Margarops Fuscatus)In Puerto Rico
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Or POLYMYODI): Oscines (Songbirds
Text extracted from Gill B.J.; Bell, B.D.; Chambers, G.K.; Medway, D.G.; Palma, R.L.; Scofield, R.P.; Tennyson, A.J.D.; Worthy, T.H. 2010. Checklist of the birds of New Zealand, Norfolk and Macquarie Islands, and the Ross Dependency, Antarctica. 4th edition. Wellington, Te Papa Press and Ornithological Society of New Zealand. Pages 275, 279, 301-302 & 305-306. Order PASSERIFORMES: Passerine (Perching) Birds See Christidis & Boles (2008) for a review of recent studies relevant to the higher-level systematics of the passerine birds. Suborder PASSERES (or POLYMYODI): Oscines (Songbirds) The arrangement of songbirds in the 1970 Checklist (Checklist Committee 1970) was based on the premise that the species endemic to the Australasian region were derived directly from Eurasian groups and belonged in Old World families (e.g. Gerygone and Petroica in Muscicapidae). The 1990 Checklist (Checklist Committee 1990) followed the Australian lead in allocating various native songbirds to their own Australasian families (e.g. Gerygone to Acanthizidae, and Petroica to Eopsaltriidae), but the sequence was still based largely on the old Peters-Mayr arrangement. Since the late 1980s, when the 1990 Checklist was finalised, evidence from molecular biology, especially DNA studies, has shown that most of the Australian and New Zealand endemic songbirds are the product of a major Australasian radiation parallel to the radiation of songbirds in Eurasia and elsewhere. Many superficial morphological and ecological similarities between Australasian and Eurasian songbirds are the result of convergent evolution. Sibley & Ahlquist (1985, 1990) and Sibley et al. (1988) recognised a division of the songbirds into two groups which were called Corvida and Passerida (Sibley & Ahlquist 1990). -
Birds Suborder PASSERES (Or POLYMYODI): Oscines
Text extracted from Gill B.J.; Bell, B.D.; Chambers, G.K.; Medway, D.G.; Palma, R.L.; Scofield, R.P.; Tennyson, A.J.D.; Worthy, T.H. 2010. Checklist of the birds of New Zealand, Norfolk and Macquarie Islands, and the Ross Dependency, Antarctica. 4th edition. Wellington, Te Papa Press and Ornithological Society of New Zealand. Pages 275, 279 & 301-305. Order PASSERIFORMES: Passerine (Perching) Birds See Christidis & Boles (2008) for a review of recent studies relevant to the higher-level systematics of the passerine birds. Suborder PASSERES (or POLYMYODI): Oscines (Songbirds) The arrangement of songbirds in the 1970 Checklist (Checklist Committee 1970) was based on the premise that the species endemic to the Australasian region were derived directly from Eurasian groups and belonged in Old World families (e.g. Gerygone and Petroica in Muscicapidae). The 1990 Checklist (Checklist Committee 1990) followed the Australian lead in allocating various native songbirds to their own Australasian families (e.g. Gerygone to Acanthizidae, and Petroica to Eopsaltriidae), but the sequence was still based largely on the old Peters-Mayr arrangement. Since the late 1980s, when the 1990 Checklist was finalised, evidence from molecular biology, especially DNA studies, has shown that most of the Australian and New Zealand endemic songbirds are the product of a major Australasian radiation parallel to the radiation of songbirds in Eurasia and elsewhere. Many superficial morphological and ecological similarities between Australasian and Eurasian songbirds are the result of convergent evolution. Sibley & Ahlquist (1985, 1990) and Sibley et al. (1988) recognised a division of the songbirds into two groups which were called Corvida and Passerida (Sibley & Ahlquist 1990). -
A Complete Species-Level Molecular Phylogeny For
Author's personal copy Available online at www.sciencedirect.com Molecular Phylogenetics and Evolution 47 (2008) 251–260 www.elsevier.com/locate/ympev A complete species-level molecular phylogeny for the ‘‘Eurasian” starlings (Sturnidae: Sturnus, Acridotheres, and allies): Recent diversification in a highly social and dispersive avian group Irby J. Lovette a,*, Brynn V. McCleery a, Amanda L. Talaba a, Dustin R. Rubenstein a,b,c a Fuller Evolutionary Biology Program, Laboratory of Ornithology, Cornell University, Ithaca, NY 14950, USA b Department of Neurobiology and Behavior, Cornell University, Ithaca, NY 14850, USA c Department of Integrative Biology and Museum of Vertebrate Zoology, University of California, Berkeley, CA 94720, USA Received 2 August 2007; revised 17 January 2008; accepted 22 January 2008 Available online 31 January 2008 Abstract We generated the first complete phylogeny of extant taxa in a well-defined clade of 26 starling species that is collectively distributed across Eurasia, and which has one species endemic to sub-Saharan Africa. Two species in this group—the European starling Sturnus vulgaris and the common Myna Acridotheres tristis—now occur on continents and islands around the world following human-mediated introductions, and the entire clade is generally notable for being highly social and dispersive, as most of its species breed colonially or move in large flocks as they track ephemeral insect or plant resources, and for associating with humans in urban or agricultural land- scapes. Our reconstructions were based on substantial mtDNA (4 kb) and nuclear intron (4 loci, 3 kb total) sequences from 16 species, augmented by mtDNA NDII gene sequences (1 kb) for the remaining 10 taxa for which DNAs were available only from museum skin samples. -
Resolving Phylogenetic Relationships Within Passeriformes Based on Mitochondrial Genes and Inferring the Evolution of Their Mitogenomes in Terms of Duplications
GBE Resolving Phylogenetic Relationships within Passeriformes Based on Mitochondrial Genes and Inferring the Evolution of Their Mitogenomes in Terms of Duplications Paweł Mackiewicz1,*, Adam Dawid Urantowka 2, Aleksandra Kroczak1,2, and Dorota Mackiewicz1 1Department of Bioinformatics and Genomics, Faculty of Biotechnology, University of Wrocław, Poland 2Department of Genetics, Wroclaw University of Environmental and Life Sciences, Poland *Corresponding author: E-mail: pamac@smorfland.uni.wroc.pl. Accepted: September 30, 2019 Abstract Mitochondrial genes are placed on one molecule, which implies that they should carry consistent phylogenetic information. Following this advantage, we present a well-supported phylogeny based on mitochondrial genomes from almost 300 representa- tives of Passeriformes, the most numerous and differentiated Aves order. The analyses resolved the phylogenetic position of para- phyletic Basal and Transitional Oscines. Passerida occurred divided into two groups, one containing Paroidea and Sylvioidea, whereas the other, Passeroidea and Muscicapoidea. Analyses of mitogenomes showed four types of rearrangements including a duplicated control region (CR) with adjacent genes. Mapping the presence and absence of duplications onto the phylogenetic tree revealed that the duplication was the ancestral state for passerines and was maintained in early diverged lineages. Next, the duplication could be lost and occurred independently at least four times according to the most parsimonious scenario. In some lineages, two CR copies have been inherited from an ancient duplication and highly diverged, whereas in others, the second copy became similar to the first one due to concerted evolution. The second CR copies accumulated over twice as many substitutions as the first ones. However, the second CRs were not completely eliminated and were retained for a long time, which suggests that both regions can fulfill an important role in mitogenomes. -
Discovery of a Relict Lineage and Monotypic Family of Passerine Birds
Discovery of a relict lineage and monotypic family of passerine birds Based on a comprehensive molecular dataset of passerines birds we identified a branch with a single species, the Spotted Wren-babbler Spelaeornis formosus. We suggest that this represents a relict lineage, which we propose should be placed in its own family, Elachuridae. The scientific name Elachura formosa should be used. We analysed of one of the most comprehensive datasets to date of the largest passerine bird clade, Passerida, which comprises c. 36% of the World’s c. 10,500 bird species. We identified 10 primary branches in the tree. One of these primary branches was made up of a single species, the Spotted Wren-Babbler Spelaeornis formosus, which is a small Wren-like bird that occurs in mountains from the eastern Himalayas to southeast China. This species apparently represents an old branch in the large passerine tree, without any close living relatives. There have surely been other relatives on this branch, which have gone extinct. The fact that it resembles wren-babblers and wrens in appearance is either due to pure chance or to convergent evolution, which may result in similar appearances in unrelated species that live in similar environments. We proposed the new family name Elachuridae for this single species. We also suggested that the scientific name Elachura formosa should be used, and the English name be changed to Elachura, to highlight its distinctness. Timaliidae (56) Pellorneidae (69) Leiothrichidae (133) Zosteropidae (128) Sylviidae (70) Pnoepygidae -
Based on Nuclear and Mitochondrial Sequence Data
MOLECULAR PHYLOGENETICS AND EVOLUTION Molecular Phylogenetics and Evolution 29 (2003) 126–138 www.elsevier.com/locate/ympev Phylogeny of Passerida (Aves: Passeriformes) based on nuclear and mitochondrial sequence data Per G.P. Ericsona,* and Ulf S. Johanssona,b a Department of Vertebrate Zoology and Molecular Systematics Laboratory, Swedish Museum of Natural History, Frescativagen 44, P.O. Box 50007, SE-10405 Stockholm, Sweden b Department of Zoology, University of Stockholm, SE-106 91 Stockholm, Sweden Received 18 September 2002; revised 23 January 2003 Abstract Passerida is a monophyletic group of oscine passerines that includes almost 3500 species (about 36%) of all bird species in the world. The current understanding of higher-level relationships within Passerida is based on DNA–DNA hybridizations [C.G. Sibley, J.E. Ahlquist, Phylogeny and Classification of Birds, 1990, Yale University Press, New Haven, CT]. Our results are based on analyses of 3130 aligned nucleotide sequence data obtained from 48 ingroup and 13 outgroup genera. Three nuclear genes were sequenced: c-myc (498–510 bp), RAG-1 (930 bp), and myoglobin (693–722 bp), as well one mitochondrial gene; cytochrome b (879 bp). The data were analysed by parsimony, maximum-likelihood, and Bayesian inference. The African rockfowl and rock- jumper are found to constitute the deepest branch within Passerida, but relationships among the other taxa are poorly resolved— only four major clades receive statistical support. One clade corresponds to Passeroidea of [C.G. Sibley, B.L. Monroe, Distribution and Taxonomy of Birds of the World, 1990, Yale University Press, New Haven, CT] and includes, e.g., flowerpeckers, sunbirds, accentors, weavers, estrilds, wagtails, finches, and sparrows. -
New Zealand Passerines Help Clarify the Diversification of Major Songbird Lineages During the Oligocene
GBE New Zealand Passerines Help Clarify the Diversification of Major Songbird Lineages during the Oligocene Gillian C. Gibb1,*,y, Ryan England2,4,y, Gerrit Hartig2,5, Patricia A. (Trish) McLenachan2, Briar L. Taylor Smith1, Bennet J. McComish2,6, Alan Cooper3, and David Penny2 1Ecology Group, Institute of Agriculture and Environment, Massey University, Palmerston North, New Zealand 2Institute of Fundamental Sciences, Massey University, Palmerston North, New Zealand 3Australian Centre for Ancient DNA, School of Earth and Environmental Sciences, University of Adelaide, South Australia, Australia 4Present address: Forensic Business Group, Institute of Environmental Science and Research (ESR Ltd.), Mt Albert Science Centre, Auckland, New Zealand 5Present address: Starlims Germany GmbH An Abbott Company, Witten, Germany 6Present address: School of Physical Sciences, University of Tasmania, Hobart, Australia *Corresponding author: E-mail: [email protected]. yThese authors contributed equally to this work. Accepted: October 7, 2015 Data deposition: This project has been deposited at GenBank under the accession numbers KC545397-KC545409, KT894672. Abstract Passerines are the largest avian order, and the 6,000 species comprise more than half of all extant bird species. This successful radiation probably had its origin in the Australasian region, but dating this origin has been difficult due to a scarce fossil record and poor biogeographic assumptions. Many of New Zealand’s endemic passerines fall within the deeper branches of the passerine radiation, and a well resolved phylogeny for the modern New Zealand element in the deeper branches of the oscine lineage will help us understand both oscine and passerine biogeography. To this end we present complete mitochondrial genomes representing all families of New Zealand passerines in a phylogenetic framework of over 100 passerine species. -
An Update of Wallacels Zoogeographic Regions of the World
REPORTS To examine the temporal profile of ChC produc- specification of a distinct, and probably the last, 3. G. A. Ascoli et al., Nat. Rev. Neurosci. 9, 557 (2008). tion and their correlation to laminar deployment, cohort in this lineage—the ChCs. 4. J. Szentágothai, M. A. Arbib, Neurosci. Res. Program Bull. 12, 305 (1974). we injected a single pulse of BrdU into pregnant A recent study demonstrated that progeni- CreER 5. P. Somogyi, Brain Res. 136, 345 (1977). Nkx2.1 ;Ai9 females at successive days be- tors below the ventral wall of the lateral ventricle 6. L. Sussel, O. Marin, S. Kimura, J. L. Rubenstein, tween E15 and P1 to label mitotic progenitors, (i.e., VGZ) of human infants give rise to a medial Development 126, 3359 (1999). each paired with a pulse of tamoxifen at E17 to migratory stream destined to the ventral mPFC 7. S. J. Butt et al., Neuron 59, 722 (2008). + 18 8. H. Taniguchi et al., Neuron 71, 995 (2011). label NKX2.1 cells (Fig. 3A). We first quanti- ( ). Despite species differences in the develop- 9. L. Madisen et al., Nat. Neurosci. 13, 133 (2010). fied the fraction of L2 ChCs (identified by mor- mental timing of corticogenesis, this study and 10. J. Szabadics et al., Science 311, 233 (2006). + phology) in mPFC that were also BrdU+. Although our findings raise the possibility that the NKX2.1 11. A. Woodruff, Q. Xu, S. A. Anderson, R. Yuste, Front. there was ChC production by E15, consistent progenitors in VGZ and their extended neurogenesis Neural Circuits 3, 15 (2009). -
The Division of the Major Songbird Radiation Into Passerida and 'Core
TheBlackwell Publishing Ltd division of the major songbird radiation into Passerida and ‘core Corvoidea’ (Aves: Passeriformes) — the species tree vs. gene trees MARTIN IRESTEDT & JAN I. OHLSON Submitted: 19 July 2007 Irestedt, M. & Ohlson, J. I. (2008). The division of the major songbird radiation into Passerida Accepted: 26 November 2007 and ‘core Corvoidea’ (Aves: Passeriformes) — the species tree vs. gene trees. — Zoologica doi:10.1111/j.1463-6409.2007.00321.x Scripta, 37, 305–313. The knowledge of evolutionary relationships among oscine songbirds has been largely improved in recent years by molecular phylogenetic studies. However, current knowledge is still largely based on sequence data from a limited number of loci. In this study, we re-evaluate relationships among basal lineages within the ‘core Corvoidea’ and Passerida radiations, by adding additional loci to previously published data. The trees obtained from the individual genes suggest incongruent topologies. Especially the positions of Callaeatidae (wattlebirds), Cnemophilidae (satinbirds) and Melanocharitidae (longbills and berrypeckers) vary among the trees, but RAG-1 is the only gene that unambiguously suggested a ‘core Corvoidea’ affinity for these taxa. Analyses of various combined data sets show that the phylogenetic positions for Callaeatidae, Cnemophilidae and Melanocharitidae largely depend on which genes that have been combined. As the RAG-1 gene has contributed to a majority of the phylogenetic information in previous studies, it has deeply influenced previous molecular affinities of these taxa. Based on the current data, we found a reasonable support for a Passerida affinity of Callaeatidae and Cnemophilidae, contrary to previous molecular studies. The position of Melanocharitidae is more unstable but a basal position among Passerida is congruent with a deletion observed in the glyceraldehyde-3-phosphodehydrogenase (GAPDH) loci. -
Distribution, Ecology, and Life History of the Pearly-Eyed Thrasher (Margarops Fuscatus)
Adaptations of An Avian Supertramp: Distribution, Ecology, and Life History of the Pearly-Eyed Thrasher (Margarops fuscatus) Chapter 6: Survival and Dispersal The pearly-eyed thrasher has a wide geographical distribution, obtains regional and local abundance, and undergoes morphological plasticity on islands, especially at different elevations. It readily adapts to diverse habitats in noncompetitive situations. Its status as an avian supertramp becomes even more evident when one considers its proficiency in dispersing to and colonizing small, often sparsely The pearly-eye is a inhabited islands and disturbed habitats. long-lived species, Although rare in nature, an additional attribute of a supertramp would be a even for a tropical protracted lifetime once colonists become established. The pearly-eye possesses passerine. such an attribute. It is a long-lived species, even for a tropical passerine. This chapter treats adult thrasher survival, longevity, short- and long-range natal dispersal of the young, including the intrinsic and extrinsic characteristics of natal dispersers, and a comparison of the field techniques used in monitoring the spatiotemporal aspects of dispersal, e.g., observations, biotelemetry, and banding. Rounding out the chapter are some of the inherent and ecological factors influencing immature thrashers’ survival and dispersal, e.g., preferred habitat, diet, season, ectoparasites, and the effects of two major hurricanes, which resulted in food shortages following both disturbances. Annual Survival Rates (Rain-Forest Population) In the early 1990s, the tenet that tropical birds survive much longer than their north temperate counterparts, many of which are migratory, came into question (Karr et al. 1990). Whether or not the dogma can survive, however, awaits further empirical evidence from additional studies. -
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. -
Inference of Phylogenetic Relationships in Passerine Birds (Aves: Passeriformes) Using New Molecular Markers
Institut für Biochemie und Biologie Evolutionsbiologie/Spezielle Zoologie Inference of phylogenetic relationships in passerine birds (Aves: Passeriformes) using new molecular markers Dissertation zur Erlangung des akademischen Grades “doctor rerum naturalium” (Dr. rer. nat.) in der Wissenschaftsdisziplin “Evolutionsbiologie“ eingereicht an der Mathematisch-Naturwissenschaftlichen Fakultät der Universität Potsdam von Simone Treplin Potsdam, August 2006 Acknowledgements Acknowledgements First of all, I would like to thank Prof. Dr. Ralph Tiedemann for the exciting topic of my thesis. I’m grateful for his ongoing interest, discussions, support, and confidence in the project and me. I thank the University of Potsdam for the opportunity to perform my PhD and the financial and logistical funds. This thesis would not have been possible without many institutions and people, who provided samples: University of Kiel, Haustierkunde (Heiner Luttmann and Joachim Oesert), Zoologischer Garten Berlin (Rudolf Reinhard), Tierpark Berlin (Martin Kaiser), Transvaal Museum, South Africa (Tamar Cassidy), Vogelpark Walsrode (Bernd Marcordes), Eberhard Curio, Roger Fotso, Tomek Janiszewski, Hazell Shokellu Thompson, and Dieter Wallschläger. Additionally, I thank everybody who thought of me in the moment of finding a bird, collected and delivered it immediately. I express my gratitude to Christoph Bleidorn for his great help with the phylogenetic analyses, the fight with the cluster, the discussions, and proof-reading. Special thanks go to Susanne Hauswaldt for patiently reading my thesis and improving my English. I thank my colleagues of the whole group of evolutionary biology/systematic zoology for the friendly and positive working atmosphere, the funny lunch brakes, and the favours in the lab. I’m grateful to Romy for being my first, ‘easy-care’ diploma-student and producing many data.