1
|
Conklin JR, Verkuil YI, Lefebvre MJM, Battley PF, Bom RA, Gill RE, Hassell CJ, Ten Horn J, Ruthrauff DR, Tibbitts TL, Tomkovich PS, Warnock N, Piersma T, Fontaine MC. High dispersal ability versus migratory traditions: Fine-scale population structure and post-glacial colonisation in bar-tailed godwits. Mol Ecol 2024:e17452. [PMID: 38970373 DOI: 10.1111/mec.17452] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2023] [Revised: 05/15/2024] [Accepted: 05/30/2024] [Indexed: 07/08/2024]
Abstract
In migratory animals, high mobility may reduce population structure through increased dispersal and enable adaptive responses to environmental change, whereas rigid migratory routines predict low dispersal, increased structure, and limited flexibility to respond to change. We explore the global population structure and phylogeographic history of the bar-tailed godwit, Limosa lapponica, a migratory shorebird known for making the longest non-stop flights of any landbird. Using nextRAD sequencing of 14,318 single-nucleotide polymorphisms and scenario-testing in an Approximate Bayesian Computation framework, we infer that bar-tailed godwits existed in two main lineages at the last glacial maximum, when much of their present-day breeding range persisted in a vast, unglaciated Siberian-Beringian refugium, followed by admixture of these lineages in the eastern Palearctic. Subsequently, population structure developed at both longitudinal extremes: in the east, a genetic cline exists across latitude in the Alaska breeding range of subspecies L. l. baueri; in the west, one lineage diversified into three extant subspecies L. l. lapponica, taymyrensis, and yamalensis, the former two of which migrate through previously glaciated western Europe. In the global range of this long-distance migrant, we found evidence of both (1) fidelity to rigid behavioural routines promoting fine-scale geographic population structure (in the east) and (2) flexibility to colonise recently available migratory flyways and non-breeding areas (in the west). Our results suggest that cultural traditions in highly mobile vertebrates can override the expected effects of high dispersal ability on population structure, and provide insights for the evolution and flexibility of some of the world's longest migrations.
Collapse
Affiliation(s)
- Jesse R Conklin
- Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Groningen, The Netherlands
- BirdEyes, Centre for Global Ecological Change at the Faculties of Science & Engineering and Campus Fryslân, University of Groningen, Leeuwarden, The Netherlands
| | - Yvonne I Verkuil
- Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Groningen, The Netherlands
- BirdEyes, Centre for Global Ecological Change at the Faculties of Science & Engineering and Campus Fryslân, University of Groningen, Leeuwarden, The Netherlands
| | | | - Phil F Battley
- Zoology and Ecology Group, School of Food Technology and Natural Sciences, Massey University, Palmerston North, New Zealand
| | - Roeland A Bom
- BirdEyes, Centre for Global Ecological Change at the Faculties of Science & Engineering and Campus Fryslân, University of Groningen, Leeuwarden, The Netherlands
- Department of Coastal Systems, NIOZ Royal Netherlands Institute for Sea Research, Texel, The Netherlands
| | - Robert E Gill
- U.S. Geological Survey, Alaska Science Center, Anchorage, Alaska, USA
| | | | - Job Ten Horn
- Department of Coastal Systems, NIOZ Royal Netherlands Institute for Sea Research, Texel, The Netherlands
| | | | - T Lee Tibbitts
- U.S. Geological Survey, Alaska Science Center, Anchorage, Alaska, USA
| | - Pavel S Tomkovich
- Zoological Museum, Moscow MV Lomonosov State University, Moscow, Russia
| | - Nils Warnock
- Audubon Canyon Ranch, Cypress Grove Research Center, Marshall, California, USA
| | - Theunis Piersma
- Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Groningen, The Netherlands
- BirdEyes, Centre for Global Ecological Change at the Faculties of Science & Engineering and Campus Fryslân, University of Groningen, Leeuwarden, The Netherlands
- Department of Coastal Systems, NIOZ Royal Netherlands Institute for Sea Research, Texel, The Netherlands
| | - Michaël C Fontaine
- MiVEGEC, CNRS, IRD, University of Montpellier, Montpellier, France
- Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Groningen, The Netherlands
| |
Collapse
|
2
|
Caizergues AE, Santangelo JS, Ness RW, Angeoletto F, Anstett DN, Anstett J, Baena-Diaz F, Carlen EJ, Chaves JA, Comerford MS, Dyson K, Falahati-Anbaran M, Fellowes MDE, Hodgins KA, Hood GR, Iñiguez-Armijos C, Kooyers NJ, Lázaro-Lobo A, Moles AT, Munshi-South J, Paule J, Porth IM, Santiago-Rosario LY, Whitney KS, Tack AJM, Johnson MTJ. Does urbanisation lead to parallel demographic shifts across the world in a cosmopolitan plant? Mol Ecol 2024; 33:e17311. [PMID: 38468155 DOI: 10.1111/mec.17311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Revised: 12/08/2023] [Accepted: 01/30/2024] [Indexed: 03/13/2024]
Abstract
Urbanisation is occurring globally, leading to dramatic environmental changes that are altering the ecology and evolution of species. In particular, the expansion of human infrastructure and the loss and fragmentation of natural habitats in cities is predicted to increase genetic drift and reduce gene flow by reducing the size and connectivity of populations. Alternatively, the 'urban facilitation model' suggests that some species will have greater gene flow into and within cities leading to higher diversity and lower differentiation in urban populations. These alternative hypotheses have not been contrasted across multiple cities. Here, we used the genomic data from the GLobal Urban Evolution project (GLUE), to study the effects of urbanisation on non-adaptive evolutionary processes of white clover (Trifolium repens) at a global scale. We found that white clover populations presented high genetic diversity and no evidence of reduced Ne linked to urbanisation. On the contrary, we found that urban populations were less likely to experience a recent decrease in effective population size than rural ones. In addition, we found little genetic structure among populations both globally and between urban and rural populations, which showed extensive gene flow between habitats. Interestingly, white clover displayed overall higher gene flow within urban areas than within rural habitats. Our study provides the largest comprehensive test of the demographic effects of urbanisation. Our results contrast with the common perception that heavily altered and fragmented urban environments will reduce the effective population size and genetic diversity of populations and contribute to their isolation.
Collapse
Affiliation(s)
- Aude E Caizergues
- Centre for Urban Environments, University of Toronto Mississauga, Mississauga, Ontario, Canada
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
| | - James S Santangelo
- Department of Integrative Biology, University of California Berkeley, Berkeley, California, USA
| | - Rob W Ness
- Centre for Urban Environments, University of Toronto Mississauga, Mississauga, Ontario, Canada
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
| | - Fabio Angeoletto
- Programa de Pós-Graduação em Gestão e Tecnologia Ambiental da Universidade Federal de Rondonópolis, Rondonópolis, Brasil
| | - Daniel N Anstett
- Department of Plant Biology, Department of Entomology, Plant Resilience Institute, Michigan State University, East Lansing, Michigan, USA
| | - Julia Anstett
- Genomic Sciences and Technology Program, University of British Columbia, Vancouver, British Columbia, Canada
- Department of Microbiology and Immunology, University of British Columbia, Vancouver, British Columbia, Canada
| | | | - Elizabeth J Carlen
- Living Earth Collaborative, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Jaime A Chaves
- Universidad San Francisco de Quito, Ecuador, Quito
- San Francisco State University, San Francisco, California, USA
| | - Mattheau S Comerford
- Department of Biology, University of Massachusetts Boston, Boston, Massachusetts, USA
| | | | | | | | - Kathryn A Hodgins
- School of Biological Sciences, Monash University, Melbourne, Victoria, Australia
| | - Glen Ray Hood
- Department of Biological Sciences, Wayne State University, Detroit, Michigan, USA
| | - Carlos Iñiguez-Armijos
- Laboratorio de Ecología Tropical y Servicios Ecosistémicos (EcoSs-Lab), Universidad Técnica Particular de Loja, Loja, Ecuador
| | | | - Adrián Lázaro-Lobo
- Biodiversity Research Institute (IMIB), CSIC-University of Oviedo-Principality of Asturias, Mieres, Spain
| | - Angela T Moles
- Evolution & Ecology Research Centre, UNSW-University of New South Wales, Sydney, New South Wales, Australia
| | - Jason Munshi-South
- Department of Biology and Louis Calder Center, Fordham University, New York City, New York, USA
| | - Juraj Paule
- Botanischer Garten und Botanisches Museum Berlin, Freie Universität Berlin, Berlin, Germany
| | - Ilga M Porth
- Institut de biologie intégrative et des systèmes, Université Laval, Quebec City, Quebec, Canada
| | - Luis Y Santiago-Rosario
- Department of Ecology, Evolution and Behavior, University of Minnesota, St. Paul, Minnesota, USA
| | - Kaitlin Stack Whitney
- Science, Technology & Society Department, Rochester Institute of Technology, Rochester, New York, USA
| | - Ayko J M Tack
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, Sweden
| | - Marc T J Johnson
- Centre for Urban Environments, University of Toronto Mississauga, Mississauga, Ontario, Canada
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
| |
Collapse
|
3
|
Medina I, Dong C, Marquez R, Perez DM, Wang IJ, Stuart-Fox D. Anti-predator defences are linked with high levels of genetic differentiation in frogs. Proc Biol Sci 2024; 291:20232292. [PMID: 38264783 PMCID: PMC10806439 DOI: 10.1098/rspb.2023.2292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Accepted: 12/13/2023] [Indexed: 01/25/2024] Open
Abstract
Predator-prey interactions have been suggested as drivers of diversity in different lineages, and the presence of anti-predator defences in some clades is linked to higher rates of diversification. Warning signals are some of the most widespread defences in the animal world, and there is evidence of higher diversification rates in aposematic lineages. The mechanisms behind such species richness, however, are still unclear. Here, we test whether lineages that use aposematism as anti-predator defence exhibit higher levels of genetic differentiation between populations, leading to increased opportunities for divergence. We collated from the literature more than 3000 pairwise genetic differentiation values across more than 700 populations from over 60 amphibian species. We find evidence that over short geographical distances, populations of species of aposematic lineages exhibit greater genetic divergence relative to species that are not aposematic. Our results support a scenario where the use of warning signals could restrict gene flow, and suggest that anti-predator defences could impact divergence between populations and potentially have effects at a macro-evolutionary scale.
Collapse
Affiliation(s)
- Iliana Medina
- School of BioSciences, University of Melbourne, Melbourne 3010, Australia
| | - Caroline Dong
- School of BioSciences, University of Melbourne, Melbourne 3010, Australia
- Department of Ecology and Evolutionary Biology, Tulane University, New Orleans, LA 70115, USA
| | - Roberto Marquez
- Department of Ecology and Evolutionary Biology and Michigan Society of Fellows, University of Michigan, Ann Arbor, MI 48109, USA
| | - Daniela M. Perez
- Max Plank Institute of Animal Behaviour, 78464 Konstanz, Germany
| | - Ian J. Wang
- Department of Environmental Science, Policy, and Management, Rausser College of Natural Resources, University of California, Berkeley, CA 94720, USA
| | - Devi Stuart-Fox
- School of BioSciences, University of Melbourne, Melbourne 3010, Australia
| |
Collapse
|
4
|
Beninde J, Wittische J, Frantz AC. Quantifying uncertainty in inferences of landscape genetic resistance due to choice of individual-based genetic distance metric. Mol Ecol Resour 2024; 24:e13831. [PMID: 37475166 DOI: 10.1111/1755-0998.13831] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2021] [Revised: 05/12/2023] [Accepted: 06/22/2023] [Indexed: 07/22/2023]
Abstract
Estimates of gene flow resulting from landscape resistance inferences frequently inform conservation management decision-making processes. Therefore, results must be robust across approaches and reflect real-world gene flow instead of methodological artefacts. Here, we tested the impact of 32 individual-based genetic distance metrics on the robustness and accuracy of landscape resistance modelling results. We analysed three empirical microsatellite datasets and 36 simulated datasets that varied in landscape resistance and genetic spatial autocorrelation. We used ResistanceGA to generate optimised multi-feature resistance surfaces for each of these datasets using 32 different genetic distance metrics. Results of the empirical dataset demonstrated that the choice of genetic distance metric can have strong impacts on inferred optimised resistance surfaces. Simulations showed accurate parametrisation of resistance surfaces across most genetic distance metrics only when a small number of environmental features was impacting gene flow. Landscape scenarios with many features impacting gene flow led to a generally poor recovery of true resistance surfaces. Simulation results also emphasise that choosing a genetic distance metric should not be based on marginal R2 -based model fit. Until more robust methods are available, resistance surfaces can be optimised with different genetic distance metrics and the convergence of results needs to be assessed via pairwise matrix correlations. Based on the results presented here, high correlation coefficients across different genetic distance categories likely indicate accurate inference of true landscape resistance. Most importantly, empirical results should be interpreted with great caution, especially when they appear counter-intuitive in light of the ecology of a species.
Collapse
Affiliation(s)
- Joscha Beninde
- LA Kretz Center for California Conservation Science, Institute of the Environment and Sustainability, University of California, Los Angeles, California, USA
- IUCN WCPA Connectivity Conservation Specialist Group, Gland, Switzerland
- Amsterdam Institute for Life and Environment (A-LIFE), Section Ecology and Evolution, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
| | - Julian Wittische
- Musée National d'Histoire Naturelle, Luxembourg City, Luxembourg
- The Fondation Faune-Flore, Luxembourg City, Luxembourg
| | - Alain C Frantz
- Musée National d'Histoire Naturelle, Luxembourg City, Luxembourg
- The Fondation Faune-Flore, Luxembourg City, Luxembourg
- The University of Sheffield, Sheffield, UK
| |
Collapse
|
5
|
Liu Y, Xu X, Dimitrov D, Pellissier L, Borregaard MK, Shrestha N, Su X, Luo A, Zimmermann NE, Rahbek C, Wang Z. An updated floristic map of the world. Nat Commun 2023; 14:2990. [PMID: 37253755 PMCID: PMC10229591 DOI: 10.1038/s41467-023-38375-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2022] [Accepted: 04/28/2023] [Indexed: 06/01/2023] Open
Abstract
Floristic regions reflect the geographic organization of floras and provide essential tools for biological studies. Previous global floristic regions are generally based on floristic endemism, lacking a phylogenetic consideration that captures floristic evolution. Moreover, the contribution of tectonic dynamics and historical and current climate to the division of floristic regions remains unknown. Here, by integrating global distributions and a phylogeny of 12,664 angiosperm genera, we update global floristic regions and explore their temporal changes. Eight floristic realms and 16 nested sub-realms are identified. The previously-defined Holarctic, Neotropical and Australian realms are recognized, but Paleotropical, Antarctic and Cape realms are not. Most realms have formed since Paleogene. Geographic isolation induced by plate tectonics dominates the formation of floristic realms, while current/historical climate has little contribution. Our study demonstrates the necessity of integrating distributions and phylogenies in regionalizing floristic realms and the interplay of macroevolutionary and paleogeographic processes in shaping regional floras.
Collapse
Affiliation(s)
- Yunpeng Liu
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory of Earth Surface Processes of Ministry of Education, Peking University, 100871, Beijing, China
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen Ø, Denmark
| | - Xiaoting Xu
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory of Earth Surface Processes of Ministry of Education, Peking University, 100871, Beijing, China
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, 610065, Chengdu, Sichuan, China
| | - Dimitar Dimitrov
- Department of Natural History, University Museum of Bergen, University of Bergen, Postbox 7800, 5020, Bergen, Norway
| | - Loic Pellissier
- Landscape Ecology, Institute of Terrestrial Ecosystems, ETH Zurich, 8092, Zurich, Switzerland
- Swiss Federal Research Institute WSL, 8903, Birmensdorf, Switzerland
| | - Michael K Borregaard
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen Ø, Denmark
| | - Nawal Shrestha
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory of Earth Surface Processes of Ministry of Education, Peking University, 100871, Beijing, China
- State Key Laboratory of Grassland Agro-ecosystems, Institute of Innovation Ecology, Lanzhou University, 730000, Lanzhou, China
| | - Xiangyan Su
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory of Earth Surface Processes of Ministry of Education, Peking University, 100871, Beijing, China
- Land Consolidations and Rehabilitation Center, Ministry of Natural Resources, 100035, Beijing, China
| | - Ao Luo
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory of Earth Surface Processes of Ministry of Education, Peking University, 100871, Beijing, China
| | | | - Carsten Rahbek
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory of Earth Surface Processes of Ministry of Education, Peking University, 100871, Beijing, China.
- Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen Ø, Denmark.
- Center for Global Mountain Biodiversity, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100, Copenhagen, Denmark.
- Danish Institute for Advanced Study, University of Southern Denmark, 5230, Odense M, Denmark.
| | - Zhiheng Wang
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory of Earth Surface Processes of Ministry of Education, Peking University, 100871, Beijing, China.
| |
Collapse
|
6
|
Sweet AD, Stanford-Beale D. Thrips (Insecta: Thysanoptera) Associated with Two Species of Live Birds (Cardinalis cardinalis and Zenaida macroua) in Northeast Arkansas. SOUTHEAST NAT 2022. [DOI: 10.1656/058.021.0305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Affiliation(s)
- Andrew D. Sweet
- Department of Biological Sciences, Arkansas State University, Jonesboro, AR 72401
| | | |
Collapse
|
7
|
Sweet AD, Stanford-Beale D. Thrips (Insecta: Thysanoptera) Associated with Two Species of Live Birds (Cardinalis cardinalis and Zenaida macroua) in Northeast Arkansas. SOUTHEAST NAT 2022. [DOI: 10.1656/058.021.0303] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Affiliation(s)
- Andrew D. Sweet
- Department of Biological Sciences, Arkansas State University, Jonesboro, AR 72401
| | | |
Collapse
|
8
|
Manthey JD, Bourgeois Y, Meheretu Y, Boissinot S. Varied diversification patterns and distinct demographic trajectories in Ethiopian montane forest bird (Aves: Passeriformes) populations separated by the Great Rift Valley. Mol Ecol 2022; 31:2664-2678. [PMID: 35239243 DOI: 10.1111/mec.16417] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2020] [Revised: 02/16/2022] [Accepted: 02/21/2022] [Indexed: 11/30/2022]
Abstract
Taxon-specific characteristics and extrinsic climatic and geological forces may both shape population differentiation and speciation. In geographically and taxonomically focused investigations, differentiation may occur synchronously as species respond to the same external conditions. Conversely, when evolution is investigated in taxa with largely varying traits, population differentiation and speciation is complex and shaped by interactions of Earth's template and species-specific traits. As such, it is important to characterize evolutionary histories broadly across the tree of life, especially in geographic regions that are exceptionally diverse and under pressures from human activities such as in biodiversity hotspots. Here, using whole-genome sequencing data, we characterize genomic variation in populations of six Ethiopian Highlands forest bird species separated by a lowland biogeographic barrier, the Great Rift Valley (GRV). In all six species, populations on either side of the GRV exhibited significant but varying levels of genetic differentiation. Species' dispersal ability was negatively correlated with levels of population differentiation. Isolation with migration models indicated varied patterns of population differentiation and connectivity among populations of the focal species. We found that demographic histories-estimated for each individual-varied by both species and population but were consistent between individuals of the same species and sampling region. We found that genomic diversity varied by half an order of magnitude across species, and that this variation could largely be explained by the harmonic mean of effective population size over the past 200,000 years. Overall, we found that even in highly dispersive species like birds, the GRV acts as a substantial biogeographic barrier.
Collapse
|
9
|
Dellinger AS, Paun O, Baar J, Temsch EM, Fernández-Fernández D, Schönenberger J. Population structure in Neotropical plants: integrating pollination biology, topography and climatic niches. Mol Ecol 2022; 31:2264-2280. [PMID: 35175652 PMCID: PMC9310734 DOI: 10.1111/mec.16403] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Revised: 02/10/2022] [Accepted: 02/11/2022] [Indexed: 11/29/2022]
Abstract
Animal pollinators mediate gene flow among plant populations, but in contrast to well‐studied topographic and (Pleistocene) environmental isolating barriers, their impact on population genetic differentiation remains largely unexplored. Comparing how these multifarious factors drive microevolutionary histories is, however, crucial for better resolving macroevolutionary patterns of plant diversification. Here we combined genomic analyses with landscape genetics and niche modelling across six related Neotropical plant species (424 individuals across 33 localities) differing in pollination strategy to test the hypothesis that highly mobile (vertebrate) pollinators more effectively link isolated localities than less mobile (bee) pollinators. We found consistently higher genetic differentiation (FST) among localities of bee‐ than vertebrate‐pollinated species with increasing geographical distance, topographic barriers and historical climatic instability. High admixture among montane populations further suggested relative climatic stability of Neotropical montane forests during the Pleistocene. Overall, our results indicate that pollinators may differentially impact the potential for allopatric speciation, thereby critically influencing diversification histories at macroevolutionary scales.
Collapse
Affiliation(s)
- Agnes S Dellinger
- Department of Botany and Biodiversity Research, University of Vienna, Austria.,Ecology and Evolutionary Biology, University of Colorado, Boulder, USA
| | - Ovidiu Paun
- Department of Botany and Biodiversity Research, University of Vienna, Austria
| | - Juliane Baar
- Department of Botany and Biodiversity Research, University of Vienna, Austria
| | - Eva M Temsch
- Department of Botany and Biodiversity Research, University of Vienna, Austria
| | | | - Jürg Schönenberger
- Department of Botany and Biodiversity Research, University of Vienna, Austria
| |
Collapse
|
10
|
Strong population genetic structure and cryptic diversity in the Florida bonneted bat (Eumops floridanus). CONSERV GENET 2022. [DOI: 10.1007/s10592-022-01432-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
11
|
Singhal S, Colli GR, Grundler MR, Costa GC, Prates I, Rabosky DL. No link between population isolation and speciation rate in squamate reptiles. Proc Natl Acad Sci U S A 2022; 119:e2113388119. [PMID: 35058358 PMCID: PMC8795558 DOI: 10.1073/pnas.2113388119] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Accepted: 11/19/2021] [Indexed: 11/26/2022] Open
Abstract
Rates of species formation vary widely across the tree of life and contribute to massive disparities in species richness among clades. This variation can emerge from differences in metapopulation-level processes that affect the rates at which lineages diverge, persist, and evolve reproductive barriers and ecological differentiation. For example, populations that evolve reproductive barriers quickly should form new species at faster rates than populations that acquire reproductive barriers more slowly. This expectation implicitly links microevolutionary processes (the evolution of populations) and macroevolutionary patterns (the profound disparity in speciation rate across taxa). Here, leveraging extensive field sampling from the Neotropical Cerrado biome in a biogeographically controlled natural experiment, we test the role of an important microevolutionary process-the propensity for population isolation-as a control on speciation rate in lizards and snakes. By quantifying population genomic structure across a set of codistributed taxa with extensive and phylogenetically independent variation in speciation rate, we show that broad-scale patterns of species formation are decoupled from demographic and genetic processes that promote the formation of population isolates. Population isolation is likely a critical stage of speciation for many taxa, but our results suggest that interspecific variability in the propensity for isolation has little influence on speciation rates. These results suggest that other stages of speciation-including the rate at which reproductive barriers evolve and the extent to which newly formed populations persist-are likely to play a larger role than population isolation in controlling speciation rate variation in squamates.
Collapse
Affiliation(s)
- Sonal Singhal
- Department of Biology, California State University, Dominguez Hills, Carson, CA 90747;
| | - Guarino R Colli
- Departamento de Zoologia, Universidade de Brasília, Brasília, Distrito Federal 70910-900, Brazil
| | - Maggie R Grundler
- Department of Environmental Science, Policy, & Management, University of California, Berkeley, CA 94720
- Museum of Vertebrate Zoology, University of California, Berkeley, CA 94720
| | - Gabriel C Costa
- Department of Biology and Environmental Sciences, Auburn University at Montgomery, Montgomery, AL 36117
| | - Ivan Prates
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109
- Museum of Zoology, University of Michigan, Ann Arbor, MI 48109
| | - Daniel L Rabosky
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109;
- Museum of Zoology, University of Michigan, Ann Arbor, MI 48109
| |
Collapse
|
12
|
Azzurro E, Nourigat M, Cohn F, Ben Souissi J, Bernardi G. Right out of the gate: the genomics of Lessepsian invaders in the vicinity of the Suez Canal. Biol Invasions 2021. [DOI: 10.1007/s10530-021-02704-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
AbstractMarine organisms that enter the Mediterranean from the Red Sea via the Suez Canal are known as Lessepsian bioinvaders. In general, genetic studies of Lessepsian fishes have shown little structure between Red Sea and Mediterranean populations. Yet notable exceptions suggest the importance of life-history factors that may influence patterns of spatial genetic variation. In this study, by sampling two invasive fishes with different life histories (the rabbitfish Siganus rivulatus and the filefish Stephanolepis diaspros), we looked at evidence of population structure and selection at the boundary between the Red Sea and the Mediterranean (the Suez Canal), using thousands of molecular markers. Results illustrate two divergent patterns of genetic patterns, with little genetic structure in S. rivulatus and strong population structure in S. diaspros, even at such small spatial scale. We discuss differences in ecological characteristics between the two species to account for such differences. In addition, we report that in the face of both high (S. rivulatus) and low (S. diaspros) gene flow, loci under selection were uncovered, and some protein coding genes were identified as being involved with osmoregulation, which seems to be an important feature of individuals crossing the salinity-variable Suez Canal. The presence of genes under selection in populations near the Suez Canal supports the idea that selection may be active and essential for successful invasions right out of the gate.
Collapse
|
13
|
Gandra M, Assis J, Martins MR, Abecasis D. Reduced Global Genetic Differentiation of Exploited Marine Fish Species. Mol Biol Evol 2021; 38:1402-1412. [PMID: 33290548 PMCID: PMC8042762 DOI: 10.1093/molbev/msaa299] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
Abstract
Knowledge on genetic structure is key to understand species connectivity patterns and to define the spatiotemporal scales over which conservation management plans should be designed and implemented. The distribution of genetic diversity (within and among populations) greatly influences species ability to cope and adapt to environmental changes, ultimately determining their long-term resilience to ecological disturbances. Yet, the drivers shaping connectivity and structure in marine fish populations remain elusive, as are the effects of fishing activities on genetic subdivision. To investigate these questions, we conducted a meta-analysis and compiled genetic differentiation data (FST/ΦST estimates) for more than 170 fish species from over 200 published studies globally distributed. We modeled the effects of multiple life-history traits, distance metrics, and methodological factors on observed population differentiation indices and specifically tested whether any signal arising from different exposure to fishing exploitation could be detected. Although the myriad of variables shaping genetic structure makes it challenging to isolate the influence of single drivers, results showed a significant correlation between commercial importance and genetic structure, with widespread lower population differentiation in commercially exploited species. Moreover, models indicate that variables commonly used as proxy for connectivity, such as larval pelagic duration, might be insufficient, and suggest that deep-sea species may disperse further. Overall, these results contribute to the growing body of knowledge on marine genetic connectivity and suggest a potential effect of commercial fisheries on the homogenization of genetic diversity, highlighting the need for additional research focused on dispersal ecology to ensure long-term sustainability of exploited marine species.
Collapse
Affiliation(s)
- Miguel Gandra
- Centre of Marine Sciences (CCMAR), University of the Algarve, Faro, Portugal
| | - Jorge Assis
- Centre of Marine Sciences (CCMAR), University of the Algarve, Faro, Portugal
| | | | - David Abecasis
- Centre of Marine Sciences (CCMAR), University of the Algarve, Faro, Portugal
| |
Collapse
|
14
|
Cloyed CS, Grady JM, Savage VM, Uyeda JC, Dell AI. The allometry of locomotion. Ecology 2021; 102:e03369. [PMID: 33864262 DOI: 10.1002/ecy.3369] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/05/2020] [Revised: 01/25/2021] [Accepted: 02/22/2021] [Indexed: 11/07/2022]
Abstract
Organismal locomotion mediates ecological interactions and shapes community dynamics. Locomotion is constrained by intrinsic and environmental factors and integrating these factors should clarify how locomotion affects ecology across scales. We extended general theory based on metabolic scaling and biomechanics to predict the scaling of five locomotor performance traits: routine speed, maximum speed, maximum acceleration, minimum powered turn radius, and angular speed. To test these predictions, we used phylogenetically informed analyses of a new database with 884 species and found support for our quantitative predictions. Larger organisms were faster but less maneuverable than smaller organisms. Routine and maximum speeds scaled with body mass to 0.20 and 0.17 powers, respectively, and plateaued at higher body masses, especially for maximum speed. Acceleration was unaffected by body mass. Minimum turn radius scaled to a 0.19 power, and the 95% CI included our theoretical prediction, as we predicted. Maximum angular speed scaled higher than predicted but in the same direction. We observed universal scaling among locomotor modes for routine and maximum speeds but the intercepts varied; flying organisms were faster than those that swam or ran. Acceleration was independent of size in flying and aquatic taxa but decreased with body mass in land animals, possibly due to the risk of injury large, terrestrial organisms face at high speeds and accelerations. Terrestrial mammals inhabiting structurally simple habitats tended to be faster than those in complex habitats. Despite effects of body size, locomotor mode, and habitat complexity, universal scaling of locomotory performance reveals the general ways organisms move across Earth's complex environments.
Collapse
Affiliation(s)
- Carl S Cloyed
- National Great Rivers Research and Education Center, East Alton, Illinois, 62024, USA.,Department of Biology, Washington University of St. Louis, St. Louis, Missouri, 63130, USA.,Dauphin Island Sea Lab, Dauphin Island, Alabama, 36528, USA
| | - John M Grady
- National Great Rivers Research and Education Center, East Alton, Illinois, 62024, USA
| | - Van M Savage
- Department of Biomathematics, David Geffen School of Medicine, University of California, Los Angeles, California, 90024, USA
| | - Josef C Uyeda
- Department of Biological Sciences, Virginia Polytechnic Institute and State University, Blacksburg, Virginia, 24061, USA
| | - Anthony I Dell
- National Great Rivers Research and Education Center, East Alton, Illinois, 62024, USA.,Department of Biology, Washington University of St. Louis, St. Louis, Missouri, 63130, USA
| |
Collapse
|
15
|
Nazareno AG, Knowles LL, Dick CW, Lohmann LG. By Animal, Water, or Wind: Can Dispersal Mode Predict Genetic Connectivity in Riverine Plant Species? FRONTIERS IN PLANT SCIENCE 2021; 12:626405. [PMID: 33643353 PMCID: PMC7907645 DOI: 10.3389/fpls.2021.626405] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2020] [Accepted: 01/06/2021] [Indexed: 05/08/2023]
Abstract
Seed dispersal is crucial to gene flow among plant populations. Although the effects of geographic distance and barriers to gene flow are well studied in many systems, it is unclear how seed dispersal mediates gene flow in conjunction with interacting effects of geographic distance and barriers. To test whether distinct seed dispersal modes (i.e., hydrochory, anemochory, and zoochory) have a consistent effect on the level of genetic connectivity (i.e., gene flow) among populations of riverine plant species, we used unlinked single-nucleotide polymorphisms (SNPs) for eight co-distributed plant species sampled across the Rio Branco, a putative biogeographic barrier in the Amazon basin. We found that animal-dispersed plant species exhibited higher levels of genetic diversity and lack of inbreeding as a result of the stronger genetic connectivity than plant species whose seeds are dispersed by water or wind. Interestingly, our results also indicated that the Rio Branco facilitates gene dispersal for all plant species analyzed, irrespective of their mode of dispersal. Even at a small spatial scale, our findings suggest that ecology rather than geography play a key role in shaping the evolutionary history of plants in the Amazon basin. These results may help improve conservation and management policies in Amazonian riparian forests, where degradation and deforestation rates are high.
Collapse
Affiliation(s)
- Alison G. Nazareno
- Departamentos de Botânica, Universidade de São Paulo, São Paulo, Brazil
- Department of Genetics, Ecology and Evolution, Federal University of Minas Gerais, Belo Horizonte, Brazil
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, United States
- *Correspondence: Alison G. Nazareno,
| | - L. Lacey Knowles
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, United States
| | - Christopher W. Dick
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, United States
- Smithsonian Tropical Research Institute, Panama City, Panama
| | - Lúcia G. Lohmann
- Departamentos de Botânica, Universidade de São Paulo, São Paulo, Brazil
- Lúcia G. Lohmann,
| |
Collapse
|
16
|
Garg KM, Chattopadhyay B. Gene Flow in Volant Vertebrates: Species Biology, Ecology and Climate Change. J Indian Inst Sci 2021; 101:165-176. [PMID: 34155425 PMCID: PMC8207815 DOI: 10.1007/s41745-021-00239-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2021] [Accepted: 05/05/2021] [Indexed: 02/06/2023]
Abstract
Gene flow, the exchange of genetic material between populations is an important biological process, which shapes and maintains biodiversity. The successful movement of individuals between populations depends on multiple factors determined by species biology and the environment. One of the most important factors regulating gene flow is the ability to move, and flight allows individuals to easily move across geographical barriers. Volant vertebrates are found on some of the remotest islands and contribute significantly to the biodiversity and ecosystem. The availability of next-generation sequencing data for non-model animals has substantially improved our understanding of gene flow and its consequences, allowing us to look at fine-scale patterns. However, most of our understanding regarding gene flow comes from the temperate regions and the Neotropics. The lack of studies from species-rich Asia is striking. In this review, we outline the importance of gene flow and the factors affecting gene flow, especially for volant vertebrates. We especially discuss research studies from tropical biomes of South and Southeast Asia, highlight the lacuna in literature and provide an outline for future studies in this species-rich region.
Collapse
Affiliation(s)
- Kritika M. Garg
- grid.418831.70000 0004 0500 991XInstitute of Bioinformatics and Applied Biotechnology, Bengaluru, Karnataka India ,grid.449178.70000 0004 5894 7096Department of Biology, Ashoka University, Sonipat, Haryana India
| | - Balaji Chattopadhyay
- grid.449178.70000 0004 5894 7096Trivedi School of Biosciences, Ashoka University, Sonipat, Haryana India
| |
Collapse
|
17
|
Richardson JL, Michaelides S, Combs M, Djan M, Bisch L, Barrett K, Silveira G, Butler J, Aye TT, Munshi‐South J, DiMatteo M, Brown C, McGreevy TJ. Dispersal ability predicts spatial genetic structure in native mammals persisting across an urbanization gradient. Evol Appl 2021; 14:163-177. [PMID: 33519963 PMCID: PMC7819555 DOI: 10.1111/eva.13133] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2020] [Accepted: 08/17/2020] [Indexed: 01/31/2023] Open
Abstract
As the rate of urbanization continues to increase globally, a growing body of research is emerging that investigates how urbanization shapes the movement-and consequent gene flow-of species in cities. Of particular interest are native species that persist in cities, either as small relict populations or as larger populations of synanthropic species that thrive alongside humans in new urban environments. In this study, we used genomic sequence data (SNPs) and spatially explicit individual-based analyses to directly compare the genetic structure and patterns of gene flow in two small mammals with different dispersal abilities that occupy the same urbanized landscape to evaluate how mobility impacts genetic connectivity. We collected 215 white-footed mice (Peromyscus leucopus) and 380 big brown bats (Eptesicus fuscus) across an urban-to-rural gradient within the Providence, Rhode Island (U.S.A.) metropolitan area (population =1,600,000 people). We found that mice and bats exhibit clear differences in their spatial genetic structure that are consistent with their dispersal abilities, with urbanization having a stronger effect on Peromyscus mice. There were sharp breaks in the genetic structure of mice within the Providence urban core, as well as reduced rates of migration and an increase in inbreeding with more urbanization. In contrast, bats showed very weak genetic structuring across the entire study area, suggesting a near-panmictic gene pool likely due to the ability to disperse by flight. Genetic diversity remained stable for both species across the study region. Mice also exhibited a stronger reduction in gene flow between island and mainland populations than bats. This study represents one of the first to directly compare multiple species within the same urban-to-rural landscape gradient, an important gap to fill for urban ecology and evolution. Moreover, here we document the impacts of dispersal capacity on connectivity for native species that have persisted as the urban landscape matrix expands.
Collapse
Affiliation(s)
| | - Sozos Michaelides
- Department of Natural Resources ScienceUniversity of Rhode IslandKingstonRIUSA
| | - Matthew Combs
- Ecology, Evolution and Environmental Biology DepartmentColumbia UniversityNew YorkNYUSA
| | - Mihajla Djan
- Department of Natural Resources ScienceUniversity of Rhode IslandKingstonRIUSA
- Department of Biology and EcologyFaculty of SciencesUniversity of Novi SadNovi SadSerbia
| | - Lianne Bisch
- Department of BiologyProvidence CollegeProvidenceRIUSA
| | - Kerry Barrett
- Department of BiologyProvidence CollegeProvidenceRIUSA
| | | | - Justin Butler
- Department of BiologyUniversity of RichmondRichmondVAUSA
| | - Than Thar Aye
- Department of BiologyUniversity of RichmondRichmondVAUSA
| | | | - Michael DiMatteo
- State Health LaboratoryRhode Island Department of HealthProvidenceRIUSA
| | - Charles Brown
- Division of Fish & WildlifeRhode Island Department of Environmental ManagementWest KingstonRIUSA
| | - Thomas J. McGreevy
- Department of Natural Resources ScienceUniversity of Rhode IslandKingstonRIUSA
| |
Collapse
|
18
|
Wei X, Huang M, Yue Q, Ma S, Li B, Mu Z, Peng C, Gao W, Liu W, Zheng J, Weng X, Sun X, Zuo Q, Bo S, Yuan X, Zhang W, Yang G, Ding Y, Wang X, Wang T, Hua P, Wang Z. Long-term urbanization impacts the eastern golden frog ( Pelophylax plancyi) in Shanghai City: Demographic history, genetic structure, and implications for amphibian conservation in intensively urbanizing environments. Evol Appl 2021; 14:117-135. [PMID: 33519960 PMCID: PMC7819575 DOI: 10.1111/eva.13156] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2020] [Revised: 10/11/2020] [Accepted: 10/20/2020] [Indexed: 11/29/2022] Open
Abstract
Understanding the mechanisms of how urbanization influences the evolution of native species is vital for urban wildlife ecology and conservation in the Anthropocene. With thousands of years of agriculture-dominated historical urbanization followed by 40 years of intensive and rapid urbanization, Shanghai provides an ideal environment to study how the two-stage urbanization process influences the evolution of indigenous wildlife, especially of anuran species. Therefore, in this study, we used mitochondrial Cyt-b gene, microsatellite (SSR), and single nucleotide polymorphism (SNP) data to evaluate the demographic history and genetic structure of the eastern golden frog (Pelophylax plancyi), by sampling 407 individuals from 15 local populations across Shanghai, China. All local populations experienced bottlenecks during historical urbanization, while the local populations in urban areas maintained comparable contemporary effective population sizes (N e) and genetic diversity with suburban and rural populations. Nevertheless, the rapid modern urbanization has already imposed significant negative effects to the integrity of populations. The 15 local populations were differentiated into eight genetic clusters, showing a spatial distribution pattern consistent with the current urbanization gradient and island-mainland geography. Although moderate gene flow still occurred from the rural peripheral cluster to urban and suburban clusters, population fragmentation was more serious in the urban and suburban populations, where higher urbanization levels within 2-km radius areas showed significant negative relationships to the N e and genetic diversity of local populations. Therefore, to protect urban wildlife with limited dispersal ability, improving conditions in fragmented habitat remnants might be most essential for local populations living in more urbanized areas. Meanwhile, we highlight the need to preserve large unfragmented rural habitats and to construct corridor networks to connect discrete urban habitat remnants for the long-term wildlife conservation in intensively urbanizing environments.
Collapse
Affiliation(s)
- Xu Wei
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Meiling Huang
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Qu Yue
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Shuo Ma
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Ben Li
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Zhiqiang Mu
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Chuan Peng
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Wenxuan Gao
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Wenli Liu
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Jiaxin Zheng
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Xiaodong Weng
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Xiaohui Sun
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Qingqiu Zuo
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Shunqi Bo
- Shanghai Landscaping & City Appearance Administrative BureauShanghai Forestry BureauShanghaiChina
| | - Xiao Yuan
- Shanghai Landscaping & City Appearance Administrative BureauShanghai Forestry BureauShanghaiChina
| | - Wei Zhang
- Natural History Research Centre of Shanghai Natural History MuseumShanghai Science and Technology MuseumShanghaiChina
| | - Gang Yang
- Natural History Research Centre of Shanghai Natural History MuseumShanghai Science and Technology MuseumShanghaiChina
| | - Youzhong Ding
- School of Life SciencesEast China Normal UniversityShanghaiChina
| | - Xiaoming Wang
- School of Life SciencesEast China Normal UniversityShanghaiChina
- Shanghai Science and Technology MuseumShanghaiChina
| | - Tianhou Wang
- School of Life SciencesEast China Normal UniversityShanghaiChina
- Institute of Eco‐ChongmingShanghaiChina
| | - Panyu Hua
- School of Ecological and Environmental SciencesEast China Normal UniversityShanghaiChina
| | - Zhenghuan Wang
- School of Life SciencesEast China Normal UniversityShanghaiChina
- Joint Translational Science and Technology Research InstituteEast China Normal UniversityShanghaiChina
- Yangtze Delta Estuarine Wetland Ecosystem Observation and Research StationMinistry of Education & Shanghai Science and Technology CommitteeShanghaiChina
| |
Collapse
|
19
|
López-Aguirre C, Hand SJ, Koyabu D, Tu VT, Wilson LAB. Phylogeny and foraging behaviour shape modular morphological variation in bat humeri. J Anat 2020; 238:1312-1329. [PMID: 33372711 DOI: 10.1111/joa.13380] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Revised: 11/19/2020] [Accepted: 11/20/2020] [Indexed: 01/18/2023] Open
Abstract
Bats show a remarkable ecological diversity that is reflected both in dietary and foraging guilds (FGs). Cranial ecomorphological adaptations linked to diet have been widely studied in bats, using a variety of anatomical, computational and mathematical approaches. However, foraging-related ecomorphological adaptations and the concordance between cranial and postcranial morphological adaptations remain unexamined in bats and limited to the interpretation of traditional aerodynamic properties of the wing (e.g. wing loading [WL] and aspect ratio [AR]). For this reason, the postcranial ecomorphological diversity in bats and its drivers remain understudied. Using 3D virtual modelling and geometric morphometrics (GMM), we explored the phylogenetic, ecological and biological drivers of humeral morphology in bats, evaluating the presence and magnitude of modularity and integration. To explore decoupled patterns of variation across the bone, we analysed whole-bone shape, diaphyseal and epiphyseal shape. We also tested whether traditional aerodynamic wing traits correlate with humeral shape. By studying 37 species from 20 families (covering all FGs and 85% of dietary guilds), we found similar patterns of variation in whole-bone and diaphyseal shape and unique variation patterns in epiphyseal shape. Phylogeny, diet and FG significantly correlated with shape variation at all levels, whereas size only had a significant effect on epiphyseal morphology. We found a significant phylogenetic signal in all levels of humeral shape. Epiphyseal shape significantly correlated with wing AR. Statistical support for a diaphyseal-epiphyseal modular partition of the humerus suggests a functional partition of shape variability. Our study is the first to show within-structure modular morphological variation in the appendicular skeleton of any living tetrapod. Our results suggest that diaphyseal shape correlates more with phylogeny, whereas epiphyseal shape correlates with diet and FG.
Collapse
Affiliation(s)
- Camilo López-Aguirre
- Earth and Sustainability Science Research Centre, School of Biological, Earth & Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Suzanne J Hand
- Earth and Sustainability Science Research Centre, School of Biological, Earth & Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Daisuke Koyabu
- Jockey Club College of Veterinary Medicine and Life Sciences, City University of Hong Kong, Kowloon, Hong Kong.,Department of Molecular Craniofacial Embryology, Tokyo Medical and Dental University, Tokyo, Japan
| | - Vuong Tan Tu
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology, Hanoi, Vietnam.,Graduate University of Science and Technology, Vietnam Academy of Science and Technology, Hanoi, Vietnam
| | - Laura A B Wilson
- Earth and Sustainability Science Research Centre, School of Biological, Earth & Environmental Sciences, University of New South Wales, Sydney, NSW, Australia.,School of Archaeology & Anthropology, Australian National University, Canberra, ACT, Australia
| |
Collapse
|
20
|
Chiu M, Li B, Nukazawa K, Resh VH, Carvajal T, Watanabe K. Branching networks can have opposing influences on genetic variation in riverine metapopulations. DIVERS DISTRIB 2020. [DOI: 10.1111/ddi.13160] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
Affiliation(s)
- Ming‐Chih Chiu
- Center for Marine Environmental Studies (CMES) Ehime University Matsuyama Ehime Japan
- Institute of Hydrobiology Chinese Academy of Sciences Wuhan China
| | - Bin Li
- Center for Marine Environmental Studies (CMES) Ehime University Matsuyama Ehime Japan
- Institute of Environment and Ecology Shandong Normal University Jinan China
| | - Kei Nukazawa
- Department of Civil and Environmental Engineering University of Miyazaki Miyazaki Japan
| | - Vincent H. Resh
- Department of Environmental Science, Policy & Management University of California Berkeley CA USA
| | - Thaddeus Carvajal
- Center for Marine Environmental Studies (CMES) Ehime University Matsuyama Ehime Japan
| | - Kozo Watanabe
- Center for Marine Environmental Studies (CMES) Ehime University Matsuyama Ehime Japan
| |
Collapse
|
21
|
Major RE, Ewart KM, Portelli DJ, King A, Tsang LR, O’Dwyer T, Carlile N, Haselden C, Bower H, Alquezar‐Planas DE, Johnson RN, Eldridge MDB. Islands within islands: genetic structuring at small spatial scales has implications for long‐term persistence of a threatened species. Anim Conserv 2020. [DOI: 10.1111/acv.12603] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- R. E. Major
- Australian Museum Research Institute Australian Museum Sydney NSW Australia
| | - K. M. Ewart
- Australian Museum Research Institute Australian Museum Sydney NSW Australia
| | - D. J. Portelli
- Department of Environment and Natural Resources Alice Springs NT Australia
| | - A. King
- Australian Museum Research Institute Australian Museum Sydney NSW Australia
| | - L. R. Tsang
- Australian Museum Research Institute Australian Museum Sydney NSW Australia
| | - T. O’Dwyer
- NSW Department of Planning, Industry and Environment Hurstville NSW Australia
| | - N. Carlile
- NSW Department of Planning, Industry and Environment Hurstville NSW Australia
| | - C. Haselden
- Lord Howe Island Board Lord Howe Island NSW Australia
| | - H. Bower
- Lord Howe Island Board Lord Howe Island NSW Australia
| | | | - R. N. Johnson
- Australian Museum Research Institute Australian Museum Sydney NSW Australia
| | - M. D. B. Eldridge
- Australian Museum Research Institute Australian Museum Sydney NSW Australia
| |
Collapse
|
22
|
Gagnaire PA. Comparative genomics approach to evolutionary process connectivity. Evol Appl 2020; 13:1320-1334. [PMID: 32684961 PMCID: PMC7359831 DOI: 10.1111/eva.12978] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2019] [Revised: 04/02/2020] [Accepted: 04/03/2020] [Indexed: 01/01/2023] Open
Abstract
The influence of species life history traits and historical demography on contemporary connectivity is still poorly understood. However, these factors partly determine the evolutionary responses of species to anthropogenic landscape alterations. Genetic connectivity and its evolutionary outcomes depend on a variety of spatially dependent evolutionary processes, such as population structure, local adaptation, genetic admixture, and speciation. Over the last years, population genomic studies have been interrogating these processes with increasing resolution, revealing a large diversity of species responses to spatially structured landscapes. In parallel, multispecies meta-analyses usually based on low-genome coverage data have provided fundamental insights into the ecological determinants of genetic connectivity, such as the influence of key life history traits on population structure. However, comparative studies still lack a thorough integration of macro- and micro-evolutionary scales to fully realize their potential. Here, I present how a comparative genomics framework may provide a deeper understanding of evolutionary process connectivity. This framework relies on coupling the inference of long-term demographic and selective history with an assessment of the contemporary consequences of genetic connectivity. Standardizing this approach across several species occupying the same landscape should help understand how spatial environmental heterogeneity has shaped the diversity of historical and contemporary connectivity patterns in different taxa with contrasted life history traits. I will argue that a reasonable amount of genome sequence data can be sufficient to resolve and connect complex macro- and micro-evolutionary histories. Ultimately, implementing this framework in varied taxonomic groups is expected to improve scientific guidelines for conservation and management policies.
Collapse
|
23
|
D’Urban Jackson J, Bruford MW, Székely T, DaCosta JM, Sorenson MD, Russo IRM, Maher KH, Cruz-López M, Galindo-Espinosa D, Palacios E, De Sucre-Medrano AE, Cavitt J, Pruner R, Morales AL, Gonzalez O, Burke T, Küpper C. Population differentiation and historical demography of the threatened snowy plover Charadrius nivosus (Cassin, 1858). CONSERV GENET 2020. [DOI: 10.1007/s10592-020-01256-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
AbstractDelineating conservation units is a complex and often controversial process that is particularly challenging for highly vagile species. Here, we reassess population genetic structure and identify those populations of highest conservation value in the threatened snowy plover (Charadrius nivosus, Cassin, 1858), a partial migrant shorebird endemic to the Americas. We use four categories of genetic data—mitochondrial DNA (mtDNA), microsatellites, Z-linked and autosomal single nucleotide polymorphisms (SNPs)—to: (1) assess subspecies delineation and examine population structure (2) compare the sensitivity of the different types of genetic data to detect spatial genetic patterns, and (3) reconstruct demographic history of the populations analysed. Delineation of two traditionally recognised subspecies was broadly supported by all data. In addition, microsatellite and SNPs but not mtDNA supported the recognition of Caribbean snowy plovers (C. n. tenuirostris) and Floridian populations (eastern C. n. nivosus) as distinct genetic lineage and deme, respectively. Low migration rates estimated from autosomal SNPs (m < 0.03) reflect a general paucity of exchange between genetic lineages. In contrast, we detected strong unidirectional migration (m = 0.26) from the western into the eastern nivosus deme. Within western nivosus, we found no genetic differentiation between coastal Pacific and inland populations. The correlation between geographic and genetic distances was weak but significant for all genetic data sets. All demes showed signatures of bottlenecks occurring during the past 1000 years. We conclude that at least four snowy plover conservation units are warranted: in addition to subspecies nivosus and occidentalis, a third unit comprises the Caribbean tenuirostris lineage and a fourth unit the distinct eastern nivosus deme.
Collapse
|
24
|
Miles LS, Rivkin LR, Johnson MTJ, Munshi‐South J, Verrelli BC. Gene flow and genetic drift in urban environments. Mol Ecol 2019; 28:4138-4151. [DOI: 10.1111/mec.15221] [Citation(s) in RCA: 88] [Impact Index Per Article: 17.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2019] [Revised: 08/02/2019] [Accepted: 08/13/2019] [Indexed: 01/02/2023]
Affiliation(s)
- Lindsay S. Miles
- Integrative Life Sciences Doctoral Program Virginia Commonwealth University Richmond VA USA
- Department of Biology University of Toronto Mississauga Mississauga ON Canada
| | - L. Ruth Rivkin
- Department of Biology University of Toronto Mississauga Mississauga ON Canada
- Centre for Urban Environments University of Toronto Mississauga Mississauga ON Canada
- Department of Ecology and Evolutionary Biology University of Toronto Toronto ON Canada
| | - Marc T. J. Johnson
- Department of Biology University of Toronto Mississauga Mississauga ON Canada
- Centre for Urban Environments University of Toronto Mississauga Mississauga ON Canada
| | - Jason Munshi‐South
- Louis Calder Center—Biological Field Station Fordham University Armonk NY USA
| | - Brian C. Verrelli
- Center for Life Sciences Education Virginia Commonwealth University Richmond VA USA
| |
Collapse
|
25
|
Gutiérrez‐Pinto N, McCracken KG, Tubaro P, Kopuchian C, Astie A, Cadena CD. Molecular and morphological differentiation among Torrent Duck (
Merganetta armata
) populations in the Andes. ZOOL SCR 2019. [DOI: 10.1111/zsc.12367] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Natalia Gutiérrez‐Pinto
- Laboratorio de Biología Evolutiva de Vertebrados, Departamento de Ciencias Biológicas Universidad de los Andes Bogotá Colombia
- School of Biological Sciences University of Nebraska Lincoln Nebraska
| | - Kevin G. McCracken
- Department of Biology University of Miami Coral Gables Florida
- Department of Marine Biology and Ecology Rosenstiel School of Marine and Atmospheric Sciences Miami Florida
- Institute of Arctic Biology University of Alaska Museum Fairbanks Alaska
- Department of Biology and Wildlife University of Alaska Fairbanks Fairbanks Alaska
| | - Pablo Tubaro
- División Ornitología Museo Argentino de Ciencias Naturales “Bernardino Rivadavia” (MACN ‐ CONICET) Buenos Aires Argentina
| | - Cecilia Kopuchian
- División Ornitología Museo Argentino de Ciencias Naturales “Bernardino Rivadavia” (MACN ‐ CONICET) Buenos Aires Argentina
- Centro de Ecología Aplicada del Litoral (CECOAL‐CONICET) Corrientes Argentina
| | - Andrea Astie
- Instituto Argentino de Investigaciones de las Zonas Áridas (CONICET‐CCT Mendoza) Mendoza Argentina
| | - Carlos Daniel Cadena
- Laboratorio de Biología Evolutiva de Vertebrados, Departamento de Ciencias Biológicas Universidad de los Andes Bogotá Colombia
| |
Collapse
|
26
|
Conservation genetic analysis of a Central-European range-margin population of the yellow-bellied toad (Bombina v. variegata). CONSERV GENET 2019. [DOI: 10.1007/s10592-019-01156-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
|
27
|
Lawrence ER, Benavente JN, Matte JM, Marin K, Wells ZRR, Bernos TA, Krasteva N, Habrich A, Nessel GA, Koumrouyan RA, Fraser DJ. Geo-referenced population-specific microsatellite data across American continents, the MacroPopGen Database. Sci Data 2019; 6:14. [PMID: 30944329 PMCID: PMC6472428 DOI: 10.1038/s41597-019-0024-7] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2018] [Accepted: 02/25/2019] [Indexed: 01/20/2023] Open
Abstract
Population genetic data from nuclear DNA has yet to be synthesized to allow broad scale comparisons of intraspecific diversity versus species diversity. The MacroPopGen database collates and geo-references vertebrate population genetic data across the Americas from 1,308 nuclear microsatellite DNA studies, 897 species, and 9,090 genetically distinct populations where genetic differentiation (FST) was measured. Caribbean populations were particularly distinguished from North, Central, and South American populations, in having higher differentiation (FST = 0.12 vs. 0.07-0.09) and lower mean numbers of alleles (MNA = 4.11 vs. 4.84-5.54). While mammalian populations had lower MNA (4.86) than anadromous fish, reptiles, amphibians, freshwater fish, and birds (5.34-7.81), mean heterozygosity was largely similar across groups (0.57-0.63). Mean FST was consistently lowest in anadromous fishes (0.06) and birds (0.05) relative to all other groups (0.09-0.11). Significant differences in Family/Genera variance among continental regions or taxonomic groups were also observed. MacroPopGen can be used in many future applications including latitudinal analyses, spatial analyses (e.g. central-margin), taxonomic comparisons, regional assessments of anthropogenic impacts on biodiversity, and conservation of wild populations.
Collapse
Affiliation(s)
- Elizabeth R Lawrence
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada.
| | - Javiera N Benavente
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
- School of Environment, University of Auckland, PO Box 92019, Auckland, 1142, New Zealand
| | - Jean-Michel Matte
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
| | - Kia Marin
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
- Golder Associates, 7250, rue du Mile End, 3e étage, Montréal, Québec, H2R 3A4, Canada
| | - Zachery R R Wells
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
- BT Engineering Inc., 100 Craig Henry Drive, Suite 201, Nepean, Ontario, K2G 5W3, Canada
| | - Thaïs A Bernos
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
| | - Nia Krasteva
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
| | - Andrew Habrich
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
- Department of Biology and Centre for Forest-Interdisciplinary Research, University of Winnipeg, Winnipeg, Manitoba, R3B 2E9, Canada
| | - Gabrielle A Nessel
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
| | - Ramela Arax Koumrouyan
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
| | - Dylan J Fraser
- Department of Biology, Concordia University, 7141 Sherbrooke Street W., Montreal, Quebec, H4B 1R6, Canada
| |
Collapse
|
28
|
Igea J, Tanentzap AJ. Multiple macroevolutionary routes to becoming a biodiversity hotspot. SCIENCE ADVANCES 2019; 5:eaau8067. [PMID: 30775437 PMCID: PMC6365113 DOI: 10.1126/sciadv.aau8067] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2018] [Accepted: 12/21/2018] [Indexed: 05/28/2023]
Abstract
Why is species diversity so unevenly distributed across different regions on Earth? Regional differences in biodiversity may stem from differences in rates of speciation and dispersal and colonization times, but these hypotheses have rarely been tested simultaneously at a global scale. Our study reveals the macroevolutionary routes that have generated hotspots of mammal and bird biodiversity by analyzing the tempo and mode of diversification and dispersal within major biogeographic realms. Hotspots in tropical realms had higher rates of speciation, whereas those in temperate realms received more immigrant species from their surrounding regions. We also found that hotspots had higher spatial complexity and energy availability, providing a link between the environment and macroevolutionary history. Our study highlights how assessing differences in macroevolutionary history can help to explain why biodiversity varies so much worldwide.
Collapse
Affiliation(s)
- J. Igea
- Corresponding author. (J.I.); (A.J.T.)
| | | |
Collapse
|