24 Using Inheritance Well
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Codon Usage and Molecular Phylogenetics Studies of Codon Usage and Molecular Phylogenetics Using
CODON USAGE AND MOLECULAR PHYLOGENETICS STUDIES OF CODON USAGE AND MOLECULAR PHYLOGENETICS USING MITOCHONDRIAL GENOMES By WENLI JIA, B.Sc., M.ENG. A Thesis Submitted to the School of Graduate Studies in Partial Fulfilment of the Requirements for the Degree Master of Science McMaster University @Copyright by Wenli Jia, December 2007 MASTER OF SCIENCE (2007) McMaster University (Computational Engineering and Science) Hamilton, Ontario TITLE: Studies of Codon Usage and Molecular Phylogenetics Using Mitochon- drial Genomes AUTHOR: Wenli Jia, B.Sc., M.Eng. SUPERVISOR: Dr. Paul G. Higgs NUMBER OF PAGES: xxiv, 170 ii Abstract Three pieces of work are contained in this thesis. OGRe is a relational database that stores mitochondrial genomes of animals. The database has been operational for approximately five years and the number of genomes in the database has expanded to over 1000 in this period. However, sometimes, new genomes can not be added to the database because of small errors in the source ffies. Several improvements to the update method and the organizational structure of OGRe have been done, which are presented in the first part of this thesis. The second part of this thesis is a study on codon usage in mitochondrial genomes of mammals and fish. Codon usage bias can be caused by mutation and translational selection. In this study, we use some statistical tests and likelihood-based tests to determine which factors are most important in causing codon bias in mitochondrial genomes of mammals and fish. It is found that codon usage patterns seem to be determined principally by complex context-dependent mutational effects. -
Plant-Arthropod Interactions: a Behavioral Approach
Psyche Plant-Arthropod Interactions: A Behavioral Approach Guest Editors: Kleber Del-Claro, Monique Johnson, and Helena Maura Torezan-Silingardi Plant-Arthropod Interactions: A Behavioral Approach Psyche Plant-Arthropod Interactions: A Behavioral Approach Guest Editors: Kleber Del-Claro, Monique Johnson, and Helena Maura Torezan-Silingardi Copyright © 2012 Hindawi Publishing Corporation. All rights reserved. This is a special issue published in “Psyche.” All articles are open access articles distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Editorial Board Toshiharu Akino, Japan Lawrence G. Harshman, USA Lynn M. Riddiford, USA Sandra Allan, USA Abraham Hefetz, Israel S. K. A. Robson, Australia Arthur G. Appel, USA John Heraty, USA C. Rodriguez-Saona, USA Michel Baguette, France Richard James Hopkins, Sweden Gregg Roman, USA Donald Barnard, USA Fuminori Ito, Japan David Roubik, USA Rosa Barrio, Spain DavidG.James,USA Leopoldo M. Rueda, USA David T. Bilton, UK Bjarte H. Jordal, Norway Bertrand Schatz, France Guy Bloch, Israel Russell Jurenka, USA Sonja J. Scheffer, USA Anna-karin Borg-karlson, Sweden Debapratim Kar Chowdhuri, India Rudolf H. Scheffrahn, USA M. D. Breed, USA Jan Klimaszewski, Canada Nicolas Schtickzelle, Belgium Grzegorz Buczkowski, USA Shigeyuki Koshikawa, USA Kent S. Shelby, USA Rita Cervo, Italy Vladimir Kostal, Czech Republic Toru Shimada, Japan In Sik Chung, Republic of Korea Opender Koul, India Dewayne Shoemaker, USA C. Claudianos, Australia Ai-Ping Liang, China Chelsea T. Smartt, USA David Bruce Conn, USA Paul Linser, USA Pradya Somboon, Thailand J. Corley, Argentina Nathan Lo, Australia George J. Stathas, Greece Leonardo Dapporto, Italy Jean N. -
Handbook of Avian Hybrids of the World
Handbook of Avian Hybrids of the World EUGENE M. McCARTHY OXFORD UNIVERSITY PRESS Handbook of Avian Hybrids of the World This page intentionally left blank Handbook of Avian Hybrids of the World EUGENE M. MC CARTHY 3 2006 3 Oxford University Press, Inc., publishes works that further Oxford University’s objective of excellence in research, scholarship, and education. Oxford New York Auckland Cape Town Dar es Salaam Hong Kong Karachi Kuala Lumpur Madrid Melbourne Mexico City Nairobi New Delhi Shanghai Taipei Toronto With offices in Argentina Austria Brazil Chile Czech Republic France Greece Guatemala Hungary Italy Japan Poland Portugual Singapore South Korea Switzerland Thailand Turkey Ukraine Vietnam Copyright © 2006 by Oxford University Press, Inc. Published by Oxford University Press, Inc. 198 Madison Avenue, New York, New York 10016 www.oup.com Oxford is a registered trademark of Oxford University Press All rights reserved. No part of this publication may be reproduced, stored in a retrieval system, or transmitted, in any form or by any means, electronic, mechanical, photocopying, recording, or otherwise, without the prior permission of Oxford University Press. Library of Congress Cataloging-in-Publication Data McCarthy, Eugene M. Handbook of avian hybrids of the world/Eugene M. McCarthy. p. cm. ISBN-13 978-0-19-518323-8 ISBN 0-19-518323-1 1. Birds—Hybridization. 2. Birds—Hybridization—Bibliography. I. Title. QL696.5.M33 2005 598′.01′2—dc22 2005010653 987654321 Printed in the United States of America on acid-free paper For Rebecca, Clara, and Margaret This page intentionally left blank For he who is acquainted with the paths of nature, will more readily observe her deviations; and vice versa, he who has learnt her deviations, will be able more accurately to describe her paths. -
Behavioural Innovation and the Evolution of Cognition in Birds
BEHAVIOURAL INNOVATION AND THE EVOLUTION OF COGNITION IN BIRDS Sarah Elizabeth Overington Department of Biology McGill University, Montreal September 2010 A thesis submitted to McGill University in partial fulfillment of the requirements of the degree of Doctor of Philosophy. © Copyright: Sarah E. Overington, 2010 DEDICATION For my son and my father, who crossed paths for a few short months this year: Kai James, born February 18, and Murray James, died April 10. 2 ACKNOWLEDGEMENTS The insight, creativity and humour of my PhD supervisor, Louis Lefebvre, is behind all of the work in this thesis, and I thank him immensely for his role in shaping me into the researcher I am today. He encouraged me to develop strong hypotheses and predictions, but also to pay attention to the cues of my stubborn experimental subjects in Barbados and to adjust my work to make it feasible. Louis allowed me the freedom to collaborate with researchers at many other institutions, thus satisfying my urge to approach a very broad thesis question using as many relevant techniques as possible. Neeltje Boogert has been my foremost collaborator and a great friend from the start of this degree. My thesis would not exist were it not for her discussions, comments, very thorough editing and laughter throughout the process. She also contributed data to this thesis, from catching birds in Barbados and measuring skulls in museum collections to conducting analyses. She is a great teacher and scientist, and I look forward to our continued collaboration. Julie Morand-Ferron acted as a mentor and friend, guiding me through my PhD and providing great ideas and discussions. -
And the Evolution of Brood Parasitism
SYSTEMATICS OF NEW WORLD CUCKOOS (AVES, CUCULIDAE) AND THE EVOLUTION OF BROOD PARASITISM Janice Maryan Hughes A thesis submitted in confomiity with the requirements for the degree of Doctor of Philosophy Graduate De partment of Zoology , University of Toronto O Copyright by Janice Maryan Hughes 1997 National Library Biblioth6que nationale I*l of Canada du Canada Acquisitions and Acquisitions et Bibliographie Services services bibliographiques 395 Weilingtm Street 395. nie Wellingtm Ottawa ON K1A ON4 CMawaON K1AON4 Canada Canada The author has granted a non- L'auteur a accordé une licence non exclusive licence allowing the exclusive permettant a la National Library of Canada to Bibliothèque nationale du Canada de reproduce, loan, distribute or sell reproduire, prêter, distribuer ou copies of this thesis in microform, vendre des copies de cette thèse sous paper or electronic formats. la fome de microfiche/nlm, de reproduction sur papier ou sur format électronique. The author retains ownership of the L'auteur conserve la propriété du copyright in this thesis. Neither the droit d'auteur qui protège cette thèse. thesis nor substantid extracts fkom it Ni la thèse ni des extraits substantiels may be printed or otherwise de celle-ci ne doivent être imprimés reproduced without the author's ou autrement reproduits sans son permission. autorisation. Canada -- -- ABSTRA CT Systernatics of New World Cuckoos (Aves, Cuculidae) and the Evolution of Brood Parasitism Degree in Doctor of Philosophy, 1997 Janice Maryan Hughes Department of Zoology University of Toronto Monophy ly of the cuckoos (Cuculidae) was demonstrated through the description of 14 osteological synapomorphies. Only three apparent synapomorphies united the otherwise anatomically divergent turacos (Musophagidae), Hoatzin (Opisrhocomus hoazin), and Cuculidae. -
GRPO Wildland Fire Management Plan
National Park Service U.S. Department of Interior Grand Portage National Monument Grand Portage, Minnesota Grand Portage National Monument Final Wildland Fire Management Plan and Environmental Assessment Grand Portage National Monument Final Wildland Fire Management Plan and Environmental Assessment Prepared by Resource Management Division Grand Portage National Monument Grand Marais, MN Midwest Region National Park Service September 2004 Submitted by: s/ L. Suzanne Gucciardo 14 September 2004 Resource Assistant Date Grand Portage National Monument Reviewed by: s/ Dave Soleim Sept. 15, 2004 Border Waters Fire Management Officer Date Voyageurs National Park Concurred by: Fred Bird, Fire Management Officer Date Midwest Regional Office, National Park Service Approved by: s/ Timothy Cochrane Sept. 14, 2004 Superintendent Date Grand Portage National Monument U.S. DEPARTMENT OF THE INTERIOR WILDLAND FIRE MANAGEMENT PLAN NATIONAL PARK SERVICE GRAND PORTAGE NATIONAL MONUMENT (This page is intentionally left blank.) FINAL (GRPO-FMP-2004.DOC) ii SEPTEMBER 2004 U.S. DEPARTMENT OF THE INTERIOR WILDLAND FIRE MANAGEMENT PLAN NATIONAL PARK SERVICE GRAND PORTAGE NATIONAL MONUMENT TABLE OF CONTENTS I. INTRODUCTION ...................................................................................................................... 1 A. REASONS FOR DEVELOPING THIS PLAN ........................................................................................... 1 B. CONTRIBUTIONS TO FMP DEVELOPMENT AND IMPLEMENTATION ........................................................ -
Persistence and Vulnerability of Island Endemic Birds
PERSISTENCE AND VULNERABILITY OF ISLAND ENDEMIC BIRDS Jonathan E M Baillie July 2001 Thesis submitted for the degree of Doctor of Philosophy of the University of London and for the Diploma of Imperial College. Imperial College at Silwood Park Ascot Berkshire SL5 7PY UK And The Institute of Zoology Zoological Society of London Regent's Park, London, NW1 4RY UK 1 LIBRARY HSIJLIBB IMAGING SERVICES NORTH Boston Spa, Wetherby West Yorkshire, LS23 7BQ www.bl.uk THESIS CONTAINS CDs/DVDs Persistence and vulnerability of island endemic birds ABSTRACT This thesis investigates the dynamic relationship between the processes of extinction on islands and the traits of oceanic island endemic birds associated with persistence and vulnerability. This is explored using the comparative method and a data set of all birds endemic to oceanic islands. Two case studies are then presented to examine the resilience of the island endemic birds of Principe and Boné de Joquei in the Gulf of Guinea. When comparing closely related oceanic island and mainland birds, clutch size is lower on islands and, within islands it continues to decline as the distribution area of a species decreases. Small birds (<27 cm in body length) tend to get larger, and there is a trend for sexual size dimorphism to increase on oceanic islands. Recent extinction rates are lower on islands that have been exposed to humans for a long period of time. The birds on such islands are also less threatened by the introduction of exotics. A long period of exposure to humans also reduces the probability that the remaining species are flightless, ground-nesting, or non-forest- restricted endemics. -
Avian Visual Perception: Interocular and Intraocular Transfer and Head
Avian visual perception: Interocular and intraocular transfer and head-bobbing behaviour in birds A Dissertation submitted for the Degree of “Philosphiae doctoris” (PhD) in Neuroscience at the International Graduate School of Neuroscience (IGSN) of the RUHR-UNIVERSITY BOCHUM by Laura Jiménez Ortega October 2005 Printed with permission of the International Graduate School of Neuroscience of the RUHR-UNIVERSITY BOCHUM First Referee: Prof. Dr. Nikolaus F. Troje Second Referee: Prof. Dr. Onur Güntürkün Third Referee: Prof. Dr. L. Huber (Wien) Date of the oral examination: 30-11-2005 Table of contents 1. GENERAL INTRODUCTION....................................................................................1 1.2 Intraocular and interocular transfer in pigeons ............................................................................................... 2 1.2.1 Intraocular transfer of information ......................................................................................................... 3 1.2.2 Interocular transfer of information.......................................................................................................... 5 1.2.3 Interim summary ....................................................................................................................................... 9 1.3 Visual asymmetries in birds.............................................................................................................................. 10 1.3.1 Right eye/left hemisphere dominances.................................................................................................. -
Brood Parasitism and Brain Size in Cuckoos: a Cautionary Tale on the Use of Modern Comparative Methods
International Journal of Comparative Psychology, 2004, 17, 17-33. Copyright 2004 by the International Society for Comparative Psychology Brood Parasitism and Brain Size in Cuckoos: A Cautionary Tale on the Use of Modern Comparative Methods Andrew N. Iwaniuk Monash University, Australia Comparative studies have yielded substantial insight into the functional relationships between the brain and behavior in birds. There are, however, important limitations to this method and problems can arise in the interpretation of the results. I use as an example, a test of whether interspecific brood parasitism is correlated with relatively smaller brains in the cuckoos and allies (Cuculiformes). Both conventional and phylogenetically based comparative statistics were used in conjunction with three alternative phylogenetic trees of the species examined. The comparisons between brood parasitism and relative brain size yielded mixed results, depending upon both the statistical method and the phy- logeny employed. Although this could indicate that the evolution of interspecific brood parasitism is not related to relative brain size, the limitations of the comparative method in conjunction with the mixed results make it impossible to determine this with any certainty. The fact that different phyloge- netic relationships yielded different results highlights the importance of phylogenetic relationships in assessing brain-behavior relationships. The continued use of phylogenetically based comparative methods should therefore be done cautiously, particularly with respect to interpretation of the results as the outcome may be as dependent upon the phylogeny as it is on the data itself. Interspecific correlations of neural and behavioral variation have proven to be a useful means of assessing the function of the nervous system, particularly in birds. -
Avifauna of North-Western Peru Biosphere Reserve and Its Environs
Bird Conservation International (1996) 6:139-165 Avifauna of North-western Peru Biosphere Reserve and its environs A. GAYLON COOK Summary The avifauna of the environs of North-western Peru Biosphere Reserve (NPBR) is herein catalogued. This reserve embraces the largest example of protected Neotropical Pacific xeric forests, a habitat complex much scarcer than rainforests. NPBR is very important conservationally because much of the adjoining dry-forest region of south-western Ecuador has been denuded. Exact locality records and their specific literature sources are furnished for North American migrants and those species which have inhabited the vicinity of NPBR but have not been reported there by the authors of reference books that address avian geography. For each tabulated avian species, the earliest attribution or one of the earliest attributions for a specific record of that taxon in the environs of NPBR is provided. Also, 16 species that are threatened, or are endemic to a short strip of extreme south-western Ecuador and north-western Peru, are noted. La avifauna del entorno de la Reserva de la Biosfera del Nor-Oeste Peruano (RBNO) es registrado aqui. Esta reserva abarca el ejemplo mas grande de bosques secos Neotropicales Pacfficos que estan protegidos. Este complejo unico de habitats es mucho mas escaso que selvas humedas. La RBNO es muy importante de la punta de vista de conservation porque mucha de la region de los bosques secos colindantes en Ecuador sudoeste ha sido talada. Este escrito facilita registros exactos de localidad y sus fuentes bibliograficas especificas tocante a las especies emigrantes norteamericanas y aquellas aves que han habitado en las inmediaciones de la RBNO pero cuya existencia alia no se ha asentado por los autores de libros ornitologicos de consulta que tratan sobre la geograffa avfcola. -
Patterns, Mechanisms and Evolution of Avian Facultative
PATTERNS, MECHANISMS AND EVOLUTION OF AVIAN FACULTATIVE HYPOTHERMIC RESPONSES: A SOUTHERN AFRICAN PERSPECTIVE by ANDREW EDWARD MCKECHNIE Submitted in fulfilment ofthe requirements for the degree of Doctor ofPhilosophy in the School ofBotany and Zoology University ofNatal Pietermaritzburg 2001 11 PREFACE The experimental work described in this thesis was carried out in the School ofBotany and Zoology, University ofNatal, Pietermaritzburg, from January 1999 to June 2001, under the supervision ofProfessor Barry G. Lovegrove. These studies represent original work on my part and have not been submitted in any form for any degree or diploma to any other University. Where use has been made ofthe work of others it is duly acknowledged in the text. Andrew E. McKechnie Pietermaritzburg June 2001 III Abstract Recent evidence suggests that avian facultative hypothermic responses are more common than previously thought. Traditionally, several categories ofavian hypothermic responses have been recognized, and are frequently differentiated on the basis ofminimum body temperature (Tb)' The available data suggest that the capacity for shallow hypothermia (rest-phase hypothermia) occurs throughout the avian phylogeny, but that the capacity for pronounced hypothermia (torpor) is restricted to certain taxa. However, there are currently too few data to test hypotheses concerning the evolution ofavian hypothermic responses. Facultative hypothermia occurs over most ofthe avian body mass (Mb) range, but is most common in small species. Minimum body temperature during hypothermia (TmiJ is continuously distributed from 4.3 °C to ca. 38°C. The continuous Tmin distribution, as well as recent evidence that the Tb ranges ofdifferent avian physiological states may overlap, question the biological reality ofspecific Tb limits. -
Charles University in Prague, Faculty of Science Department of Zoology
Charles University in Prague, Faculty of Science Department of Zoology Ph.D. study program: Zoology Ecology and Ethology Group Mgr. Silvie Lišková Analysis of Factors Affecting Human Preferences and Thus Effort Given to the Conservation of Animal Species Ph.D. Thesis Supervisor: doc. RNDr. Daniel Frynta, Ph.D. Prague, 2013 Prohlášení: Prohlašuji, že jsem se v uvedených publikacích a rukopisech podílela na všech fázích jejich přípravy a můj celkový podíl na rukopisech odpovídá pořadí a počtu spoluautorů. Dále prohlašuji, že jsem uvedla všechny použité informační zdroje a literaturu. Tato práce ani její podstatná část nebyla předložena k získání jiného nebo stejného akademického titulu. V Praze, dne Silvie Lišková 2 Acknowledgements Foremost, I would like to express my sincere gratitude to my supervisor doc. RNDr. Daniel Frynta, Ph.D., for his useful comments, motivation, enthusiasm, and immense knowledge. Without his guidance and persistent help this dissertation would not have been possible. Very special thanks go out to Mgr. Eva Landová, Ph.D., who provided me with encouragement, insightful comments, and assistance with the testing of respondents. Furthermore I would also like to thank all my colleagues for a job well-done, RNDr. Roman Fuchs, CSc., for kindly providing the literature, Corey Stringer from North Carolina, USA, for a linguistic revision of the manuscript, Lišák Vuk for his help with printing of the thesis, and especially all the respondents for their kind participation in this project involving patient ranking of parrots, pittas, and other birds. Last but not least, I would like to thank my parents for their endless support, and my dogs Honey and Hildegarda for their open love, joy, and optimism with which they filled my heart during the years it has taken me to finalize this thesis.