutritional indices were determined for two representative lepidopterans, a butterfly and a moth, Vanessa cardui and Heliothis virescens larvae reared on different concentrations of three widely used antifungal agents: methyl paraben, potassium sorbate and sodium propionate. These antifungal agents were administered in concentrations of 1,000, 5,000, and 10,000 parts per million (ppm). The results show that a high level of antifungal agents in the diets of these insects will suppress nutrient absorption and increase metabolic costs. Relative consumption rates and digestibility increased with increasing antifungal agent concentration, possibly to compensate for the declines in absorption and metabolism. Silk production and frass management by Vanessa cardui larvae were reduced in the presence of the highest level of antifungal agents. Evaluating the Dynamics of Anti-Fungal Compounds in Lepidoptera Larvae by Chen Zha A thesis submitted to the Graduate Faculty of North Carolina State University in partial fulfillment of the requirement for the Degree of Master of Science Entomology Raleigh, North Carolina 2013 APPROVED BY: ________________________ ________________________ Allen C. -
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Advances in Biological Sciences Research (ABSR), volume 4 2nd International Conference on Biomedical and Biological Engineering 2017 (BBE 2017) Ultrastructure and Self-cleaning Function of Moth (Notodontidae) and Butterfly (Lycaenidae) Wings Yan FANG, Gang SUN*, Jing-shi YIN, Wan-xing WANG and Yu-qian WANG School of Life Science, Changchun Normal University, Changchun 130032, China *Corresponding author Keywords: Ultrastructure, Self-cleaning, Wettability, Moth, Butterfly, Biomaterial. Abstract. The microstructure, hydrophobicity, adhesion and chemical composition of the butterfly and moth wing surfaces were investigated by a scanning electron microscope (SEM), a contact angle meter, and a Fourier transform infrared spectrometer (FT-IR). Using ground calcium carbonate (heavy CaCO3 ) as contaminating particle, the self-cleaning performance of the wing surface was evaluated. The wing surfaces, composed of naturally hydrophobic material (chitin, protein, fat, etc.), possess complicated hierarchical micro/nano structures. According to the large contact angle (CA, 148.3~156.2° for butterfly, 150.4~154.7° for moth) and small sliding angle (SA, 1~3° for butterfly, 1~4° for moth), the wing surface is of low adhesion and superhydrophobicity. The removal rate of contaminating particle from the wing surface is averagely 88.0% (butterfly wing) and 87.7% (moth wing). There is a good positive correlation ( R 2 =0.8385 for butterfly, 0.8155 for moth) between particle removal rate and roughness index of the wing surface. The coupling effect of material element and structural element contributes to the outstanding superhydrophobicity and self-cleaning performance of the wing surface. The wings of flying insect can be potentially used as templates for biomimetic preparation of biomedical interfacial material with multi-functions. -
Lycaenidae): Phylogeny, Ecology, and Conservation John Mathew Old Dominion University
Old Dominion University ODU Digital Commons Biological Sciences Theses & Dissertations Biological Sciences Summer 2003 Aphytophagy in the Miletinae (Lycaenidae): Phylogeny, Ecology, and Conservation John Mathew Old Dominion University Follow this and additional works at: https://digitalcommons.odu.edu/biology_etds Part of the Ecology and Evolutionary Biology Commons, Entomology Commons, and the Genetics Commons Recommended Citation Mathew, John. "Aphytophagy in the Miletinae (Lycaenidae): Phylogeny, Ecology, and Conservation" (2003). Doctor of Philosophy (PhD), dissertation, Biological Sciences, Old Dominion University, DOI: 10.25777/v7rh-mb21 https://digitalcommons.odu.edu/biology_etds/74 This Dissertation is brought to you for free and open access by the Biological Sciences at ODU Digital Commons. It has been accepted for inclusion in Biological Sciences Theses & Dissertations by an authorized administrator of ODU Digital Commons. For more information, please contact [email protected]. APHYTOPHAGY IN THE MILETINAE (LYCAENIDAE): PHYLOGENY, ECOLOGY, AND CONSERVATION by John Mathew B.Sc. June 1990, Madras Christian College M.Sc. June 1992, Madras Christian College M.Phil. May 1994, Madras University A Dissertation Submitted to the Faculty of Old Dominion University in Partial Fulfillment of the Requirement for the Degree of DOCTOR OF PHILOSOPHY ECOLOGICAL SCIENCES OLD DOMINION UNIVERSITY August 2003 Approved by: Deborah A. Waller (Co-Director) »mi E. Pierce (Co-Director) H. Savitzky (Member) Reproduced with permission of the copyright owner. Further reproduction prohibited without permission. ABSTRACT APHYTOPHAGY IN THE MILETINAE (LYCAENIDAE): PHYTOGENY, ECOLOGY AND CONSERVATION John Mathew Old Dominion University, 2003 Co-Directors of Advisory Committee: Dr. Deborah A. Waller Dr. Naomi E. Pierce Less than 1% of all Lepidoptera are aphytophagous; of these, a considerable proportion is found in the family Lycaenidae. -
REPORT on APPLES – Fruit Pathway and Alert List
EU project number 613678 Strategies to develop effective, innovative and practical approaches to protect major European fruit crops from pests and pathogens Work package 1. Pathways of introduction of fruit pests and pathogens Deliverable 1.3. PART 5 - REPORT on APPLES – Fruit pathway and Alert List Partners involved: EPPO (Grousset F, Petter F, Suffert M) and JKI (Steffen K, Wilstermann A, Schrader G). This document should be cited as ‘Wistermann A, Steffen K, Grousset F, Petter F, Schrader G, Suffert M (2016) DROPSA Deliverable 1.3 Report for Apples – Fruit pathway and Alert List’. An Excel file containing supporting information is available at https://upload.eppo.int/download/107o25ccc1b2c DROPSA is funded by the European Union’s Seventh Framework Programme for research, technological development and demonstration (grant agreement no. 613678). www.dropsaproject.eu [email protected] DROPSA DELIVERABLE REPORT on Apples – Fruit pathway and Alert List 1. Introduction ................................................................................................................................................... 3 1.1 Background on apple .................................................................................................................................... 3 1.2 Data on production and trade of apple fruit ................................................................................................... 3 1.3 Pathway ‘apple fruit’ ..................................................................................................................................... -
Predatory and Parasitic Lepidoptera: Carnivores Living on Plants
Journal of the Lepidopterists' Society 49(4), 1995, 412-453 PREDATORY AND PARASITIC LEPIDOPTERA: CARNIVORES LIVING ON PLANTS NAOMI E. PIERCE Museum of Comparative Zoology, Harvard University, Cambridge, Massachusetts, 02138, USA ABSTRACT. Moths and butterflies whose larvae do not feed on plants represent a decided minority slice of lepidopteran diversity, yet offer insights into the ecology and evolution of feeding habits. This paper summarizes the life histories of the known pred atory and parasitic lepidopteran taxa, focusing in detail on current research in the butterfly family Lycaenidae, a group disproportionately rich in aphytophagous feeders and myr mecophilous habits. More than 99 percent of the 160,000 species of Lepidoptera eat plants (Strong et al. 1984, Common 1990). Plant feeding is generally associated with high rates of evolutionary diversification-while only 9 of the 30 extant orders of insects (Kristensen 1991) feed on plants, these orders contain more than half of the total number of insect species (Ehrlich & Raven 1964, Southwood 1973, Mitter et al. 1988, cf. Labandiera & Sepkoski 1993). Phytophagous species are characterized by specialized diets, with fewer than 10 percent having host ranges of more than three plant families (Bernays 1988, 1989), and butterflies being particularly host plant-specific (e.g., Remington & Pease 1955, Remington 1963, Ehrlich & Raven 1964). This kind of life history specialization and its effects on population structure may have contributed to the diversification of phytophages by promoting population subdivision and isolation (Futuyma & Moreno 1988, Thompson 1994). Many studies have identified selective forces giving rise to differences in niche breadth (Berenbaum 1981, Scriber 1983, Rausher 1983, Denno & McClure 1983, Strong et al. -
Science Journals — AAAS
SCIENCE ADVANCES | RESEARCH ARTICLE EVOLUTIONARY BIOLOGY Copyright © 2019 The Authors, some rights reserved; Unprecedented reorganization of holocentric exclusive licensee American Association chromosomes provides insights into the enigma of for the Advancement of Science. No claim to lepidopteran chromosome evolution original U.S. Government Jason Hill1,2*, Pasi Rastas3, Emily A. Hornett4,5,6, Ramprasad Neethiraj1, Nathan Clark7, Works. Distributed 8 1 9,10 under a Creative Nathan Morehouse , Maria de la Paz Celorio-Mancera , Jofre Carnicer Cols , Commons Attribution 11 7,12 1 1 13,14 Heinrich Dircksen , Camille Meslin , Naomi Keehnen , Peter Pruisscher , Kristin Sikkink , NonCommercial 9,10 15 1 1,16 17 Maria Vives , Heiko Vogel , Christer Wiklund , Alyssa Woronik , Carol L. Boggs , License 4.0 (CC BY-NC). Sören Nylin1, Christopher W. Wheat1* Chromosome evolution presents an enigma in the mega-diverse Lepidoptera. Most species exhibit constrained chromosome evolution with nearly identical haploid chromosome counts and chromosome-level gene collinearity among species more than 140 million years divergent. However, a few species possess radically inflated chromo- somal counts due to extensive fission and fusion events. To address this enigma of constraint in the face of an Downloaded from exceptional ability to change, we investigated an unprecedented reorganization of the standard lepidopteran chromosome structure in the green-veined white butterfly (Pieris napi). We find that gene content in P. napi has been extensively rearranged in large collinear blocks, which until now have been masked by a haploid chromosome number close to the lepidopteran average. We observe that ancient chromosome ends have been maintained and collinear blocks are enriched for functionally related genes suggesting both a mechanism and a possible role for selection in determining the boundaries of these genome-wide rearrangements. -
EBG 23 May 2018 (PDF, 4.2Mb)
Issue 23 May 2018 eNewsletter CONTENTS Welcome! We are now the European Butterflies Group and this is the first newsletter with our new name and logo. Chairman’s Introduction ....... 2 A big thank you as usual to contributors for their excellent articles. Notices and News.................... 3 Please do read the Chairman’s Introduction on the next page and AGM 2018 consider his appeal for volunteers. We badly need extra administra - Butterfly holidays tive support for the group to function effectively. If you think you Survey for Spanish Greenish Black-tip can help, please get in touch with the Chairman. You do NOT need Pointers on recent ‘splits’ to be expert in European butterflies to help run the group. 2019 EBG Calendar Competition News from France A year ago our Anniversary Magazine featured an updated checklist of European butterfly species, based on work by a committee Taxon nevadensis .................. 12 chaired by Rudi Verovnik. The list included 12 new species and I Corsica ................................... 15 have done some brief notes (on pages 4-6 ) which help to explain Charca de Suárez, Motril ......... 23 the changes. Bernard Watts has written a fuller article explaining Book Review............................ 28 the new species Melitaea nevadensis (Southern Heath Fritillary ) Photospot (FE Russia)............... 29 on pages 12-14. I would like to include articles in future newsletters on some of the other new species – for instance on the Erebia cassioides complex (see left). Contributions will Common Brassy Ringlet (Erebia be gratefully received, including sug - cassioides ), which I photographed gestions of accurate English names in the Italian Dolomites. E. cassioides is now considered to comprise three for the new species.