1
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Horreo JL, Ucero A, Palacín C, López‐Solano A, Abril‐Colón I, Alonso JC. Human decimation caused bottleneck effect, genetic drift, and inbreeding in the Canarian houbara bustard. J Wildl Manage 2022. [DOI: 10.1002/jwmg.22342] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Jose L. Horreo
- Department of Genetics, Physiology and Microbiology Universidad Complutense Madrid Spain
| | - Alberto Ucero
- Department of Evolutionary Ecology Museo Nacional de Ciencias Naturales (CSIC) Madrid Spain
| | - Carlos Palacín
- Department of Evolutionary Ecology Museo Nacional de Ciencias Naturales (CSIC) Madrid Spain
| | - Alfonso López‐Solano
- Department of Biodiversity and Evolutionary Biology Museo Nacional de Ciencias Naturales (CSIC) Madrid Spain
| | - Inmaculada Abril‐Colón
- Department of Evolutionary Ecology Museo Nacional de Ciencias Naturales (CSIC) Madrid Spain
| | - Juan C. Alonso
- Department of Evolutionary Ecology Museo Nacional de Ciencias Naturales (CSIC) Madrid Spain
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2
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Sangster G, Luksenburg JA, Päckert M, Roselaar CS, Irestedt M, Ericson PGP. Integrative taxonomy documents two additional cryptic
Erithacus
species on the Canary Islands (Aves). ZOOL SCR 2022. [DOI: 10.1111/zsc.12561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- George Sangster
- Naturalis Biodiversity Center Leiden The Netherlands
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
| | - Jolanda A. Luksenburg
- Institute of Environmental Sciences Leiden University Leiden The Netherlands
- Department of Environmental Science and Policy George Mason University Fairfax Virginia USA
| | - Martin Päckert
- Senckenberg Natural History Collections Dresden Dresden Germany
| | | | - Martin Irestedt
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
| | - Per G. P. Ericson
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
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3
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Pârâu LG, Wink M. Common patterns in the molecular phylogeography of western palearctic birds: a comprehensive review. JOURNAL OF ORNITHOLOGY 2021; 162:937-959. [PMID: 34007780 PMCID: PMC8118378 DOI: 10.1007/s10336-021-01893-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/03/2020] [Revised: 04/26/2021] [Accepted: 05/02/2021] [Indexed: 06/12/2023]
Abstract
UNLABELLED A plethora of studies have offered crucial insights in the phylogeographic status of Western Palearctic bird species. However, an overview integrating all this information and analyzing the combined results is still missing. In this study, we compiled all published peer-reviewed and grey literature available on the phylogeography of Western Palearctic bird species. Our literature review indicates a total number of 198 studies, with the overwhelming majority published as journal articles (n = 186). In total, these literature items offer information on 145 bird species. 85 of these species are characterized by low genetic differentiation, 46 species indicate genetic variation but no geographic structuring i.e. panmixia, while 14 species show geographically distinct lineages and haplotypes. Majority of bird species inhabiting the Western Palearctic display genetic admixture. The glaciation cycles in the past few million years were pivotal factors in shaping this situation: during warm periods many species expanded their distribution range to the north over wide areas of Eurasia; whereas, during ice ages most areas were no longer suitable and species retreated to refugia, where lineages mixed. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s10336-021-01893-x.
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Affiliation(s)
- Liviu G. Pârâu
- Institute of Pharmacy and Molecular Biotechnology, Department Biology, Heidelberg University, Im Neuenheimer Feld 364, 4 OG, Heidelberg, Germany
- Present Address: SARS-CoV-2 Data Evaluation Office, Eurofins Genomics Europe Applied Genomics GmbH, Anzinger Straße 7a, 85560 Ebersberg, Germany
| | - Michael Wink
- Institute of Pharmacy and Molecular Biotechnology, Department Biology, Heidelberg University, Im Neuenheimer Feld 364, 4 OG, Heidelberg, Germany
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4
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Rutschmann S, Detering H, Simon S, Funk DH, Gattolliat JL, Hughes SJ, Raposeiro PM, DeSalle R, Sartori M, Monaghan MT. Colonization and diversification of aquatic insects on three Macaronesian archipelagos using 59 nuclear loci derived from a draft genome. Mol Phylogenet Evol 2016; 107:27-38. [PMID: 27742475 DOI: 10.1016/j.ympev.2016.10.007] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2016] [Revised: 09/23/2016] [Accepted: 10/10/2016] [Indexed: 12/20/2022]
Abstract
The study of processes driving diversification requires a fully sampled and well resolved phylogeny, although a lack of phylogenetic markers remains a limitation for many non-model groups. Multilocus approaches to the study of recent diversification provide a powerful means to study the evolutionary process, but their application remains restricted because multiple unlinked loci with suitable variation for phylogenetic or coalescent analysis are not available for most non-model taxa. Here we identify novel, putative single-copy nuclear DNA (nDNA) phylogenetic markers to study the colonization and diversification of an aquatic insect species complex, Cloeon dipterum L. 1761 (Ephemeroptera: Baetidae), in Macaronesia. Whole-genome sequencing data from one member of the species complex were used to identify 59 nDNA loci (32,213 base pairs), followed by Sanger sequencing of 29 individuals sampled from 13 islands of three Macaronesian archipelagos. Multispecies coalescent analyses established six putative species. Three island species formed a monophyletic clade, with one species occurring on the Azores, Europe and North America. Ancestral state reconstruction indicated at least two colonization events from the mainland (to the Canaries, respectively Azores) and one within the archipelago (between Madeira and the Canaries). Random subsets of the 59 loci showed a positive linear relationship between number of loci and node support. In contrast, node support in the multispecies coalescent tree was negatively correlated with mean number of phylogenetically informative sites per locus, suggesting a complex relationship between tree resolution and marker variability. Our approach highlights the value of combining genomics, coalescent-based phylogeography, species delimitation, and phylogenetic reconstruction to resolve recent diversification events in an archipelago species complex.
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Affiliation(s)
- Sereina Rutschmann
- Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB), Müggelseedamm 301, 12587 Berlin, Germany; Berlin Center for Genomics in Biodiversity Research, Königin-Luise-Straße 6-8, 14195 Berlin, Germany; Department of Biochemistry, Genetics and Immunology, University of Vigo, 36310 Vigo, Spain.
| | - Harald Detering
- Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB), Müggelseedamm 301, 12587 Berlin, Germany; Berlin Center for Genomics in Biodiversity Research, Königin-Luise-Straße 6-8, 14195 Berlin, Germany; Department of Biochemistry, Genetics and Immunology, University of Vigo, 36310 Vigo, Spain
| | - Sabrina Simon
- Sackler Institute for Comparative Genomics, American Museum of Natural History, Central Park West and 79th St., New York, NY 10024, USA; Biosystematics Group, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - David H Funk
- Stroud Water Research Center, Avondale, PA 19311, USA
| | - Jean-Luc Gattolliat
- Musée cantonal de zoologie, Palais de Rumine, Place de la Riponne 6, 1014 Lausanne, Switzerland; Department of Ecology and Evolution, Biophore, University of Lausanne, 1015 Lausanne, Switzerland
| | - Samantha J Hughes
- Centro de Investigação e de Tecnologias Agro-Ambientais e Biológicas (CITAB), Universidade de Trás-os-Montes e Alto Douro, Quinta de Prados, Apartado 1013, 5001-801 Vila Real, Portugal
| | - Pedro M Raposeiro
- Research Centre in Biodiversity and Genetic Resources (CIBIO)-Açores and the Biology Department, University of Azores, Rua Mãe de Deus 13A, 9501-855 Ponta Delgada, Portugal
| | - Rob DeSalle
- Sackler Institute for Comparative Genomics, American Museum of Natural History, Central Park West and 79th St., New York, NY 10024, USA
| | - Michel Sartori
- Musée cantonal de zoologie, Palais de Rumine, Place de la Riponne 6, 1014 Lausanne, Switzerland; Department of Ecology and Evolution, Biophore, University of Lausanne, 1015 Lausanne, Switzerland
| | - Michael T Monaghan
- Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB), Müggelseedamm 301, 12587 Berlin, Germany; Berlin Center for Genomics in Biodiversity Research, Königin-Luise-Straße 6-8, 14195 Berlin, Germany
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5
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Carvalho JC, Cardoso P, Rigal F, Triantis KA, Borges PAV. Modeling directional spatio-temporal processes in island biogeography. Ecol Evol 2015; 5:4671-82. [PMID: 26668731 PMCID: PMC4670066 DOI: 10.1002/ece3.1632] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2015] [Revised: 06/28/2015] [Accepted: 07/09/2015] [Indexed: 12/02/2022] Open
Abstract
A key challenge in island biogeography is to quantity the role of dispersal in shaping biodiversity patterns among the islands of a given archipelago. Here, we propose such a framework. Dispersal within oceanic archipelagos may be conceptualized as a spatio‐temporal process dependent on: (1) the spatial distribution of islands, because the probability of successful dispersal is inversely related to the spatial distance between islands and (2) the chronological sequence of island formation that determines the directional asymmetry of dispersal (hypothesized to be predominantly from older to younger islands). From these premises, directional network models may be constructed, representing putative connections among islands. These models may be translated to eigenfunctions in order to be incorporated into statistical analysis. The framework was tested with 12 datasets from the Hawaii, Azores, and Canaries. The explanatory power of directional network models for explaining species composition patterns, assessed by the Jaccard dissimilarity index, was compared with simpler time‐isolation models. The amount of variation explained by the network models ranged from 5.5% (for Coleoptera in Hawaii) to 60.2% (for Pteridophytes in Canary Islands). In relation to the four studied taxa, the variation explained by network models was higher for Pteridophytes in the three archipelagos. By the contrary, small fractions of explained variation were observed for Coleoptera (5.5%) and Araneae (8.6%) in Hawaii. Time‐isolation models were, in general, not statistical significant and explained less variation than the equivalent directional network models for all the datasets. Directional network models provide a way for evaluating the spatio‐temporal signature of species dispersal. The method allows building scenarios against which hypotheses about dispersal within archipelagos may be tested. The new framework may help to uncover the pathways via which species have colonized the islands of a given archipelago and to understand the origins of insular biodiversity.
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Affiliation(s)
- José C Carvalho
- CE3C - Centre for Ecology Evolution and Environmental Changes / Azorean Biodiversity Group and Universidade dos Açores - Departamento de Ciências Agrárias 9700-042 Angra do Heroísmo Açores Portugal ; Department of Biology CBMA - Centre for Molecular and Environmental Biology University of Minho 4710-087 Braga Portugal
| | - Pedro Cardoso
- CE3C - Centre for Ecology Evolution and Environmental Changes / Azorean Biodiversity Group and Universidade dos Açores - Departamento de Ciências Agrárias 9700-042 Angra do Heroísmo Açores Portugal ; Finnish Museum of Natural History University of Helsinki P.O. Box 17, 00014 Helsinki Finland
| | - François Rigal
- CE3C - Centre for Ecology Evolution and Environmental Changes / Azorean Biodiversity Group and Universidade dos Açores - Departamento de Ciências Agrárias 9700-042 Angra do Heroísmo Açores Portugal
| | - Kostas A Triantis
- CE3C - Centre for Ecology Evolution and Environmental Changes / Azorean Biodiversity Group and Universidade dos Açores - Departamento de Ciências Agrárias 9700-042 Angra do Heroísmo Açores Portugal ; Department of Ecology and Taxonomy Faculty of Biology National and Kapodistrian University Athens GR-15784 Greece ; Conservation Biogeography and Macroecology Programme School of Geography and the Environment University of Oxford, South Parks Road Oxford OX1 3QY UK
| | - Paulo A V Borges
- CE3C - Centre for Ecology Evolution and Environmental Changes / Azorean Biodiversity Group and Universidade dos Açores - Departamento de Ciências Agrárias 9700-042 Angra do Heroísmo Açores Portugal
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6
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Stervander M, Illera JC, Kvist L, Barbosa P, Keehnen NP, Pruisscher P, Bensch S, Hansson B. Disentangling the complex evolutionary history of the Western Palearctic blue tits (Cyanistes spp.) - phylogenomic analyses suggest radiation by multiple colonization events and subsequent isolation. Mol Ecol 2015; 24:2477-94. [PMID: 25753616 DOI: 10.1111/mec.13145] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2014] [Revised: 02/20/2015] [Accepted: 02/25/2015] [Indexed: 01/16/2023]
Abstract
Isolated islands and their often unique biota continue to play key roles for understanding the importance of drift, genetic variation and adaptation in the process of population differentiation and speciation. One island system that has inspired and intrigued evolutionary biologists is the blue tit complex (Cyanistes spp.) in Europe and Africa, in particular the complex evolutionary history of the multiple genetically distinct taxa of the Canary Islands. Understanding Afrocanarian colonization events is of particular importance because of recent unconventional suggestions that these island populations acted as source of the widespread population in mainland Africa. We investigated the relationship between mainland and island blue tits using a combination of Sanger sequencing at a population level (20 loci; 12 500 nucleotides) and next-generation sequencing of single population representatives (>3 200 000 nucleotides), analysed in coalescence and phylogenetic frameworks. We found (i) that Afrocanarian blue tits are monophyletic and represent four major clades, (ii) that the blue tit complex has a continental origin and that the Canary Islands were colonized three times, (iii) that all island populations have low genetic variation, indicating low long-term effective population sizes and (iv) that populations on La Palma and in Libya represent relicts of an ancestral North African population. Further, demographic reconstructions revealed (v) that the Canary Islands, conforming to traditional views, hold sink populations, which have not served as source for back colonization of the African mainland. Our study demonstrates the importance of complete taxon sampling and an extensive multimarker study design to obtain robust phylogeographical inferences.
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Affiliation(s)
- Martin Stervander
- Molecular Ecology and Evolution Lab, Department of Biology, Lund University, Ecology Building, 223 62, Lund, Sweden
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7
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Gohli J, Leder EH, Garcia-del-Rey E, Johannessen LE, Johnsen A, Laskemoen T, Popp M, Lifjeld JT. The evolutionary history of Afrocanarian blue tits inferred from genomewide SNPs. Mol Ecol 2014; 24:180-91. [DOI: 10.1111/mec.13008] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2014] [Revised: 11/03/2014] [Accepted: 11/14/2014] [Indexed: 11/27/2022]
Affiliation(s)
- Jostein Gohli
- University Museum of Bergen; P.O. Box 7800 5007 Bergen Norway
| | - Erica H. Leder
- Division of Genetics and Physiology; Department of Biological Sciences; University of Turku; Vesilinnantie 5 20014 Turku Finland
| | - Eduardo Garcia-del-Rey
- Macaronesian Institute of Field Ornithology; C/Enrique Wolfson 11-3 38004 Santa Cruz de Tenerife Spain
| | | | - Arild Johnsen
- Natural History Museum; University of Oslo; P.O. Box 1172 Blindern 0318 Oslo Norway
| | - Terje Laskemoen
- Natural History Museum; University of Oslo; P.O. Box 1172 Blindern 0318 Oslo Norway
| | - Magnus Popp
- Natural History Museum; University of Oslo; P.O. Box 1172 Blindern 0318 Oslo Norway
| | - Jan T. Lifjeld
- Natural History Museum; University of Oslo; P.O. Box 1172 Blindern 0318 Oslo Norway
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8
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Hansson B, Ljungqvist M, Illera JC, Kvist L. Pronounced fixation, strong population differentiation and complex population history in the Canary Islands blue tit subspecies complex. PLoS One 2014; 9:e90186. [PMID: 24587269 PMCID: PMC3937385 DOI: 10.1371/journal.pone.0090186] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2013] [Accepted: 01/30/2014] [Indexed: 11/24/2022] Open
Abstract
Evolutionary molecular studies of island radiations may lead to insights in the role of vicariance, founder events, population size and drift in the processes of population differentiation. We evaluate the degree of population genetic differentiation and fixation of the Canary Islands blue tit subspecies complex using microsatellite markers and aim to get insights in the population history using coalescence based methods. The Canary Island populations were strongly genetically differentiated and had reduced diversity with pronounced fixation including many private alleles. In population structure models, the relationship between the central island populations (La Gomera, Tenerife and Gran Canaria) and El Hierro was difficult to disentangle whereas the two European populations showed consistent clustering, the two eastern islands (Fuerteventura and Lanzarote) and Morocco weak clustering, and La Palma a consistent unique lineage. Coalescence based models suggested that the European mainland forms an outgroup to the Afrocanarian population, a split between the western island group (La Palma and El Hierro) and the central island group, and recent splits between the three central islands, and between the two eastern islands and Morocco, respectively. It is clear that strong genetic drift and low level of concurrent gene flow among populations have shaped complex allelic patterns of fixation and skewed frequencies over the archipelago. However, understanding the population history remains challenging; in particular, the pattern of extreme divergence with low genetic diversity and yet unique genetic material in the Canary Island system requires an explanation. A potential scenario is population contractions of a historically large and genetically variable Afrocanarian population, with vicariance and drift following in the wake. The suggestion from sequence-based analyses of a Pleistocene extinction of a substantial part of North Africa and a Pleistocene/Holocene eastward re-colonisation of western North Africa from the Canaries remains possible.
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Affiliation(s)
- Bengt Hansson
- Department of Biology, Lund University, Lund, Sweden
- * E-mail:
| | | | - Juan-Carlos Illera
- Island Ecology and Evolution Research Group, La Laguna, Tenerife, Spain
- Research Unit of Biodiversity, Oviedo University, Oviedo, Spain
| | - Laura Kvist
- Department of Biology, University of Oulu, Oulu, Finland
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9
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Johansson US, Ekman J, Bowie RC, Halvarsson P, Ohlson JI, Price TD, Ericson PG. A complete multilocus species phylogeny of the tits and chickadees (Aves: Paridae). Mol Phylogenet Evol 2013; 69:852-60. [DOI: 10.1016/j.ympev.2013.06.019] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2013] [Revised: 06/19/2013] [Accepted: 06/25/2013] [Indexed: 11/28/2022]
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10
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Ryan PG, Klicka LB, Barker KF, Burns KJ. The origin of finches on Tristan da Cunha and Gough Island, central South Atlantic ocean. Mol Phylogenet Evol 2013; 69:299-305. [DOI: 10.1016/j.ympev.2013.05.026] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2013] [Revised: 05/23/2013] [Accepted: 05/31/2013] [Indexed: 11/28/2022]
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11
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Pentzold S, Tritsch C, Martens J, Tietze DT, Giacalone G, Valvo ML, Nazarenko AA, Kvist L, Päckert M. Where is the line? Phylogeography and secondary contact of western Palearctic coal tits (Periparus ater: Aves, Passeriformes, Paridae). ZOOL ANZ 2013. [DOI: 10.1016/j.jcz.2012.10.003] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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12
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Return flight to the Canary Islands – The key role of peripheral populations of Afrocanarian blue tits (Aves: Cyanistes teneriffae) in multi-gene reconstructions of colonization pathways. Mol Phylogenet Evol 2013; 67:458-67. [DOI: 10.1016/j.ympev.2013.02.010] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2012] [Revised: 02/04/2013] [Accepted: 02/11/2013] [Indexed: 11/18/2022]
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14
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ILLERA JUANCARLOS, KOIVULA KARI, BROGGI JULI, PÄCKERT MARTIN, MARTENS JOCHEN, KVIST LAURA. A multi-gene approach reveals a complex evolutionary history in the Cyanistes species group. Mol Ecol 2011; 20:4123-39. [DOI: 10.1111/j.1365-294x.2011.05259.x] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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15
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Assessing the ecological basis of conservation priority lists for bird species in an island scenario. J Nat Conserv 2011. [DOI: 10.1016/j.jnc.2010.07.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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16
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Sperm length variation as a predictor of extrapair paternity in passerine birds. PLoS One 2010; 5:e13456. [PMID: 20976147 PMCID: PMC2956655 DOI: 10.1371/journal.pone.0013456] [Citation(s) in RCA: 61] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2010] [Accepted: 09/23/2010] [Indexed: 11/29/2022] Open
Abstract
Background The rate of extrapair paternity is a commonly used index for the risk of sperm competition in birds, but paternity data exist for only a few percent of the approximately 10400 extant species. As paternity analyses require extensive field sampling and costly lab work, species coverage in this field will probably not improve much in the foreseeable future. Recent findings from passerine birds, which constitute the largest avian order (∼5 900 species), suggest that sperm phenotypes carry a signature of sperm competition. Here we examine how well standardized measures of sperm length variation can predict the rate of extrapair paternity in passerine birds. Methodology/Principal Findings We collected sperm samples from 55 passerine species in Canada and Europe for which extrapair paternity rates were already available from either the same (n = 24) or a different (n = 31) study population. We measured the total length of individual spermatozoa and found that both the coefficient of between-male variation (CVbm) and within-male variation (CVwm) in sperm length were strong predictors of the rate of extrapair paternity, explaining as much as 65% and 58%, respectively, of the variation in extrapair paternity among species. However, only the CVbm predictor was independent of phylogeny, which implies that it can readily be converted into a currency of extrapair paternity without the need for phylogenetic correction. Conclusion/Significance We propose the CVbm index as an alternative measure to extrapair paternity for passerine birds. Given the ease of sperm extraction from male birds in breeding condition, and a modest number of sampled males required for a robust estimate, this new index holds a great potential for mapping the risk of sperm competition across a wide range of passerine birds.
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Hansson B, Ljungqvist M, Dawson DA, Mueller JC, Olano-Marin J, Ellegren H, Nilsson JÅ. Avian genome evolution: insights from a linkage map of the blue tit (Cyanistes caeruleus). Heredity (Edinb) 2009; 104:67-78. [DOI: 10.1038/hdy.2009.107] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023] Open
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18
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DIETZEN CHRISTIAN, GARCIA-DEL-REY EDUARDO, CASTRO GUILLERMOD, WINK MICHAEL. Phylogenetic differentiation of Sylvia species (Aves: Passeriformes) of the Atlantic islands (Macaronesia) based on mitochondrial DNA sequence data and morphometrics. Biol J Linn Soc Lond 2008. [DOI: 10.1111/j.1095-8312.2008.01005.x] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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19
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Johnsen A, Fidler AE, Kuhn S, Carter KL, Hoffmann A, Barr IR, Biard C, Charmantier A, Eens M, Korsten P, Siitari H, Tomiuk J, Kempenaers B. Avian Clock gene polymorphism: evidence for a latitudinal cline in allele frequencies. Mol Ecol 2007; 16:4867-80. [PMID: 17927702 DOI: 10.1111/j.1365-294x.2007.03552.x] [Citation(s) in RCA: 102] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Abstract
In comparison with most animal behaviours, circadian rhythms have a well-characterized molecular genetic basis. Detailed studies of circadian clock genes in 'model' organisms provide a foundation for interpreting the functional and evolutionary significance of polymorphic circadian clock genes found within free-living animal populations. Here, we describe allelic variation in a region of the avian Clock orthologue which encodes a functionally significant polyglutamine repeat (ClkpolyQcds), within free-living populations of two passerine birds, the migratory bluethroat (Luscinia svecica) and the predominantly nonmigratory blue tit (Cyanistes caeruleus). Multiple ClkpolyQcds alleles were found within populations of both species (bluethroat: 12 populations, 7 alleles; blue tit: 14 populations, 9 alleles). Some populations of both species were differentiated at the ClkpolyQcds locus as measured by F(ST) and R(ST) values. Among the blue tit, but not bluethroat populations, we found evidence of latitudinal clines in (i) mean ClkpolyQcds repeat length, and (ii) the proportions of three ClkpolyQcds genotype groupings. Parallel analyses of microsatellite allele frequencies, which are considered to reflect selectively neutral processes, indicate that interpopulation allele frequency variation at the ClkpolyQcds and microsatellite loci does not reflect the same underlying demographic processes. The possibility that the observed interpopulation ClkpolyQcds allele frequency variation is, at least in part, maintained by selection for microevolutionary adaptation to photoperiodic parameters correlated with latitude warrants further study.
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Affiliation(s)
- A Johnsen
- Max Planck Institute for Ornithology, Department of Behavioural Ecology & Evolutionary Genetics, D-82305 Seewiesen, Germany
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20
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Illera JC, Emerson BC, Richardson DS. Population history of Berthelot's pipit: colonization, gene flow and morphological divergence in Macaronesia. Mol Ecol 2007; 16:4599-612. [PMID: 17908210 DOI: 10.1111/j.1365-294x.2007.03543.x] [Citation(s) in RCA: 49] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The fauna of oceanic islands provide exceptional models with which to examine patterns of dispersal, isolation and diversification, from incipient speciation to species level radiations. Here, we investigate recent differentiation and microevolutionary change in Berthelot's pipit (Anthus berthelotii), an endemic bird species inhabiting three Atlantic archipelagos. Mitochondrial DNA sequence data and microsatellite markers were used to deduce probable colonization pathway, genetic differentiation, and gene flow among the 12 island populations. Phenotypic differentiation was investigated based on eight biologically important morphological traits. We found little mitochondrial DNA variability, with only one and four haplotypes for the control region and cytochrome b, respectively. However, microsatellite data indicated moderate population differentiation (FST=0.069) between the three archipelagos that were identified as genetically distinct units with limited gene flow. Both results, combined with the estimated time of divergence (2.5 millions years ago) from the Anthus campestris (the sister species), suggest that this species has only recently dispersed throughout these islands. The genetic relationships, patterns of allelic richness and exclusive alleles among populations suggest the species originally colonized the Canary Islands and only later spread from there to the Madeiran archipelago and Selvagen Islands. Differentiation has also occurred within archipelagos, although to a lesser degree. Gene flow was observed more among the eastern and central islands of the Canaries than between these and the western islands or the Madeiran Islands. Morphological differences were also more important between than within archipelagos. Concordance between morphological and genetic differentiation provided ambiguous results suggesting that genetic drift alone was not sufficient to explain phenotypic differentiation. The observed genetic and morphological differences may therefore be the result of differing patterns of selection pressures between populations, with Berthelot's pipit undergoing a process of incipient differentiation.
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Affiliation(s)
- Juan Carlos Illera
- Centre for Ecology, Evolution and Conservation, School of Biological Sciences, University of East Anglia, Norwich NR4 7TJ, UK.
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Dlugosch KM, Parker IM. Molecular and quantitative trait variation across the native range of the invasive speciesHypericum canariense: evidence for ancient patterns of colonization via pre-adaptation? Mol Ecol 2007; 16:4269-83. [PMID: 17850270 DOI: 10.1111/j.1365-294x.2007.03508.x] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
To understand the success of invasive species, it is important to know whether colonization events are facilitated by adaptive evolution or are limited to sites where a species is pre-adapted to thrive. Studies of the ancient colonization patterns of an invader in its native range provide an opportunity to examine its natural history of adaptation and colonization. This study uses molecular (internal transcribed spacer sequence and amplified fragment length polymorphism) and common garden approaches to assess the ancient patterns of establishment and quantitative trait evolution in the invasive shrub Hypericum canariense. This species has an unusually small and discrete native range in the Canary Islands. Our data reveal two genetic varieties with divergent life histories and different colonization patterns across the islands. Although molecular divergence within each variety is large (pairwise FST from 0.18 to 0.32 between islands) and nearly as great as divergence between them, life-history traits show striking uniformity within varieties. The discrepancy between molecular and life-history trait divergence points to the action of stabilizing selection within varieties and the influence of pre-adaptation on patterns of colonization. The colonization history of H. canariense reflects how the relationship between selective environments in founding and source populations can dictate establishment by particular lineages and their subsequent evolutionary stasis or change.
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Affiliation(s)
- K M Dlugosch
- Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA 95064, USA.
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Calibration of a molecular clock in tits (Paridae)—Do nucleotide substitution rates of mitochondrial genes deviate from the 2% rule? Mol Phylogenet Evol 2007; 44:1-14. [DOI: 10.1016/j.ympev.2007.03.006] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2006] [Revised: 12/18/2006] [Accepted: 03/05/2007] [Indexed: 11/18/2022]
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Kirchman JJ, Franklin JD. Comparative phylogeography and genetic structure of Vanuatu birds: control region variation in a rail, a dove, and a passerine. Mol Phylogenet Evol 2006; 43:14-23. [PMID: 17321760 DOI: 10.1016/j.ympev.2006.12.013] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2006] [Revised: 11/30/2006] [Accepted: 12/09/2006] [Indexed: 11/26/2022]
Abstract
We examined variation in mitochondrial control region (Domain I) sequences in three distantly related species of birds found on multiple islands in Vanuatu: the Buff-banded Rail Gallirallus philippensis (n=21, 433bp), the Emerald Dove Chalcophaps indica (n=21, 513bp), and the Streaked Fantail Rhipidura spilodera (n=17, 326bp). Nucleotide and haplotype diversity were similar in all three species and showed little to no geographic structure within Vanuatu. Estimates of demographic parameters, tests for excess rare alleles, and the structure of both haplotype networks and pairwise mismatch distributions support a hypothesis of recent colonization and subsequent expansion in C. indica and R. spilodera but not in G. philippensis. Phylogenetic analyses suggest that G. philippensis samples from Vanuatu are polyphyletic, and further indicate that this species has had a more complex history of colonization than do the other two species. Estimated divergence times of alleles sampled in Vanuatu suggest there may be slight differences among species in the timing of colonization of Vanuatu despite differences in flight ability and presumed dispersal ability. In all three species, current populations probably derive from colonists that arrived several million years after the islands formed. Our comparisons illustrate the potential of direct genetic analyses of to highlight historical differences among co-distributed species with similar levels of phenotypic variation.
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Affiliation(s)
- Jeremy J Kirchman
- Department of Zoology, University of Florida, Gainesville, Florida 32611, USA.
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Salgueiro P, Ruedi M, Coelho MM, Palmeirim JM. Genetic divergence and phylogeography in the genus Nyctalus (Mammalia, Chiroptera): implications for population history of the insular bat Nyctalus azoreum. Genetica 2006; 130:169-81. [PMID: 16941086 DOI: 10.1007/s10709-006-9004-x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2005] [Accepted: 07/13/2006] [Indexed: 10/24/2022]
Abstract
We used three mitochondrial DNA fragments with different substitution rates (ND1, Cyt b and the CR) to infer phylogenetic relationships among six species of the genus Nyctalus, and compare levels of genetic divergence between the insular, vulnerable Nyctalus azoreum and its continental counterpart to assess the origins of the Azorean bat. The larger species found throughout the Palaearctic region (N. lasiopterus, N. aviator and N. noctula) share a unique chromosome formula (2n=42) and form a monophyletic clade in our reconstructions. Nyctalus plancyi (=velutinus), a Chinese taxon with 2n=36 chromosomes, is sometimes included in N. noctula, but is genetically very divergent from the latter and deserves full species status. All Cyt b and CR haplotypes of N. azoreum are closely related and only found in the Azores archipelago, but when compared to continental sequences of N. leisleri, levels of mtDNA divergence are unusually low for mammalian species. This contrasts with the high level of differentiation that N. azoreum has attained in its morphology, ecology, and echolocation calls, suggesting a recent split followed by fast evolutionary change. The molecular data suggest that N. azoreum originated from a European population of N. leisleri, and that the colonisation of the Azores occurred at the end of the Pleistocene. The Madeiran populations of N. leisleri also appear to have a European origin, whereas those of the Canary Islands probably came from North Africa. In spite of its recent origin and low genetic divergence, the Azorean bat is well differentiated and consequently represents a unique evolutionary unit with great conservation value.
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Affiliation(s)
- P Salgueiro
- Centro de Biologia Ambiental/Departamento de Biologia Animal, Faculdade de Ciências da Universidade de Lisboa, 1749-016, Lisboa, Portugal.
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Kvist L. Response to “Taxonomic status of ‘phylogroups’ in the Parus teneriffae complex (Aves)” by George Sangster. Mol Phylogenet Evol 2006. [DOI: 10.1016/j.ympev.2005.10.012] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Sangster G. The taxonomic status of ‘phylogroups’ in the Parus teneriffae complex (Aves): Comments on the paper by Kvist et al. (2005). Mol Phylogenet Evol 2006; 38:288-9; author reply 290. [PMID: 16314112 DOI: 10.1016/j.ympev.2005.10.009] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2005] [Accepted: 10/07/2005] [Indexed: 10/25/2022]
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