A Record of a Landbird (Telluraves) from the Eocene Ikovo Locality (East Ukraine)
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Climatic Shifts Drove Major Contractions in Avian Latitudinal Distributions Throughout the Cenozoic
Climatic shifts drove major contractions in avian latitudinal distributions throughout the Cenozoic Erin E. Saupea,1,2, Alexander Farnsworthb, Daniel J. Luntb, Navjit Sagooc, Karen V. Phamd, and Daniel J. Fielde,1,2 aDepartment of Earth Sciences, University of Oxford, OX1 3AN Oxford, United Kingdom; bSchool of Geographical Sciences, University of Bristol, Clifton, BS8 1SS Bristol, United Kingdom; cDepartment of Meteorology, Stockholm University, 106 91 Stockholm, Sweden; dDivision of Geological and Planetary Sciences, Caltech, Pasadena, CA 91125; and eDepartment of Earth Sciences, University of Cambridge, CB2 3EQ Cambridge, United Kingdom Edited by Nils Chr. Stenseth, University of Oslo, Oslo, Norway, and approved May 7, 2019 (received for review March 8, 2019) Many higher level avian clades are restricted to Earth’s lower lati- order avian historical biogeography invariably recover strong evi- tudes, leading to historical biogeographic reconstructions favoring a dence for an origin of most modern diversity on southern land- Gondwanan origin of crown birds and numerous deep subclades. masses (2, 6, 11). However, several such “tropical-restricted” clades (TRCs) are repre- The crown bird fossil record has unique potential to reveal sented by stem-lineage fossils well outside the ranges of their clos- where different groups of birds were formerly distributed in deep est living relatives, often on northern continents. To assess the time. Fossil evidence, for example, has long indicated that total- drivers of these geographic disjunctions, we combined ecological group representatives of clades restricted to relatively narrow niche modeling, paleoclimate models, and the early Cenozoic fossil geographic regions today were formerly found in different parts of record to examine the influence of climatic change on avian geo- – graphic distributions over the last ∼56 million years. -
Onetouch 4.0 Scanned Documents
/ Chapter 2 THE FOSSIL RECORD OF BIRDS Storrs L. Olson Department of Vertebrate Zoology National Museum of Natural History Smithsonian Institution Washington, DC. I. Introduction 80 II. Archaeopteryx 85 III. Early Cretaceous Birds 87 IV. Hesperornithiformes 89 V. Ichthyornithiformes 91 VI. Other Mesozojc Birds 92 VII. Paleognathous Birds 96 A. The Problem of the Origins of Paleognathous Birds 96 B. The Fossil Record of Paleognathous Birds 104 VIII. The "Basal" Land Bird Assemblage 107 A. Opisthocomidae 109 B. Musophagidae 109 C. Cuculidae HO D. Falconidae HI E. Sagittariidae 112 F. Accipitridae 112 G. Pandionidae 114 H. Galliformes 114 1. Family Incertae Sedis Turnicidae 119 J. Columbiformes 119 K. Psittaciforines 120 L. Family Incertae Sedis Zygodactylidae 121 IX. The "Higher" Land Bird Assemblage 122 A. Coliiformes 124 B. Coraciiformes (Including Trogonidae and Galbulae) 124 C. Strigiformes 129 D. Caprimulgiformes 132 E. Apodiformes 134 F. Family Incertae Sedis Trochilidae 135 G. Order Incertae Sedis Bucerotiformes (Including Upupae) 136 H. Piciformes 138 I. Passeriformes 139 X. The Water Bird Assemblage 141 A. Gruiformes 142 B. Family Incertae Sedis Ardeidae 165 79 Avian Biology, Vol. Vlll ISBN 0-12-249408-3 80 STORES L. OLSON C. Family Incertae Sedis Podicipedidae 168 D. Charadriiformes 169 E. Anseriformes 186 F. Ciconiiformes 188 G. Pelecaniformes 192 H. Procellariiformes 208 I. Gaviiformes 212 J. Sphenisciformes 217 XI. Conclusion 217 References 218 I. Introduction Avian paleontology has long been a poor stepsister to its mammalian counterpart, a fact that may be attributed in some measure to an insufRcien- cy of qualified workers and to the absence in birds of heterodont teeth, on which the greater proportion of the fossil record of mammals is founded. -
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 -
Reported to Have Been Five Or Six Meters High at the Advent of the Present· Residents of the Region
THE TERTIARY LAKE BASIN AT ~FLORISSANT, COLO., BETWEEN SOUTH AND HAYDEN PAHKS.* I [With a map.] By SAMUEL H. SCUDDER. The following remarks are based upon collections. and notes made during a visit to Florissa:qt, in the summer of 1877, in compap.y ·with Messrs. Arthur Lakes, of Golden, Colo., and F. C. Bowditch, of Boston, . Mass. As five days only were spent in the place, most of the time was . given up to the collection and care of specimens, .so that only a general survey of the locality was·possible. Mr. Lakes ·especially gave himself to the· study of the geol9gy of the district, and as he was previously fttrniliar with the structure of the surrounding country, and placed his notes at my disposal, the first part of this paper should be considered our joint production. GEOLOGY. The tertiary lalw basin at Florissant, already famous for its prolific beds of plants and insects, is situated ina narrow valley high up in the mountains at the soethern extremity of the Front Range of Colorado, at no great distance from "Pike's Peak. The first, and, so fat· as I am aware, the only notice of it which has been published, is that lJy Mr. A. C. Peale, in his account of the geology of Hayden Park and the country lying between it and the upper canon of the South Platte. .t As it is brief, it is given here in full: . ''The latter [Beaver Creek] flows to the northwest, and empties into the South Platte just below the upper canon. -
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. -
A North American Stem Turaco, and the Complex Biogeographic History of Modern Birds Daniel J
Field and Hsiang BMC Evolutionary Biology (2018) 18:102 https://doi.org/10.1186/s12862-018-1212-3 RESEARCHARTICLE Open Access A North American stem turaco, and the complex biogeographic history of modern birds Daniel J. Field1,2* and Allison Y. Hsiang2,3 Abstract Background: Earth’s lower latitudes boast the majority of extant avian species-level and higher-order diversity, with many deeply diverging clades restricted to vestiges of Gondwana. However, palaeontological analyses reveal that many avian crown clades with restricted extant distributions had stem group relatives in very different parts of the world. Results: Our phylogenetic analyses support the enigmatic fossil bird Foro panarium Olson 1992 from the early Eocene (Wasatchian) of Wyoming as a stem turaco (Neornithes: Pan-Musophagidae), a clade that is presently endemic to sub-Saharan Africa. Our analyses offer the first well-supported evidence for a stem musophagid (and therefore a useful fossil calibration for avian molecular divergence analyses), and reveal surprising new information on the early morphology and biogeography of this clade. Total-clade Musophagidae is identified as a potential participant in dispersal via the recently proposed ‘North American Gateway’ during the Palaeogene, and new biogeographic analyses illustrate the importance of the fossil record in revealing the complex historical biogeography of crown birds across geological timescales. Conclusions: In the Palaeogene, total-clade Musophagidae was distributed well outside the range of crown Musophagidae in the present day. This observation is consistent with similar biogeographic observations for numerous other modern bird clades, illustrating shortcomings of historical biogeographic analyses that do not incorporate information from the avian fossil record. -
Data Types and the Phylogeny of Neoaves
Article Data Types and the Phylogeny of Neoaves Edward L. Braun * and Rebecca T. Kimball * Department of Biology, University of Florida, Gainesville, FL 32611, USA * Correspondence: ebraun68@ufl.edu (E.L.B.); rkimball@ufl.edu (R.T.K.) Simple Summary: Some of the earliest studies using molecular data to resolve evolutionary history separated birds into three main groups: Paleognathae (ostriches and allies), Galloanseres (ducks and chickens), and Neoaves (the remaining ~95% of avian species). The early evolution of Neoaves, however, has remained challenging to understand, even as data from whole genomes have become available. We have recently proposed that some of the conflicts among recent studies may be due to the type of genomic data that is analyzed (regions that code for proteins versus regions that do not). However, a rigorous examination of this hypothesis using coding and non-coding data from the same genomic regions sequenced from a relatively large number of species has not yet been conducted. Here we perform such an analysis and show that data type does influence the methods used to infer evolutionary relationships from molecular sequences. We also show that conducting analyses using models of sequence evolution that were chosen to minimize reconstruction errors result in coding and non-coding trees that are much more similar, and we add to the evidence that non-coding data provide better information regarding neoavian relationships. While a few relationships remain problematic, we are approaching a good understanding of the evolutionary history for major avian groups. Abstract: The phylogeny of Neoaves, the largest clade of extant birds, has remained unclear despite intense study. -
Whole-Genome Analyses Resolve Early Branches in the Tree of Life of Modern Birds Erich D
AFLOCKOFGENOMES 90. J. F. Storz, J. C. Opazo, F. G. Hoffmann, Mol. Phylogenet. Evol. RESEARCH ARTICLE 66, 469–478 (2013). 91. F. G. Hoffmann, J. F. Storz, T. A. Gorr, J. C. Opazo, Mol. Biol. Evol. 27, 1126–1138 (2010). Whole-genome analyses resolve ACKNOWLEDGMENTS Genome assemblies and annotations of avian genomes in this study are available on the avian phylogenomics website early branches in the tree of life (http://phybirds.genomics.org.cn), GigaDB (http://dx.doi.org/ 10.5524/101000), National Center for Biotechnology Information (NCBI), and ENSEMBL (NCBI and Ensembl accession numbers of modern birds are provided in table S2). The majority of this study was supported by an internal funding from BGI. In addition, G.Z. was 1 2 3 4,5,6 7 supported by a Marie Curie International Incoming Fellowship Erich D. Jarvis, *† Siavash Mirarab, * Andre J. Aberer, Bo Li, Peter Houde, grant (300837); M.T.P.G. was supported by a Danish National Cai Li,4,6 Simon Y. W. Ho,8 Brant C. Faircloth,9,10 Benoit Nabholz,11 Research Foundation grant (DNRF94) and a Lundbeck Foundation Jason T. Howard,1 Alexander Suh,12 Claudia C. Weber,12 Rute R. da Fonseca,6 grant (R52-A5062); C.L. and Q.L. were partially supported by a 4 4 4 4 7,13 14 Danish Council for Independent Research Grant (10-081390); Jianwen Li, Fang Zhang, Hui Li, Long Zhou, Nitish Narula, Liang Liu, and E.D.J. was supported by the Howard Hughes Medical Institute Ganesh Ganapathy,1 Bastien Boussau,15 Md. -
Phylogenetically Vetted and Stratigraphically Constrained Fossil Calibrations Within Aves
Palaeontologia Electronica palaeo-electronica.org Phylogenetically vetted and stratigraphically constrained fossil calibrations within Aves Daniel Ksepka and Julia Clarke ABSTRACT Understanding the timing of the crown radiation of birds is a major goal of avian molecular systematists and paleontologists. Despite the availability of ever-larger molecular datasets and increasingly sophisticated methods for phylogeny reconstruc- tion and divergence time estimation, relatively little attention has been paid to outlining and applying fossil calibrations. As the avian fossil record has become better sampled, and more extinct taxa have been incorporated into a phylogenetic framework, the potential for this record to serve as a powerful source of temporal data for divergence dating analyses has increased. Nonetheless, the desire for abundant calibrations must be balanced by careful vetting of candidate fossils, especially given the prevalence of inaccurate fossil calibrations in the recent past. In this contribution, we provide seven phylogenetically vetted fossil calibrations for major divergences within crown Aves rep- resenting the splits between (1) Anatoidea, (2) Sphenisciformes, (3) Coracioidea, (4) Apodidae, (5) Coliiformes, (6) Psittaciformes, and (7) Upupiformes, and the respective extant sister taxon for each of these clades. Each calibration is based an individual specimen, which maintains the clearest possible chain of inference for converting the relevant stratigraphic horizon to a numerical date. Minimum ages for each fossil are tightly constrained and incorporate associated dating errors, and the distributions of younger fossils from the clades of interest are summarized to provide a starting point for workers interested in estimating confidence intervals or outlining prior age distribu- tion curves. Daniel Ksepka. National Evolutionary Synthesis Center, Durham, North Carolina, 27706, USA. -
Avian Genomics : Fledging Into the Wild!
Erschienen in: Journal of Ornithology ; 156 (2015), 4. - S. 851-865 https://dx.doi.org/10.1007/s10336-015-1253-y Avian genomics: fledging into the wild! Robert H. S. Kraus1,2 • Michael Wink3 Abstract Next generation sequencing (NGS) technolo- Zusammenfassung gies provide great resources to study bird evolution and avian functional genomics. They also allow for the iden- Die Ornithologie ist im Zeitalter der Genomik ange- tification of suitable high-resolution markers for detailed kommen analyses of the phylogeography of a species or the con- nectivity of migrating birds between breeding and winter- Neue Sequenziertechnologien (Next Generation Sequen- ing populations. This review discusses the application of cing; NGS) ero¨ffnen die Mo¨glichkeit, Evolution und DNA markers for the study of systematics and phylogeny, funktionelle Genomik bei Vo¨geln umfassend zu untersu- but also population genetics and phylogeography. chen. Weiterhin erlaubt die NGS-Technologie, geeignete, Emphasis in this review is on the new methodology of hochauflo¨sende Markersysteme fu¨r Mikrosatelliten und NGS and its use to study avian genomics. The recent Single Nucleotide Polymorphisms (SNPs) zu identifizieren, publication of the first phylogenomic tree of birds based on um detaillierte Analysen zur Phylogeographie einer Art genome data of 48 bird taxa from 34 orders is presented in oder zur Konnektivita¨t von Zugvo¨geln zwischen Brut- und more detail. Winterpopulationen durchzufu¨hren. Dieses Review widmet sich der Anwendung von DNA Markern fu¨r die Erfor- Keywords Next generation sequencing Á Genetics Á schung von Systematik und Phylogenie sowie Populati- Ornithology Á Whole genome Á Phylogenomics Á Single onsgenetik und Phylogeographie. -
The Origin and Diversification of Birds
Current Biology Review The Origin and Diversification of Birds Stephen L. Brusatte1,*, Jingmai K. O’Connor2,*, and Erich D. Jarvis3,4,* 1School of GeoSciences, University of Edinburgh, Grant Institute, King’s Buildings, James Hutton Road, Edinburgh EH9 3FE, UK 2Institute of Vertebrate Paleontology and Paleoanthropology, Chinese Academy of Sciences, Beijing, China 3Department of Neurobiology, Duke University Medical Center, Durham, NC 27710, USA 4Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA *Correspondence: [email protected] (S.L.B.), [email protected] (J.K.O.), [email protected] (E.D.J.) http://dx.doi.org/10.1016/j.cub.2015.08.003 Birds are one of the most recognizable and diverse groups of modern vertebrates. Over the past two de- cades, a wealth of new fossil discoveries and phylogenetic and macroevolutionary studies has transformed our understanding of how birds originated and became so successful. Birds evolved from theropod dino- saurs during the Jurassic (around 165–150 million years ago) and their classic small, lightweight, feathered, and winged body plan was pieced together gradually over tens of millions of years of evolution rather than in one burst of innovation. Early birds diversified throughout the Jurassic and Cretaceous, becoming capable fliers with supercharged growth rates, but were decimated at the end-Cretaceous extinction alongside their close dinosaurian relatives. After the mass extinction, modern birds (members of the avian crown group) explosively diversified, culminating in more than 10,000 species distributed worldwide today. Introduction dinosaurs Dromaeosaurus albertensis or Troodon formosus.This Birds are one of the most conspicuous groups of animals in the clade includes all living birds and extinct taxa, such as Archaeop- modern world.