101
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Suh A, Bachg S, Donnellan S, Joseph L, Brosius J, Kriegs JO, Schmitz J. De-novo emergence of SINE retroposons during the early evolution of passerine birds. Mob DNA 2017; 8:21. [PMID: 29255493 PMCID: PMC5729268 DOI: 10.1186/s13100-017-0104-1] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2017] [Accepted: 11/29/2017] [Indexed: 12/17/2022] Open
Abstract
BACKGROUND Passeriformes ("perching birds" or passerines) make up more than half of all extant bird species. The genome of the zebra finch, a passerine model organism for vocal learning, was noted previously to contain thousands of short interspersed elements (SINEs), a group of retroposons that is abundant in mammalian genomes but considered largely inactive in avian genomes. RESULTS Here we resolve the deep phylogenetic relationships of passerines using presence/absence patterns of SINEs. The resultant retroposon-based phylogeny provides a powerful and independent corroboration of previous sequence-based analyses. Notably, SINE activity began in the common ancestor of Eupasseres (passerines excluding the New Zealand wrens Acanthisittidae) and ceased before the rapid diversification of oscine passerines (suborder Passeri - songbirds). Furthermore, we find evidence for very recent SINE activity within suboscine passerines (suborder Tyranni), following the emergence of a SINE via acquisition of a different tRNA head as we suggest through template switching. CONCLUSIONS We propose that the early evolution of passerines was unusual among birds in that it was accompanied by de-novo emergence and activity of SINEs. Their genomic and transcriptomic impact warrants further study in the light of the massive diversification of passerines.
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Affiliation(s)
- Alexander Suh
- Institute of Experimental Pathology (ZMBE), University of Münster, D-48149 Münster, Germany
- Department of Evolutionary Biology (EBC), Uppsala University, SE-75236 Uppsala, Sweden
| | - Sandra Bachg
- Institute of Experimental Pathology (ZMBE), University of Münster, D-48149 Münster, Germany
| | - Stephen Donnellan
- South Australian Museum, Adelaide, SA 5000 Australia
- School of Biological Sciences, The University of Adelaide, Adelaide, 5005 Australia
| | - Leo Joseph
- Australian National Wildlife Collection, CSIRO National Research Collections Australia, Canberra, ACT 2601 Australia
| | - Jürgen Brosius
- Institute of Experimental Pathology (ZMBE), University of Münster, D-48149 Münster, Germany
- Brandenburg Medical School (MHB), D-16816 Neuruppin, Germany
| | - Jan Ole Kriegs
- Institute of Experimental Pathology (ZMBE), University of Münster, D-48149 Münster, Germany
- LWL-Museum für Naturkunde, Westfälisches Landesmuseum mit Planetarium, D-48161 Münster, Germany
| | - Jürgen Schmitz
- Institute of Experimental Pathology (ZMBE), University of Münster, D-48149 Münster, Germany
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102
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Suh A, Smeds L, Ellegren H. Abundant recent activity of retrovirus-like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes. Mol Ecol 2017; 27:99-111. [DOI: 10.1111/mec.14439] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2017] [Revised: 11/01/2017] [Accepted: 11/06/2017] [Indexed: 01/01/2023]
Affiliation(s)
- Alexander Suh
- Department of Evolutionary Biology; Evolutionary Biology Centre (EBC); Uppsala University; Uppsala Sweden
| | - Linnéa Smeds
- Department of Evolutionary Biology; Evolutionary Biology Centre (EBC); Uppsala University; Uppsala Sweden
| | - Hans Ellegren
- Department of Evolutionary Biology; Evolutionary Biology Centre (EBC); Uppsala University; Uppsala Sweden
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103
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Barker FK. Molecular Phylogenetics of the Wrens and Allies (Passeriformes: Certhioidea), with Comments on the Relationships ofFerminia. AMERICAN MUSEUM NOVITATES 2017. [DOI: 10.1206/3887.1] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- F. Keith Barker
- Department of Ecology, Evolution and Behavior and Bell Museum of Natural History, University of Minnesota
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104
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Jønsson KA, Blom MPK, Päckert M, Ericson PGP, Irestedt M. Relicts of the lost arc: High-throughput sequencing of the Eutrichomyias rowleyi (Aves: Passeriformes) holotype uncovers an ancient biogeographic link between the Philippines and Fiji. Mol Phylogenet Evol 2017; 120:28-32. [PMID: 29199105 DOI: 10.1016/j.ympev.2017.11.021] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2017] [Revised: 09/22/2017] [Accepted: 11/29/2017] [Indexed: 11/30/2022]
Abstract
Molecular studies have revealed a number of cases in which traditional assessments of evolutionary relationships have been incorrect. This has implications not only for systematics and taxonomy but also for our understanding of how diversity patterns on Earth have been formed. Here, we use high-throughput sequencing technology to obtain molecular data from the holotype specimen of the elusive Eutrichomyias rowleyi, which is endemic to the Indonesian island of Sangihe. We show that E. rowleyi unexpectedly is a member of the family Lamproliidae, which dates back some 20 Million years and only include two other species, Lamprolia victoriae from Fiji and Chaetorhynchus papuensis from New Guinea. Tectonic reconstructions suggest that the Melanesian island arc, which included land masses on the northern edge of the Australian plate (present day New Guinea) stretched as a string of islands from the Philippines (including proto-Sangihe) to Fiji from 25 to 20 My. Consequently, our results are indicative of an ancient distribution along the Melanesian island arc followed by relictualization, which led to members of the Lamproliidae to be distributed on widely separated islands across the Indo-Pacific.
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Affiliation(s)
- Knud Andreas Jønsson
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen Ø, Denmark.
| | - Mozes P K Blom
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, PO Box 50007, Stockholm 10405, Sweden
| | - Martin Päckert
- Senckenberg Natural History Collections, Museum of Zoology, Königsbrücker Landstraße 159, D-01109 Dresden, Germany
| | - Per G P Ericson
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, PO Box 50007, Stockholm 10405, Sweden
| | - Martin Irestedt
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, PO Box 50007, Stockholm 10405, Sweden
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105
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Foth C, Rauhut OWM. Re-evaluation of the Haarlem Archaeopteryx and the radiation of maniraptoran theropod dinosaurs. BMC Evol Biol 2017; 17:236. [PMID: 29197327 PMCID: PMC5712154 DOI: 10.1186/s12862-017-1076-y] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2017] [Accepted: 11/16/2017] [Indexed: 12/03/2022] Open
Abstract
Background Archaeopteryx is an iconic fossil that has long been pivotal for our understanding of the origin of birds. Remains of this important taxon have only been found in the Late Jurassic lithographic limestones of Bavaria, Germany. Twelve skeletal specimens are reported so far. Archaeopteryx was long the only pre-Cretaceous paravian theropod known, but recent discoveries from the Tiaojishan Formation, China, yielded a remarkable diversity of this clade, including the possibly oldest and most basal known clade of avialan, here named Anchiornithidae. However, Archaeopteryx remains the only Jurassic paravian theropod based on diagnostic material reported outside China. Results Re-examination of the incomplete Haarlem Archaeopteryx specimen did not find any diagnostic features of this genus. In contrast, the specimen markedly differs in proportions from other Archaeopteryx specimens and shares two distinct characters with anchiornithids. Phylogenetic analysis confirms it as the first anchiornithid recorded outside the Tiaojushan Formation of China, for which the new generic name Ostromia is proposed here. Conclusions In combination with a biogeographic analysis of coelurosaurian theropods and palaeogeographic and stratigraphic data, our results indicate an explosive radiation of maniraptoran coelurosaurs probably in isolation in eastern Asia in the late Middle Jurassic and a rapid, at least Laurasian dispersal of the different subclades in the Late Jurassic. Small body size and, possibly, a multiple origin of flight capabilities enhanced dispersal capabilities of paravian theropods and might thus have been crucial for their evolutionary success. Electronic supplementary material The online version of this article (10.1186/s12862-017-1076-y) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Christian Foth
- Department of Geosciences, Université de Fribourg, Chemin du Musée 6, 1700, Fribourg, Switzerland.,Current address: Staatliches Museum für Naturkunde Stuttgart, Rosenstein 1, 70191, Stuttgart, Germany
| | - Oliver W M Rauhut
- SNSB-Bayerische Staatssammlung für Paläontologie und Geologie, Ludwig-Maximilians-University Munich, Department for Earth and Environmental Sciences, and GeoBioCenter, Richard-Wagner-Str. 10, 80333, Munich, Germany.
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106
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Quan J, Zhang X, Zhou T, Hu Y, Liu X. Characterization of the complete mitochondrial genome sequence of Artamus cinereus (Passeriformes: Artamidae). CONSERV GENET RESOUR 2017. [DOI: 10.1007/s12686-017-0939-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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107
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Van Dam MH, Lam AW, Sagata K, Gewa B, Laufa R, Balke M, Faircloth BC, Riedel A. Ultraconserved elements (UCEs) resolve the phylogeny of Australasian smurf-weevils. PLoS One 2017; 12:e0188044. [PMID: 29166661 PMCID: PMC5699822 DOI: 10.1371/journal.pone.0188044] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Accepted: 10/31/2017] [Indexed: 11/19/2022] Open
Abstract
Weevils (Curculionoidea) comprise one of the most diverse groups of organisms on earth. There is hardly a vascular plant or plant part without its own species of weevil feeding on it and weevil species diversity is greater than the number of fishes, birds, reptiles, amphibians and mammals combined. Here, we employ ultraconserved elements (UCEs) designed for beetles and a novel partitioning strategy of loci to help resolve phylogenetic relationships within the radiation of Australasian smurf-weevils (Eupholini). Despite being emblematic of the New Guinea fauna, no previous phylogenetic studies have been conducted on the Eupholini. In addition to a comprehensive collection of fresh specimens, we supplement our taxon sampling with museum specimens, and this study is the first target enrichment phylogenomic dataset incorporating beetle specimens from museum collections. We use both concatenated and species tree analyses to examine the relationships and taxonomy of this group. For species tree analyses we present a novel partitioning strategy to better model the molecular evolutionary process in UCEs. We found that the current taxonomy is problematic, largely grouping species on the basis of similar color patterns. Finally, our results show that most loci required multiple partitions for nucleotide rate substitution, suggesting that single partitions may not be the optimal partitioning strategy to accommodate rate heterogeneity for UCE loci.
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Affiliation(s)
- Matthew H. Van Dam
- SNSB-Zoological State Collection, Münchhausenstraße 21, München, Germany
| | - Athena W. Lam
- SNSB-Zoological State Collection, Münchhausenstraße 21, München, Germany
| | - Katayo Sagata
- School of Natural & Physical Sciences, The University of Papua New Guinea, UNIVERSITY 134, National Capital District, Papua New Guinea
| | - Bradley Gewa
- The New Guinea Binatang Research Center, Madang, Papua New Guinea
| | - Raymond Laufa
- The New Guinea Binatang Research Center, Madang, Papua New Guinea
| | - Michael Balke
- SNSB-Zoological State Collection, Münchhausenstraße 21, München, Germany
- GeoBioCenter, Ludwig-Maximilians-Universität, München, Germany
| | - Brant C. Faircloth
- Department of Biological Sciences and Museum of Natural Science, Louisiana State University, Baton Rouge, LA, United States of America
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108
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Jønsson KA, Borregaard MK, Carstensen DW, Hansen LA, Kennedy JD, Machac A, Marki PZ, Fjeldså J, Rahbek C. Biogeography and Biotic Assembly of Indo-Pacific Corvoid Passerine Birds. ANNUAL REVIEW OF ECOLOGY EVOLUTION AND SYSTEMATICS 2017. [DOI: 10.1146/annurev-ecolsys-110316-022813] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Knud Andreas Jønsson
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
| | - Michael Krabbe Borregaard
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
| | - Daniel Wisbech Carstensen
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
| | - Louis A. Hansen
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
| | - Jonathan D. Kennedy
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
| | - Antonin Machac
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
| | - Petter Zahl Marki
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
- Natural History Museum, University of Oslo, 0318 Oslo, Norway
| | - Jon Fjeldså
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
| | - Carsten Rahbek
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen, Denmark;, ,
- Department of Life Sciences, Imperial College London, Ascot SL5 7PY, United Kingdom
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109
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The development of scientific consensus: Analyzing conflict and concordance among avian phylogenies. Mol Phylogenet Evol 2017; 116:69-77. [DOI: 10.1016/j.ympev.2017.08.002] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Revised: 08/03/2017] [Accepted: 08/06/2017] [Indexed: 11/22/2022]
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110
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Genome-Guided Phylo-Transcriptomic Methods and the Nuclear Phylogentic Tree of the Paniceae Grasses. Sci Rep 2017; 7:13528. [PMID: 29051622 PMCID: PMC5648822 DOI: 10.1038/s41598-017-13236-z] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2017] [Accepted: 09/20/2017] [Indexed: 11/23/2022] Open
Abstract
The past few years have witnessed a paradigm shift in molecular systematics from phylogenetic methods (using one or a few genes) to those that can be described as phylogenomics (phylogenetic inference with entire genomes). One approach that has recently emerged is phylo-transcriptomics (transcriptome-based phylogenetic inference). As in any phylogenetics experiment, accurate orthology inference is critical to phylo-transcriptomics. To date, most analyses have inferred orthology based either on pure sequence similarity or using gene-tree approaches. The use of conserved genome synteny in orthology detection has been relatively under-employed in phylogenetics, mainly due to the cost of sequencing genomes. While current trends focus on the quantity of genes included in an analysis, the use of synteny is likely to improve the quality of ortholog inference. In this study, we combine de novo transcriptome data and sequenced genomes from an economically important group of grass species, the tribe Paniceae, to make phylogenomic inferences. This method, which we call “genome-guided phylo-transcriptomics”, is compared to other recently published orthology inference pipelines, and benchmarked using a set of sequenced genomes from across the grasses. These comparisons provide a framework for future researchers to evaluate the costs and benefits of adding sequenced genomes to transcriptome data sets.
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111
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Whittaker RJ, Fernández-Palacios JM, Matthews TJ, Borregaard MK, Triantis KA. Island biogeography: Taking the long view of nature’s laboratories. Science 2017; 357:357/6354/eaam8326. [DOI: 10.1126/science.aam8326] [Citation(s) in RCA: 264] [Impact Index Per Article: 37.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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112
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Marroquin-Flores RA, Williamson JL, Chavez AN, Bauernfeind SM, Baumann MJ, Gadek CR, Johnson AB, McCullough JM, Witt CC, Barrow LN. Diversity, abundance, and host relationships of avian malaria and related haemosporidians in New Mexico pine forests. PeerJ 2017; 5:e3700. [PMID: 28828279 PMCID: PMC5563434 DOI: 10.7717/peerj.3700] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2017] [Accepted: 07/26/2017] [Indexed: 01/28/2023] Open
Abstract
Avian malaria and related haemosporidian parasites (genera Haemoproteus, Plasmodium, and Leucocytozoon) affect bird demography, species range limits, and community structure, yet they remain unsurveyed in most bird communities and populations. We conducted a community-level survey of these vector-transmitted parasites in New Mexico, USA, to describe their diversity, abundance, and host associations. We focused on the breeding-bird community in the transition zone between piñon-juniper woodland and ponderosa pine forests (elevational range: 2,150–2,460 m). We screened 186 birds representing 49 species using both standard PCR and microscopy techniques to detect infections of all three avian haemosporidian genera. We detected infections in 68 out of 186 birds (36.6%), the highest proportion of which were infected with Haemoproteus (20.9%), followed by Leucocytozoon (13.4%), then Plasmodium (8.0%). We sequenced mtDNA for 77 infections representing 43 haplotypes (25 Haemoproteus, 12 Leucocytozoon, 6 Plasmodium). When compared to all previously known haplotypes in the MalAvi and GenBank databases, 63% (27) of the haplotypes we recovered were novel. We found evidence for host specificity at the avian clade and species level, but this specificity was variable among parasite genera, in that Haemoproteus and Leucocytozoon were each restricted to three avian groups (out of six), while Plasmodium occurred in all groups except non-passerines. We found striking variation in infection rate among host species, with nearly universal infection among vireos and no infection among nuthatches. Using rarefaction and extrapolation, we estimated the total avian haemosporidian diversity to be 70 haplotypes (95% CI [43–98]); thus, we may have already sampled ∼60% of the diversity of avian haemosporidians in New Mexico pine forests. It is possible that future studies will find higher diversity in microhabitats or host species that are under-sampled or unsampled in the present study. Fortunately, this study is fully extendable via voucher specimens, frozen tissues, blood smears, parasite images, and documentation provided in open-access databases (MalAvi, GenBank, and ARCTOS).
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Affiliation(s)
- Rosario A Marroquin-Flores
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Jessie L Williamson
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Andrea N Chavez
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America.,Bureau of Land Management Rio Puerco Field Office, Rio Puerco, NM, United States of America
| | - Selina M Bauernfeind
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Matthew J Baumann
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Chauncey R Gadek
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Andrew B Johnson
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Jenna M McCullough
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Christopher C Witt
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
| | - Lisa N Barrow
- Museum of Southwestern Biology and Department of Biology, University of New Mexico, Albuquerque, NM, United States of America
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113
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Friedman NR, Harmáčková L, Economo EP, Remeš V. Smaller beaks for colder winters: Thermoregulation drives beak size evolution in Australasian songbirds. Evolution 2017; 71:2120-2129. [DOI: 10.1111/evo.13274] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2016] [Accepted: 04/30/2017] [Indexed: 12/28/2022]
Affiliation(s)
- Nicholas R. Friedman
- Department of Zoology and Laboratory of Ornithology; Palacký University; Tř. 17 listopadu 50 Olomouc 77900 Czech Republic
- Okinawa Institute of Science and Technology Graduate University; 1919-1 Tancha Onna-son 904-0495 Okinawa Japan
| | - Lenka Harmáčková
- Department of Zoology and Laboratory of Ornithology; Palacký University; Tř. 17 listopadu 50 Olomouc 77900 Czech Republic
| | - Evan P. Economo
- Okinawa Institute of Science and Technology Graduate University; 1919-1 Tancha Onna-son 904-0495 Okinawa Japan
| | - Vladimír Remeš
- Department of Zoology and Laboratory of Ornithology; Palacký University; Tř. 17 listopadu 50 Olomouc 77900 Czech Republic
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114
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Smith EK, O'Neill JJ, Gerson AR, McKechnie AE, Wolf BO. Avian thermoregulation in the heat: resting metabolism, evaporative cooling and heat tolerance in Sonoran Desert songbirds. ACTA ACUST UNITED AC 2017; 220:3290-3300. [PMID: 28684465 DOI: 10.1242/jeb.161141] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2017] [Accepted: 07/04/2017] [Indexed: 11/20/2022]
Abstract
We examined thermoregulatory performance in seven Sonoran Desert passerine bird species varying in body mass from 10 to 70 g - lesser goldfinch, house finch, pyrrhuloxia, cactus wren, northern cardinal, Abert's towhee and curve-billed thrasher. Using flow-through respirometry, we measured daytime resting metabolism, evaporative water loss and body temperature at air temperatures (Tair) between 30 and 52°C. We found marked increases in resting metabolism above the upper critical temperature (Tuc), which for six of the seven species fell within a relatively narrow range (36.2-39.7°C), but which was considerably higher in the largest species, the curve-billed thrasher (42.6°C). Resting metabolism and evaporative water loss were minimal below the Tuc and increased with Tair and body mass to maximum values among species of 0.38-1.62 W and 0.87-4.02 g H2O h-1, respectively. Body temperature reached maximum values ranging from 43.5 to 45.3°C. Evaporative cooling capacity, the ratio of evaporative heat loss to metabolic heat production, reached maximum values ranging from 1.39 to 2.06, consistent with known values for passeriforms and much lower than values in taxa such as columbiforms and caprimulgiforms. These maximum values occurred at heat tolerance limits that did not scale with body mass among species, but were ∼50°C for all species except the pyrrhuloxia and Abert's towhee (48°C). High metabolic costs associated with respiratory evaporation appeared to drive the limited heat tolerance in these desert passeriforms, compared with larger desert columbiforms and galliforms that use metabolically more efficient mechanisms of evaporative heat loss.
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Affiliation(s)
- Eric Krabbe Smith
- Department of Biology, University of New Mexico, Albuquerque, NM 87131, USA
| | | | - Alexander R Gerson
- Department of Biology, University of New Mexico, Albuquerque, NM 87131, USA.,Department of Biology, University of Massachusetts, Amherst, MA 01003, USA
| | - Andrew E McKechnie
- DST-NRF Centre of Excellence at the Percy FitzPatrick Institute, Department of Zoology and Entomology, University of Pretoria, Pretoria 0002, South Africa
| | - Blair O Wolf
- Department of Biology, University of New Mexico, Albuquerque, NM 87131, USA
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115
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Corlett RT. Frugivory and seed dispersal by vertebrates in tropical and subtropical Asia: An update. Glob Ecol Conserv 2017. [DOI: 10.1016/j.gecco.2017.04.007] [Citation(s) in RCA: 105] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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116
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Selvatti AP, Galvão A, Pereira AG, Pedreira Gonzaga L, Russo CADM. An African Origin of the Eurylaimides (Passeriformes) and the Successful Diversification of the Ground-Foraging Pittas (Pittidae). Mol Biol Evol 2017; 34:483-499. [PMID: 28069777 DOI: 10.1093/molbev/msw250] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023] Open
Abstract
The Eurylaimides is one of the few passerine groups with a pantropical distribution. In this study, we generated a multi-calibrated tree with 83% of eurylaimid species diversity based on 30 molecular loci. Particular attention was given to the monotypic Sapayoidae to reconstruct the biogeography of this radiation. We conducted several topological tests including nonoverlapping subsampling of the concatenated alignment and coalescent species tree reconstruction. These tests firmly placed the South American Sapayoidae as the sister group to all other Eurylaimides families (split at ∼28 Ma), with increasing branch support as highly variable sites were removed. This topology is consistent with the breakup of the insular connection between Africa and South America (Atlantogea) that took place between the middle Eocene and the early Oligocene. We recovered Africa as the cradle of the core Eurylaimides, and this result is supported by all African lineages corresponding to the oldest splits within each family in this group. Our timescale suggests that desertification and the uplift of the Tibetan Plateau caused a parallel divergence between African and Asian lineages in all major clades in the core Eurylaimides at 22-9 Ma. We also propose that the ground-foraging behavior in the Pittidae ancestor allowed the pitta lineage to thrive and coexist with the older arboreal lineages of the core Eurylaimides. In contrast, the diversification of pittas in Australia was likely hindered by direct competition with the endemic ground-foraging oscines that had been well established in that continent since the Eocene.
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Affiliation(s)
- Alexandre Pedro Selvatti
- Departamento de Genética, Universidade Federal do Rio de Janeiro, Instituto de Biologia, Rio de Janeiro, RJ, Brazil
| | - Ana Galvão
- Departamento de Zoologia, Instituto de Biologia, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, Brazil
| | - Anieli Guirro Pereira
- Departamento de Genética, Universidade Federal do Rio de Janeiro, Instituto de Biologia, Rio de Janeiro, RJ, Brazil
| | - Luiz Pedreira Gonzaga
- Departamento de Zoologia, Instituto de Biologia, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, Brazil
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Andersen MJ, Manthey JD, Naikatini A, Moyle RG. Conservation genomics of the silktail (Aves: Lamprolia victoriae) suggests the need for increased protection of native forest on the Natewa Peninsula, Fiji. CONSERV GENET 2017. [DOI: 10.1007/s10592-017-0979-x] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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118
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McKechnie AE, Gerson AR, McWhorter TJ, Smith EK, Talbot WA, Wolf BO. Avian thermoregulation in the heat: evaporative cooling in five Australian passerines reveals within-order biogeographic variation in heat tolerance. ACTA ACUST UNITED AC 2017; 220:2436-2444. [PMID: 28455441 DOI: 10.1242/jeb.155507] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2016] [Accepted: 04/20/2017] [Indexed: 11/20/2022]
Abstract
Evaporative heat loss pathways vary among avian orders, but the extent to which evaporative cooling capacity and heat tolerance vary within orders remains unclear. We quantified the upper limits to thermoregulation under extremely hot conditions in five Australian passerines: yellow-plumed honeyeater (Lichenostomus ornatus; ∼17 g), spiny-cheeked honeyeater (Acanthagenys rufogularis; ∼42 g), chestnut-crowned babbler (Pomatostomus ruficeps; ∼52 g), grey butcherbird (Cracticus torquatus; ∼86 g) and apostlebird (Struthidea cinerea; ∼118 g). At air temperatures (Ta) exceeding body temperature (Tb), all five species showed increases in Tb to maximum values around 44-45°C, accompanied by rapid increases in resting metabolic rate above clearly defined upper critical limits of thermoneutrality and increases in evaporative water loss (EWL) to levels equivalent to 670-860% of baseline rates at thermoneutral Ta Maximum cooling capacity, quantified as the fraction of metabolic heat production dissipated evaporatively, ranged from 1.20 to 2.17, consistent with the known range for passerines, and well below the corresponding ranges for columbids and caprimulgids. Heat tolerance limit (HTL, the maximum Ta tolerated) scaled positively with body mass, varying from 46°C in yellow-plumed honeyeaters to 52°C in a single apostlebird, but was lower than that of three southern African ploceid passerines investigated previously. We argue this difference is functionally linked to a smaller scope for increases in EWL above baseline levels. Our data reiterate the reliance of passerines in general on respiratory evaporative heat loss via panting, but also reveal substantial within-order variation in heat tolerance and evaporative cooling capacity.
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Affiliation(s)
- Andrew E McKechnie
- DST-NRF Centre of Excellence at the Percy FitzPatrick Institute, Department of Zoology and Entomology, University of Pretoria, Private Bag X20, Hatfield 0028, South Africa
| | - Alexander R Gerson
- Department of Biology, University of Massachusetts, Amherst, MA 01003, USA
| | - Todd J McWhorter
- School of Animal & Veterinary Sciences, University of Adelaide, Roseworthy Campus, Roseworthy, SA 5371, Australia
| | - Eric Krabbe Smith
- UNM Biology Department, University of New Mexico, MSC03-2020, Albuquerque, NM 87131-0001, USA
| | - William A Talbot
- UNM Biology Department, University of New Mexico, MSC03-2020, Albuquerque, NM 87131-0001, USA
| | - Blair O Wolf
- UNM Biology Department, University of New Mexico, MSC03-2020, Albuquerque, NM 87131-0001, USA
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Worthy TH, De Pietri VL, Scofield RP. Recent advances in avian palaeobiology in New Zealand with implications for understanding New Zealand’s geological, climatic and evolutionary histories. NEW ZEALAND JOURNAL OF ZOOLOGY 2017. [DOI: 10.1080/03014223.2017.1307235] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Trevor H. Worthy
- School of Biological Sciences, Flinders University of South Australia, GPO 2100, Adelaide 5001, South Australia
| | - Vanesa L. De Pietri
- Natural History Department, Canterbury Museum, Rolleston Avenue, Christchurch 8013, New Zealand
| | - R. Paul Scofield
- Natural History Department, Canterbury Museum, Rolleston Avenue, Christchurch 8013, New Zealand
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120
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De Silva TN, Peterson AT, Bates JM, Fernando SW, Girard MG. Phylogenetic relationships of weaverbirds (Aves: Ploceidae): A first robust phylogeny based on mitochondrial and nuclear markers. Mol Phylogenet Evol 2017; 109:21-32. [DOI: 10.1016/j.ympev.2016.12.013] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2016] [Revised: 11/21/2016] [Accepted: 12/09/2016] [Indexed: 10/20/2022]
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Fernando SW, Peterson AT, Li SH. Reconstructing the geographic origin of the New World jays. NEOTROPICAL BIODIVERSITY 2017. [DOI: 10.1080/23766808.2017.1296751] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Affiliation(s)
- Sumudu W. Fernando
- Biodiversity Institute and Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS, USA
| | - A. Townsend Peterson
- Biodiversity Institute and Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS, USA
| | - Shou-Hsien Li
- Department of Life Science, National Taiwan Normal University, Taipei, Taiwan
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122
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Cibois A, Thibault JC, Bonillo C, Filardi CE, Pasquet E. Phylogeny and biogeography of the imperial pigeons (Aves: Columbidae) in the Pacific Ocean. Mol Phylogenet Evol 2017; 110:19-26. [PMID: 28249741 DOI: 10.1016/j.ympev.2017.02.016] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2016] [Revised: 02/16/2017] [Accepted: 02/24/2017] [Indexed: 11/28/2022]
Abstract
We reconstruct the phylogeny of imperial pigeons (genus Ducula) using mitochondrial and nuclear sequence data. We evaluate the most likely biogeographic scenario for the evolution of this group that colonized many islands of the Pacific Ocean. The divergence time analysis suggests that the basal divergences within Ducula occurred more recently than in the fruit doves (genus Ptilinopus), a group that is also well diversified in Oceania. The imperial pigeons colonized the Melanesian region several times independently, and the diversification within this region led to several species in sympatry, in particular in the Bismarck archipelago. Central Polynesia was also colonized several times, first by a lineage during the Miocene that led to the large D. latrans, sister to the New Caledonian endemic D. goliath, then more recently by the widespread D. pacifica, during the Pleistocene. The phylogenetic pattern obtained with the extant Ducula species showed that the Eastern Polynesian endemics do not form a monophyletic group, with the Pacific Imperial Pigeon D. pacifica sister species with good support to the Polynesian Imperial Pigeon D. aurorae. However, the impact of recent anthropic extinctions has been important for the imperial pigeons, more than for the smaller fruit doves, suggesting that several Ducula lineages might be missing today.
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Affiliation(s)
- Alice Cibois
- Natural History Museum of Geneva, Department of Mammalogy and Ornithology, CP 6434, CH 1211 Geneva 6, Switzerland.
| | - Jean-Claude Thibault
- UMR7205 Institut de Systématique, Evolution, Biodiversité CNRS MNHN UPMC EPHE, Sorbonne Universités, Muséum National d'Histoire Naturelle, CP 51, 57 rue Cuvier, F-75231 Paris Cedex 05, France
| | - Céline Bonillo
- UMR7205 Institut de Systématique, Evolution, Biodiversité CNRS MNHN UPMC EPHE, Sorbonne Universités, Muséum National d'Histoire Naturelle, CP 51, 57 rue Cuvier, F-75231 Paris Cedex 05, France; UMS MNHN/CNRS 2700 Outils et Méthodes de la Systématique Intégrative (OMSI), Muséum National d'Histoire Naturelle, CP 26, 57 rue Cuvier, F-75231 Paris Cedex 05, France
| | | | - Eric Pasquet
- UMR7205 Institut de Systématique, Evolution, Biodiversité CNRS MNHN UPMC EPHE, Sorbonne Universités, Muséum National d'Histoire Naturelle, CP 51, 57 rue Cuvier, F-75231 Paris Cedex 05, France; UMS MNHN/CNRS 2700 Outils et Méthodes de la Systématique Intégrative (OMSI), Muséum National d'Histoire Naturelle, CP 26, 57 rue Cuvier, F-75231 Paris Cedex 05, France
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Alexander AM, Su Y, Oliveros CH, Olson KV, Travers SL, Brown RM. Genomic data reveals potential for hybridization, introgression, and incomplete lineage sorting to confound phylogenetic relationships in an adaptive radiation of narrow‐mouth frogs. Evolution 2016; 71:475-488. [DOI: 10.1111/evo.13133] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2015] [Accepted: 11/07/2016] [Indexed: 12/30/2022]
Affiliation(s)
| | - Yong‐Chao Su
- Biodiversity Institute University of Kansas Lawrence Kansas 66045
- Department of Biological Sciences National University of Singapore 117543 Singapore
| | - Carl H. Oliveros
- Biodiversity Institute University of Kansas Lawrence Kansas 66045
- Department of Biological Sciences Louisiana State University Baton Rouge Louisiana 70803
| | - Karen V. Olson
- Biodiversity Institute University of Kansas Lawrence Kansas 66045
| | - Scott L. Travers
- Biodiversity Institute University of Kansas Lawrence Kansas 66045
| | - Rafe M. Brown
- Biodiversity Institute University of Kansas Lawrence Kansas 66045
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