Early Paleocene Landbird Supports Rapid Phylogenetic And
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Bakalářská Práce
Univerzita Palackého v Olomouci Bakalářská práce Olomouc 2018 Monika Klaclová Univerzita Palackého v Olomouci Přírodovědecká fakulta Katedra botaniky Cross-species amplifikace mikrosatelitů z řádu tučňáci a konzervovaných ptačích mikrosatelitů u plameňáka růžového (Phoenicopterus roseus) Bakalářská práce Monika Klaclová Studijní program: Matematika Studijní obor: Matematika-Biologie Forma studia: Prezenční Olomouc 2018 Vedoucí práce: RNDr. Petr Nádvorník, Ph.D. Prohlašuji, že jsem tuto bakalářskou práci vypracovala samostatně pod vedením RNDr. Petra Nádvorníka, Ph.D. za použití uvedených literárních zdrojů. V Olomouci dne 27. 07. 2018 podpis: ............................ Monika Klaclová ii Srdečně děkuji vedoucímu bakalářské práce RNDr. Petru Nádvorníkovi, Ph.D. za věnovaný čas a odborné rady, které mi poskytl při zpracování této bakalářské práce. Dále děkuji kolektivu Laboratoře populační genetiky na Katedře buněčné biologie a genetiky Přírodovědecké fakulty Univerzity Palackého v Olomouci za zpříjemnění pracovního prostředí. iii Bibliografická identifikace Jméno a příjmení: Monika Klaclová Název práce: Cross-species amplifikace mikrosatelitů z řádu tučňáci a konzervovaných ptačích mikrosatelitů u plameňáka růžového (Phoenicopterus roseus) Typ práce: Bakalářská práce Pracoviště: Katedra buněčné biologie a genetiky, Přírodovědecká fakulta Univerzity Palackého v Olomouci Vedoucí práce: RNDr. Petr Nádvorník, Ph.D. Rok obhajoby: 2018 Abstrakt V této bakalářské práci jsem se zabývala hledáním polymorfních mikrosatelitů u plameňáka růžového -
Beyond Endocasts: Using Predicted Brain-Structure Volumes of Extinct Birds to Assess Neuroanatomical and Behavioral Inferences
diversity Article Beyond Endocasts: Using Predicted Brain-Structure Volumes of Extinct Birds to Assess Neuroanatomical and Behavioral Inferences 1, , 2 2 Catherine M. Early * y , Ryan C. Ridgely and Lawrence M. Witmer 1 Department of Biological Sciences, Ohio University, Athens, OH 45701, USA 2 Department of Biomedical Sciences, Heritage College of Osteopathic Medicine, Ohio University, Athens, OH 45701, USA; [email protected] (R.C.R.); [email protected] (L.M.W.) * Correspondence: [email protected] Current Address: Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA. y Received: 1 November 2019; Accepted: 30 December 2019; Published: 17 January 2020 Abstract: The shape of the brain influences skull morphology in birds, and both traits are driven by phylogenetic and functional constraints. Studies on avian cranial and neuroanatomical evolution are strengthened by data on extinct birds, but complete, 3D-preserved vertebrate brains are not known from the fossil record, so brain endocasts often serve as proxies. Recent work on extant birds shows that the Wulst and optic lobe faithfully represent the size of their underlying brain structures, both of which are involved in avian visual pathways. The endocasts of seven extinct birds were generated from microCT scans of their skulls to add to an existing sample of endocasts of extant birds, and the surface areas of their Wulsts and optic lobes were measured. A phylogenetic prediction method based on Bayesian inference was used to calculate the volumes of the brain structures of these extinct birds based on the surface areas of their overlying endocast structures. This analysis resulted in hyperpallium volumes of five of these extinct birds and optic tectum volumes of all seven extinct birds. -
PTAČÍ FYLOGENEZE Dovnitř Patří Šplhavci
E Afroaves – řada linií této skupiny je velmi rozrůzněna v Africe a pro Afriku stepokur kropenatý typická (vlhy, zoborožci, mandelíci), ale fosilie africký původ nepodporují. Mnoho (Pterocles burchelli) linií bylo řazeno do řádu srostloprstých, ale ten není monofyletický, poněvadž PTAČÍ FYLOGENEZE dovnitř patří šplhavci. Patří sem i myšáci (Coliiformes) a trogoni. F Australaves – obdobně jako u Afroaves dnes sice řada linií žije jen FYLOGENEZE NA HRUBÉ ÚROVNI A PTAČÍ ŘÁDY v australasijské oblasti, ale fosilní zástupci byli nalezeni všude možně, takže o původu skupiny těžko něco soudit. Zobrazený fylogenetický stromeček zahrnuje jen velké skupiny, přičemž co je „velká“ skupina, je docela arbitrární. Aby vůbec bylo možné dělat O Passerimorphae (nebo Psittacopasserae) – papoušci korektní fylogenetické analýzy, nesmí být těch skupin moc a zároveň je potřeba, aby to byly skupiny, o nichž se předpokládá, že jsou a pěvci sdílejí řadu znaků, například schopnost učit se zpěvu, která byla monofyletické. Reálně se totiž sekvenují samozřejmě jednotliví zástupci (tedy jeden druh, respektive přímo jeden jedinec z dané skupiny), považovaná za klíčovou pro jejich sloučení (pokládala se za znak vzniklý jen a potřebujeme tedy, aby skutečně skupinu reprezentovali. Proto by nestačilo brát zástupce tradičních ptačích řádů, které známe z učebnic, jednou u jejich společného předka, tedy synapomorfii). Ovšem vzhledem k tomu, jelikož se ukázalo, že řada z nich monofyletických není. Tradiční „dravci“ byli například polyfyletičtí, poněvadž zahrnovali monofyletickou že u pěvců je s jistotou známa jen ve skupině Oscines (zpěvní) a navíc se vyskytuje skupinu složenou z orlů, jestřábů, káňat apod. (včetně kondorů), ale taky sokolovité (poštolky, sokoly apod.), kteří jsou ve skutečnosti blízce také u zcela nezávislých kolibříků, musela vzniknout víckrát konvergentně, a to příbuzní pěvcům a papouškům. -
The Tarsometatarsus of the Middle Eocene Loon Colymbiculus Udovichenkoi
– 17 – Paleornithological Research 2013 Proceed. 8th Inter nat. Meeting Society of Avian Paleontology and Evolution Ursula B. Göhlich & Andreas Kroh (Eds) The tarsometatarsus of the Middle Eocene loon Colymbiculus udovichenkoi GERALD MAYR1, LEONID GOROBETS2 & EVGENIJ ZVONOK3 1 Senckenberg Research Institute and Natural History Museum Frankfurt, Frankfurt am Main, Germany; E-mail: [email protected] 2 Taras Shevchenko National University of Kiev, Dept. of Ecology and Environmental Protection, Kiev, Ukraine 3 Institute of Geological Sciences of NAS of Ukraine, Branch of Paleontology and Stratigraphy, Kiev, Ukraine Abstract — We describe the previously unknown tarsometatarsus of the earliest unambiguously identified loon, Colymbiculus udovichenkoi, from the Middle Eocene of the Ukraine. Except for being more elongate and apart from details of the hypotarsus morphology, the bone resembles the tarsometatarsus of the Early Miocene Colym- boides minutus. We consider the hypotarsus morphology of Colymbiculus to be plesiomorphic for Gaviiformes. Colymboides and crown group Gaviiformes are each characterized by an autapomorphic hypotarsus morphology, which precludes the former from being directly ancestral to the latter. The similarities shared by C. udovichenkoi and C. minutus, including their small size, are likely to be plesiomorphic for Gaviiformes. Although the disap- pearance of small stem group Gaviiformes may be related to the retreat of loons to cold Northern latitudes, more data are needed to firmly establish this hypothesis. We finally note that early Paleogene stem group Gaviiformes markedly differ from putative Late Cretaceous loons, whose identification needs to be verified by further fossil specimens. Key words: Colymbiculus, Colymboides, fossil birds, Gaviiformes, Eocene, Lutetian, Ukraine Introduction 1982 from the Early Miocene of the Czech Republic (ŠVEC 1982), the earliest stem line- Loons (Gaviiformes) have a fairly comprehen- age representative, being distinctly smaller than sive Neogene fossil record (OLSON 1985; MAYR its modern congeners. -
Dieter Thomas Tietze Editor How They Arise, Modify and Vanish
Fascinating Life Sciences Dieter Thomas Tietze Editor Bird Species How They Arise, Modify and Vanish Fascinating Life Sciences This interdisciplinary series brings together the most essential and captivating topics in the life sciences. They range from the plant sciences to zoology, from the microbiome to macrobiome, and from basic biology to biotechnology. The series not only highlights fascinating research; it also discusses major challenges associated with the life sciences and related disciplines and outlines future research directions. Individual volumes provide in-depth information, are richly illustrated with photographs, illustrations, and maps, and feature suggestions for further reading or glossaries where appropriate. Interested researchers in all areas of the life sciences, as well as biology enthusiasts, will find the series’ interdisciplinary focus and highly readable volumes especially appealing. More information about this series at http://www.springer.com/series/15408 Dieter Thomas Tietze Editor Bird Species How They Arise, Modify and Vanish Editor Dieter Thomas Tietze Natural History Museum Basel Basel, Switzerland ISSN 2509-6745 ISSN 2509-6753 (electronic) Fascinating Life Sciences ISBN 978-3-319-91688-0 ISBN 978-3-319-91689-7 (eBook) https://doi.org/10.1007/978-3-319-91689-7 Library of Congress Control Number: 2018948152 © The Editor(s) (if applicable) and The Author(s) 2018. This book is an open access publication. Open Access This book is licensed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license and indicate if changes were made. -
Visual Adaptations of Diurnal and Nocturnal Raptors
Seminars in Cell and Developmental Biology 106 (2020) 116–126 Contents lists available at ScienceDirect Seminars in Cell & Developmental Biology journal homepage: www.elsevier.com/locate/semcdb Review Visual adaptations of diurnal and nocturnal raptors T Simon Potiera, Mindaugas Mitkusb, Almut Kelbera,* a Lund Vision Group, Department of Biology, Lund University, Sölvegatan 34, S-22362 Lund, Sweden b Institute of Biosciences, Life Sciences Center, Vilnius University, Saulėtekio Av 7, LT-10257 Vilnius, Lithuania HIGHLIGHTS • Raptors have large eyes allowing for high absolute sensitivity in nocturnal and high acuity in diurnal species. • Diurnal hunters have a deep central and a shallow temporal fovea, scavengers only a central and owls only a temporal fovea. • The spatial resolution of some large raptor species is the highest known among animals, but differs highly among species. • Visual fields of raptors reflect foraging strategies and depend on the divergence of optical axes and on headstructures • More comparative studies on raptor retinae (preferably with non-invasive methods) and on visual pathways are desirable. ARTICLE INFO ABSTRACT Keywords: Raptors have always fascinated mankind, owls for their highly sensitive vision, and eagles for their high visual Pecten acuity. We summarize what is presently known about the eyes as well as the visual abilities of these birds, and Fovea point out knowledge gaps. We discuss visual fields, eye movements, accommodation, ocular media transmit- Resolution tance, spectral sensitivity, retinal anatomy and what is known about visual pathways. The specific adaptations of Sensitivity owls to dim-light vision include large corneal diameters compared to axial (and focal) length, a rod-dominated Visual field retina and low spatial and temporal resolution of vision. -
AOU Classification Committee – North and Middle America
AOU Classification Committee – North and Middle America Proposal Set 2016-C No. Page Title 01 02 Change the English name of Alauda arvensis to Eurasian Skylark 02 06 Recognize Lilian’s Meadowlark Sturnella lilianae as a separate species from S. magna 03 20 Change the English name of Euplectes franciscanus to Northern Red Bishop 04 25 Transfer Sandhill Crane Grus canadensis to Antigone 05 29 Add Rufous-necked Wood-Rail Aramides axillaris to the U.S. list 06 31 Revise our higher-level linear sequence as follows: (a) Move Strigiformes to precede Trogoniformes; (b) Move Accipitriformes to precede Strigiformes; (c) Move Gaviiformes to precede Procellariiformes; (d) Move Eurypygiformes and Phaethontiformes to precede Gaviiformes; (e) Reverse the linear sequence of Podicipediformes and Phoenicopteriformes; (f) Move Pterocliformes and Columbiformes to follow Podicipediformes; (g) Move Cuculiformes, Caprimulgiformes, and Apodiformes to follow Columbiformes; and (h) Move Charadriiformes and Gruiformes to precede Eurypygiformes 07 45 Transfer Neocrex to Mustelirallus 08 48 (a) Split Ardenna from Puffinus, and (b) Revise the linear sequence of species of Ardenna 09 51 Separate Cathartiformes from Accipitriformes 10 58 Recognize Colibri cyanotus as a separate species from C. thalassinus 11 61 Change the English name “Brush-Finch” to “Brushfinch” 12 62 Change the English name of Ramphastos ambiguus 13 63 Split Plain Wren Cantorchilus modestus into three species 14 71 Recognize the genus Cercomacroides (Thamnophilidae) 15 74 Split Oceanodroma cheimomnestes and O. socorroensis from Leach’s Storm- Petrel O. leucorhoa 2016-C-1 N&MA Classification Committee p. 453 Change the English name of Alauda arvensis to Eurasian Skylark There are a dizzying number of larks (Alaudidae) worldwide and a first-time visitor to Africa or Mongolia might confront 10 or more species across several genera. -
Leptosomiformes ~ Trogoniformes ~ Bucerotiformes ~ Piciformes
Birds of the World part 6 Afroaves The core landbirds originating in Africa TELLURAVES: AFROAVES – core landbirds originating in Africa (8 orders) • ORDER ACCIPITRIFORMES – hawks and allies (4 families, 265 species) – Family Cathartidae – New World vultures (7 species) – Family Sagittariidae – secretarybird (1 species) – Family Pandionidae – ospreys (2 species) – Family Accipitridae – kites, hawks, and eagles (255 species) • ORDER STRIGIFORMES – owls (2 families, 241 species) – Family Tytonidae – barn owls (19 species) – Family Strigidae – owls (222 species) • ORDER COLIIFORMES (1 family, 6 species) – Family Coliidae – mousebirds (6 species) • ORDER LEPTOSOMIFORMES (1 family, 1 species) – Family Leptosomidae – cuckoo-roller (1 species) • ORDER TROGONIFORMES (1 family, 43 species) – Family Trogonidae – trogons (43 species) • ORDER BUCEROTIFORMES – hornbills and hoopoes (4 families, 74 species) – Family Upupidae – hoopoes (4 species) – Family Phoeniculidae – wood hoopoes (9 species) – Family Bucorvidae – ground hornbills (2 species) – Family Bucerotidae – hornbills (59 species) • ORDER PICIFORMES – woodpeckers and allies (9 families, 443 species) – Family Galbulidae – jacamars (18 species) – Family Bucconidae – puffbirds (37 species) – Family Capitonidae – New World barbets (15 species) – Family Semnornithidae – toucan barbets (2 species) – Family Ramphastidae – toucans (46 species) – Family Megalaimidae – Asian barbets (32 species) – Family Lybiidae – African barbets (42 species) – Family Indicatoridae – honeyguides (17 species) – Family -
Asynchronous Evolution of Interdependent Nest Characters Across the Avian Phylogeny
ARTICLE DOI: 10.1038/s41467-018-04265-x OPEN Asynchronous evolution of interdependent nest characters across the avian phylogeny Yi-Ting Fang1, Mao-Ning Tuanmu 2 & Chih-Ming Hung 2 Nest building is a widespread behavior among birds that reflects their adaptation to the environment and evolutionary history. However, it remains unclear how nests evolve and how their evolution relates to the bird phylogeny. Here, by examining the evolution of three nest — — 1234567890():,; characters structure, site, and attachment across all bird families, we reveal that nest characters did not change synchronically across the avian phylogeny but had disparate evolutionary trajectories. Nest structure shows stronger phylogenetic signal than nest site, while nest attachment has little variation. Nevertheless, the three characters evolved inter- dependently. For example, the ability of birds to explore new nest sites might depend on the emergence of novel nest structure and/or attachment. Our results also reveal labile nest characters in passerines compared with other birds. This study provides important insights into avian nest evolution and suggests potential associations between nest diversification and the adaptive radiations that generated modern bird lineages. 1 Department of Life Sciences, National Chung Hsing University, Taichung, Taiwan. 2 Biodiversity Research Center, Academia Sinica, Taipei, Taiwan. Correspondence and requests for materials should be addressed to M.-N.T. (email: [email protected]) or to C.-M.H. (email: [email protected]) NATURE COMMUNICATIONS | (2018) 9:1863 | DOI: 10.1038/s41467-018-04265-x | www.nature.com/naturecommunications 1 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04265-x lmost all birds build nests, ranging from a simple scratch attachment. -
Verbalizing Phylogenomic Conflict: Representation of Node Congruence Across Competing Reconstructions of the Neoavian Explosion
bioRxiv preprint doi: https://doi.org/10.1101/233973; this version posted December 14, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC 4.0 International license. 1 Tempe, December 12, 2017 RESEARCH ARTICLE (1st submission) Verbalizing phylogenomic conflict: Representation of node congruence across competing reconstructions of the neoavian explosion Nico M. Franz1*, Lukas J. Musher2, Joseph W. Brown3, Shizhuo Yu4, Bertram Ludäscher5 1 School of Life Sciences, Arizona State University, Tempe, Arizona, United States of America 2 Richard Gilder Graduate School and Department of Ornithology, American Museum of Natural History, New York, New York, United States of America 3 Department of Animal and Plant Sciences, University of Sheffield, Sheffield, United Kingdom 4 Department of Computer Science, University of California at Davis, Davis, California, United States of America 5 School of Information Sciences, University of Illinois at Urbana-Champaign, Champaign, Illinois, United States of America * Corresponding author E-mail: [email protected] Short title: Verbalizing phylogenomic conflict Abstract Phylogenomic research is accelerating the publication of landmark studies that aim to resolve deep divergences of major organismal groups. Meanwhile, systems for identifying and integrating the novel products of phylogenomic inference – such as newly supported clade concepts – have not kept pace. However, the ability to verbalize both node concept congruence and conflict across multiple, (in effect) simultaneously endorsed phylogenomic hypotheses, is a critical prerequisite for building synthetic data environments for biological systematics, thereby also benefitting other domains impacted by these (conflicting) inferences. -
Supplementary Information For
Supplementary Information for Earth history and the passerine superradiation Oliveros, Carl H., Daniel J. Field, Daniel T. Ksepka, F. Keith Barker, Alexandre Aleixo, Michael J. Andersen, Per Alström, Brett W. Benz, Edward L. Braun, Michael J. Braun, Gustavo A. Bravo, Robb T. Brumfield, R. Terry Chesser, Santiago Claramunt, Joel Cracraft, Andrés M. Cuervo, Elizabeth P. Derryberry, Travis C. Glenn, Michael G. Harvey, Peter A. Hosner, Leo Joseph, Rebecca Kimball, Andrew L. Mack, Colin M. Miskelly, A. Townsend Peterson, Mark B. Robbins, Frederick H. Sheldon, Luís Fábio Silveira, Brian T. Smith, Noor D. White, Robert G. Moyle, Brant C. Faircloth Corresponding authors: Carl H. Oliveros, Email: [email protected] Brant C. Faircloth, Email: [email protected] This PDF file includes: Supplementary text Figs. S1 to S10 Table S1 to S3 References for SI reference citations Other supplementary materials for this manuscript include the following: Supplementary Files S1 to S3 1 www.pnas.org/cgi/doi/10.1073/pnas.1813206116 Supplementary Information Text Extended Materials and Methods Library preparation and sequencing. We extracted and purified DNA from fresh muscle tissue, liver tissue, or toepad clips from 113 vouchered museum specimens (Supplementary File S1) using the Qiagen DNeasy Blood and Tissue Kit following the manufacturer’s protocol. We quantified DNA extracts using a Qubit fluorometer, and we prepared aliquots of DNA extracted from muscle and liver at 10 ng/µL in 60 µL volume for shearing. We sheared each DNA sample to 400–600 bp using a Qsonica Q800R sonicator for 15–45 cycles, with each cycle running for 20 seconds on and 20 seconds off at 25% amplitude. -
Articles on Lice Published During 2015. Abdulla BS. Morphological
Articles on lice published during 2015. Abdulla BS. Morphological study and prevalence of head lice (Pediculus humanus captis) (Anoplura: Pediculidae) infestation among some primary school students in Erbil City, Kurdistan region. Zanco Journal of Pure and Applied Sciences 2015; 27; 29-36. Abd El Raheem TA, El Sherbiny NA, Elgameel A, El-Sayed GA, Moustafa N, Shahen S. Epidemiological comparative study of pediculosis capitis among primary school children in Fayoum and Minofiya governorates, Egypt. Journal of Community Health 2015; 40: 222- 226. doi: 10.1007/s10900-014-9920-0. Ahmad A, Arya G, Bansal N, Saxena AK. Stray notes on two phthirapteran species occurring on Indian grey Horn Bill, Tockus birostris Scopoli (Coraciformes: Bucerotidae). Journal of Parasitic Diseases 2015; 39: 761-765. doi: 10.1007/s12639-013-0409-z. Epub 2013 Dec 10. Ahmad A, Gupta N, Saxena AK, Gupta DK. Population levels of Phthiraptera on domestic ducks (Anas platyrhynchos) (Anseriformes: Anatidae). Journal of Parasitic Diseases 2015; 39: 567-571. doi: 10.1007/s12639-013-0398-y. Epub 2013 Nov 19. Alahmed A, Shobrak M, Kheir S, Nasser M. Little known chewing lice (Phthiraptera) infesting crab plover Dromas ardeola Paykull, 1805 (Charadriiformes: Dromadidae) from the Red Sea. Acta Tropica 2015; 150: 171-175. doi: 10.1016/j.actatropica.2015.07.025. Epub 2015 Jul 29. Alemu S, Kemal J. The properties of selected medicinal plants against Bovicola ovis and Amblyomma varigatum: A Review. European Journal of Applied Sciences 2015; 7: 277-290. doi: 10.5829/idosi.ejas.2015.7.6.101174 Allen JM, Burleigh JG, Light JE, Reed DL. Effects of 16S rDNA sampling on estimates of endosymbiont lineages in sucking lice.