1
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Sheppard EC, Martin CA, Armstrong C, González-Quevedo C, Illera JC, Suh A, Spurgin LG, Richardson DS. Genotype-environment associations reveal genes potentially linked to avian malaria infection in populations of an endemic island bird. Mol Ecol 2024; 33:e17329. [PMID: 38533805 DOI: 10.1111/mec.17329] [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: 03/07/2023] [Revised: 01/29/2024] [Accepted: 03/01/2024] [Indexed: 03/28/2024]
Abstract
Patterns of pathogen prevalence are, at least partially, the result of coevolutionary host-pathogen interactions. Thus, exploring the distribution of host genetic variation in relation to infection by a pathogen within and across populations can provide important insights into mechanisms of host defence and adaptation. Here, we use a landscape genomics approach (Bayenv) in conjunction with genome-wide data (ddRADseq) to test for associations between avian malaria (Plasmodium) prevalence and host genetic variation across 13 populations of the island endemic Berthelot's pipit (Anthus berthelotii). Considerable and consistent spatial heterogeneity in malaria prevalence was observed among populations over a period of 15 years. The prevalence of malaria infection was also strongly positively correlated with pox (Avipoxvirus) prevalence. Multiple host loci showed significant associations with malaria prevalence after controlling for genome-wide neutral genetic structure. These sites were located near to or within genes linked to metabolism, stress response, transcriptional regulation, complement activity and the inflammatory response, many previously implicated in vertebrate responses to malarial infection. Our findings identify diverse genes - not just limited to the immune system - that may be involved in host protection against malaria and suggest that spatially variable pathogen pressure may be an important evolutionary driver of genetic divergence among wild animal populations, such as Berthelot's pipit. Furthermore, our data indicate that spatio-temporal variation in multiple different pathogens (e.g. malaria and pox in this case) may have to be studied together to develop a more holistic understanding of host pathogen-mediated evolution.
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Affiliation(s)
| | - Claudia A Martin
- School of Biological Sciences, University of East Anglia, Norfolk, UK
- Terrestrial Ecology Unit, Biology Department, Ghent University, Ghent, Belgium
| | - Claire Armstrong
- School of Biological Sciences, University of East Anglia, Norfolk, UK
| | - Catalina González-Quevedo
- School of Biological Sciences, University of East Anglia, Norfolk, UK
- Grupo Ecología y Evolución de Vertebrados, Instituto de Biología, Facultad de Ciencias Exactas y Naturales, Universidad de Antioquia UdeA, Medellin, Colombia
| | - Juan Carlos Illera
- Biodiversity Research Institute (CSIC-Oviedo, University-Principality of Asturias), University of Oviedo, Mieres, Asturias, Spain
| | - Alexander Suh
- School of Biological Sciences, University of East Anglia, Norfolk, UK
- Centre for Molecular Biodiversity Research, Leibniz Institute for the Analysis of Biodiversity Change, Bonn, Germany
- Department of Organismal Biology - Systematic Biology, Evolutionary Biology Centre, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
| | - Lewis G Spurgin
- School of Biological Sciences, University of East Anglia, Norfolk, UK
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2
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Clancey E, MacPherson A, Cheek RG, Mouton JC, Sillett TS, Ghalambor CK, Funk WC, Hohenlohe PA. Unraveling Adaptive Evolutionary Divergence at Microgeographic Scales. Am Nat 2024; 203:E35-E49. [PMID: 38306284 DOI: 10.1086/727723] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2024]
Abstract
AbstractStriking examples of local adaptation at fine geographic scales are increasingly being documented in natural populations. However, the relative contributions made by natural selection, phenotype-dependent dispersal (when individuals disperse with respect to a habitat preference), and mate preference in generating and maintaining microgeographic adaptation and divergence are not well studied. Here, we develop quantitative genetics models and individual-based simulations (IBSs) to uncover the evolutionary forces that possibly drive microgeographic divergence. We also perform Bayesian estimation of the parameters in our IBS using empirical data on habitat-specific variation in bill morphology in the island scrub-jay (Aphelocoma insularis) to apply our models to a natural system. We find that natural selection and phenotype-dependent dispersal can generate the patterns of divergence we observe in the island scrub-jay. However, mate preference for a mate with similar bill morphology, even though observed in the species, does not play a significant role in driving divergence. Our modeling approach provides insights into phenotypic evolution occurring over small spatial scales relative to dispersal ranges, suggesting that adaptive divergence at microgeographic scales may be common across a wider range of taxa than previously thought. Our quantitative genetic models help to inform future theoretical and empirical work to determine how selection, habitat preference, and mate preference contribute to local adaptation and microgeographic divergence.
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3
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Marrot P, Latutrie M, Piquet J, Pujol B. Natural selection fluctuates at an extremely fine spatial scale inside a wild population of snapdragon plants. Evolution 2022; 76:658-666. [PMID: 34535895 PMCID: PMC9291555 DOI: 10.1111/evo.14359] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2020] [Revised: 04/26/2021] [Accepted: 05/12/2021] [Indexed: 01/21/2023]
Abstract
Spatial variation in natural selection is expected to shape phenotypic variation of wild populations and drive their evolution. Although evidence of phenotypic divergence across populations experiencing different selection regimes is abundant, investigations of intrapopulation variation in selection pressures remain rare. Fine-grained spatial environmental heterogeneity can be expected to influence selective forces within a wild population and thereby alter its fitness function by producing multiple fitness optima at a fine spatial scale. Here, we tested this hypothesis in a wild population of snapdragon plants living on an extremely small island in southern France (about 7500 m2 ). We estimated the spline-based fitness function linking individuals' fitness and five morphological traits in interaction with three spatially variable ecological drivers. We found that selection acting on several traits varied both in magnitude and direction in response to environmental variables at the scale of a meter. Our findings illustrate how different phenotypes can be selected at different locations within a population in response to environmental variation. Investigating spatial variation in selection within a population, in association with ecological conditions, represents an opportunity to identify putative ecological drivers of selection in the wild.
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Affiliation(s)
- Pascal Marrot
- PSL Université Paris: EPHE‐UPVD‐CNRS, USR 3278 CRIOBEUniversité de PerpignanPerpignan66860France
| | - Mathieu Latutrie
- PSL Université Paris: EPHE‐UPVD‐CNRS, USR 3278 CRIOBEUniversité de PerpignanPerpignan66860France
| | - Jésaëlle Piquet
- PSL Université Paris: EPHE‐UPVD‐CNRS, USR 3278 CRIOBEUniversité de PerpignanPerpignan66860France
| | - Benoit Pujol
- PSL Université Paris: EPHE‐UPVD‐CNRS, USR 3278 CRIOBEUniversité de PerpignanPerpignan66860France
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4
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Schmidt C, Garroway CJ. The population genetics of urban and rural amphibians in North America. Mol Ecol 2021; 30:3918-3929. [PMID: 34053153 DOI: 10.1111/mec.16005] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Revised: 05/13/2021] [Accepted: 05/20/2021] [Indexed: 02/06/2023]
Abstract
Human land transformation is one of the leading causes of vertebrate population declines. These declines are thought to be partly due to decreased connectivity and habitat loss reducing animal population sizes in disturbed habitats. With time, this can lead to declines in effective population size and genetic diversity which restrict the ability of wildlife to efficiently cope with environmental change through genetic adaptation. However, it is not well understood whether these effects generally hold across taxa. We address this question by repurposing and synthesizing raw microsatellite data from online repositories for 19 amphibian species sampled at 554 georeferenced sites in North America. For each site, we estimated gene diversity, allelic richness, effective population size, and population differentiation. Using binary urban-rural census designations, and continuous measures of human population density, the Human Footprint Index, and impervious surface cover, we tested for generalizable effects of human land use on amphibian genetic diversity. We found minimal evidence, either positive or negative, for relationships between genetic metrics and urbanization. Together with previous work on focal species that also found varying effects of urbanization on genetic composition, it seems likely that the consequences of urbanization are not easily generalizable within or across amphibian species. Questions about the genetic consequences of urbanization for amphibians should be addressed on a case-by-case basis. This contrasts with general negative effects of urbanization in mammals and consistent, but species-specific, positive and negative effects in birds.
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Affiliation(s)
- Chloé Schmidt
- Department of Biological Sciences, University of Manitoba, Winnipeg, MB, Canada
| | - Colin J Garroway
- Department of Biological Sciences, University of Manitoba, Winnipeg, MB, Canada
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5
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Garrett LJH, Myatt JP, Sadler JP, Dawson DA, Hipperson H, Colbourne JK, Dickey RC, Weber SB, Reynolds SJ. Spatio-temporal processes drive fine-scale genetic structure in an otherwise panmictic seabird population. Sci Rep 2020; 10:20725. [PMID: 33244100 PMCID: PMC7691516 DOI: 10.1038/s41598-020-77517-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2019] [Accepted: 11/09/2020] [Indexed: 11/09/2022] Open
Abstract
When and where animals breed can shape the genetic structure and diversity of animal populations. The importance of drivers of genetic diversity is amplified in island populations that tend to have more delineated gene pools compared to continental populations. Studies of relatedness as a function of the spatial distribution of individuals have demonstrated the importance of spatial organisation for individual fitness with outcomes that are conditional on the overall genetic diversity of the population. However, few studies have investigated the impact of breeding timing on genetic structure. We characterise the fine-scale genetic structure of a geographically-isolated population of seabirds. Microsatellite markers provide evidence for largely transient within-breeding season temporal processes and limited spatial processes, affecting genetic structure in an otherwise panmictic population of sooty terns Onychoprion fuscatus. Earliest breeders had significantly different genetic structure from the latest breeders. Limited evidence was found for localised spatial structure, with a small number of individuals being more related to their nearest neighbours than the rest of the population. Therefore, population genetic structure is shaped by heterogeneities in collective movement in time and to a lesser extent space, that result in low levels of spatio-temporal genetic structure and the maintenance of genetic diversity.
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Affiliation(s)
- Lucy J H Garrett
- School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, UK. .,NERC Biomolecular Analysis Facility, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK. .,Department of Animal and Agriculture, Hartpury University, Gloucester, UK.
| | - Julia P Myatt
- School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, UK
| | - Jon P Sadler
- School of Geography, Earth and Environmental Sciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, UK
| | - Deborah A Dawson
- NERC Biomolecular Analysis Facility, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Helen Hipperson
- NERC Biomolecular Analysis Facility, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - John K Colbourne
- School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, UK
| | - Roger C Dickey
- The Army Ornithological Society (AOS), c/o Prince Consort Library, Knollys Road, Aldershot, Hampshire, UK
| | - Sam B Weber
- Ascension Island Government Conservation and Fisheries Department (AIGCFD), Ascension Island, UK.,Centre for Ecology and Conservation, University of Exeter, Penryn, UK
| | - S James Reynolds
- School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, UK.,The Army Ornithological Society (AOS), c/o Prince Consort Library, Knollys Road, Aldershot, Hampshire, UK
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6
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Subtle genetic clustering among South Australian colonies of little penguins (Eudyptula minor). CONSERV GENET 2020. [DOI: 10.1007/s10592-020-01284-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Kumar A, Dewan S, Lochan R, Sharma DK. Spatial genetic structure of black francolin ( Francolinus francolinus asiae) in the North-Western Himalayan region based on mitochondrial control region. Mitochondrial DNA A DNA Mapp Seq Anal 2020; 31:163-170. [PMID: 32340511 DOI: 10.1080/24701394.2020.1757664] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
Due to specific habitat preferences and behavioural limitations, black francolin is not uniformly distributed across the northwestern Himalayan landscape, rather is confined to certain land mosaic. The habitable zones are further reduced due to several manmade threats as logging and forest fire leading to sparse distribution. Overall 54 samples were used for partial sequence analysis of mitochondrial control region. A well evident divergence pattern was observed as individuals collected from low altitude, terrai region significantly distanced from high altitude sampled individuals. Also, the individuals at lower elevation sites exhibited higher genetic diversity in comparison to the samples collected at higher elevations. This indicates that patchy distribution and low dispersal rate have resulted in fine-scale patterns of genetic diversity among the black francolin population. Further, habitat loss and forest fragmentation could lead to more small and isolated populations that could suffer from reduced genetic diversity and may be higher extinction rates.
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Affiliation(s)
- Anand Kumar
- Department of Zoology, HNB Garhwal University, Badshahithaul, New Tehri, India
| | - Saurabh Dewan
- Department of Zoology and Biotechnology, HNB Garhwal University, Srinagar, India
| | - Rajeev Lochan
- Department of Zoology and Biotechnology, HNB Garhwal University, Srinagar, India
| | - Dinesh K Sharma
- Department of Zoology, HNB Garhwal University, Badshahithaul, New Tehri, India
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8
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Sawada A, Ando H, Takagi M. Evaluating the existence and benefit of major histocompatibility complex-based mate choice in an isolated owl population. J Evol Biol 2020; 33:762-772. [PMID: 32281698 DOI: 10.1111/jeb.13629] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2020] [Revised: 03/16/2020] [Accepted: 04/01/2020] [Indexed: 11/28/2022]
Abstract
How mate preferences evolve in the first place has been a major conundrum for sexual selection. Some hypotheses explaining this assume fitness benefit derived from subsequent generations. Major histocompatibility complex (MHC)-based mate choice is a representative example of the mate choice that is associated with such trans-generational mechanisms. To provide evidences for fitness benefit of MHC-based mate choice, previous studies assessed the association between own MHC genotype and own fitness components. However, the association between MHC-based mate choice in the parental generation and fitness components in the resultant offspring generation has only rarely been measured in wild populations. Focusing on the isolated population of the monogamous Ryukyu Scops Owl (Otus elegans interpositus) on Minami-daito Island, Japan, we found evidence of MHC-based mate choice. However, we found no evidence of MHC-based mate choice increasing own reproductive success or offspring survival. This is a rare case study that directly examines the existence of the trans-generational indirect benefit of MHC-based mate choice for genetic compatibility from trans-generational data in a wild bird population. By investigating the fitness benefits of mate choice, this study serves to facilitate our understanding of the evolution of MHC-based mate choice.
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Affiliation(s)
- Akira Sawada
- Department of Natural History Science, Graduate School of Science, Hokkaido University, Sapporo, Japan
| | - Haruko Ando
- Center for Environmental Biology and Ecosystem Studies, National Institute for Environmental Studies, Tsukuba, Japan
| | - Masaoki Takagi
- Department of Natural History Science, Graduate School of Science, Hokkaido University, Sapporo, Japan
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9
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Armstrong C, Davies RG, González‐Quevedo C, Dunne M, Spurgin LG, Richardson DS. Adaptive landscape genetics and malaria across divergent island bird populations. Ecol Evol 2019; 9:12482-12502. [PMID: 31788192 PMCID: PMC6875583 DOI: 10.1002/ece3.5700] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2019] [Revised: 08/28/2019] [Accepted: 09/02/2019] [Indexed: 12/31/2022] Open
Abstract
Environmental conditions play a major role in shaping the spatial distributions of pathogens, which in turn can drive local adaptation and divergence in host genetic diversity. Haemosporidians, such as Plasmodium (malaria), are a strong selective force, impacting survival and fitness of hosts, with geographic distributions largely determined by habitat suitability for their insect vectors. Here, we have tested whether patterns of fine-scale local adaptation to malaria are replicated across discrete, ecologically differing island populations of Berthelot's pipits Anthus berthelotii. We sequenced TLR4, an innate immunity gene that is potentially under positive selection in Berthelot's pipits, and two SNPs previously identified as being associated with malaria infection in a genome-wide association study (GWAS) in Berthelot's pipits in the Canary Islands. We determined the environmental predictors of malaria infection, using these to estimate variation in malaria risk on Porto Santo, and found some congruence with previously identified environmental risk factors on Tenerife. We also found a negative association between malaria infection and a TLR4 variant in Tenerife. In contrast, one of the GWAS SNPs showed an association with malaria risk in Porto Santo, but in the opposite direction to that found in the Canary Islands GWAS. Together, these findings suggest that disease-driven local adaptation may be an important factor in shaping variation among island populations.
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Affiliation(s)
| | | | - Catalina González‐Quevedo
- School of Biological SciencesUniversity of East AngliaNorwichUK
- Grupo Ecología y Evolución de VertebradosInstituto de BiologíaFacultad de Ciencias Exactas y NaturalesUniversidad de AntioquiaMedellínColombia
| | - Molly Dunne
- School of Biological SciencesUniversity of East AngliaNorwichUK
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10
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Kozakiewicz CP, Burridge CP, Funk WC, VandeWoude S, Craft ME, Crooks KR, Ernest HB, Fountain‐Jones NM, Carver S. Pathogens in space: Advancing understanding of pathogen dynamics and disease ecology through landscape genetics. Evol Appl 2018; 11:1763-1778. [PMID: 30459828 PMCID: PMC6231466 DOI: 10.1111/eva.12678] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2018] [Revised: 06/24/2018] [Accepted: 06/28/2018] [Indexed: 12/30/2022] Open
Abstract
Landscape genetics has provided many insights into how heterogeneous landscape features drive processes influencing spatial genetic variation in free-living organisms. This rapidly developing field has focused heavily on vertebrates, and expansion of this scope to the study of infectious diseases holds great potential for landscape geneticists and disease ecologists alike. The potential application of landscape genetics to infectious agents has garnered attention at formative stages in the development of landscape genetics, but systematic examination is lacking. We comprehensively review how landscape genetics is being used to better understand pathogen dynamics. We characterize the field and evaluate the types of questions addressed, approaches used and systems studied. We also review the now established landscape genetic methods and their realized and potential applications to disease ecology. Lastly, we identify emerging frontiers in the landscape genetic study of infectious agents, including recent phylogeographic approaches and frameworks for studying complex multihost and host-vector systems. Our review emphasizes the expanding utility of landscape genetic methods available for elucidating key pathogen dynamics (particularly transmission and spread) and also how landscape genetic studies of pathogens can provide insight into host population dynamics. Through this review, we convey how increasing awareness of the complementarity of landscape genetics and disease ecology among practitioners of each field promises to drive important cross-disciplinary advances.
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Affiliation(s)
| | | | - W. Chris Funk
- Department of BiologyGraduate Degree Program in EcologyColorado State UniversityFort CollinsColorado
| | - Sue VandeWoude
- Department of Microbiology, Immunology, and PathologyColorado State UniversityFort CollinsColorado
| | - Meggan E. Craft
- Department of Veterinary Population MedicineUniversity of MinnesotaSt. PaulMinnesota
| | - Kevin R. Crooks
- Department of Fish, Wildlife, and Conservation BiologyColorado State UniversityFort CollinsColorado
| | - Holly B. Ernest
- Wildlife Genomics and Disease Ecology LaboratoryDepartment of Veterinary SciencesUniversity of WyomingLaramieWyoming
| | | | - Scott Carver
- School of Natural SciencesUniversity of TasmaniaHobartTasmaniaAustralia
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11
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Sawada A, Iwasaki T, Takagi M. Fine‐scale spatial genetic structure in the Minami‐daito Island population of the Ryukyu scops owl
Otus elegan
s. J Zool (1987) 2018. [DOI: 10.1111/jzo.12634] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- A. Sawada
- Department of Natural History Science Graduate School of Science Hokkaido University Sapporo Japan
| | - T. Iwasaki
- Department of Biology and Geosciences Graduate School of Science Osaka City University Osaka Japan
| | - M. Takagi
- Department of Natural History Science Graduate School of Science Hokkaido University Sapporo Japan
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12
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Holtmann B, Santos ESA, Lara CE, Nakagawa S. Personality-matching habitat choice, rather than behavioural plasticity, is a likely driver of a phenotype-environment covariance. Proc Biol Sci 2018; 284:rspb.2017.0943. [PMID: 28978725 DOI: 10.1098/rspb.2017.0943] [Citation(s) in RCA: 67] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2017] [Accepted: 08/21/2017] [Indexed: 11/12/2022] Open
Abstract
An emerging hypothesis of animal personality posits that animals choose the habitat that best fits their personality, and that the match between habitat and personality can facilitate population differentiation, and eventually speciation. However, behavioural plasticity and the adjustment of behaviours to new environments have been a classical explanation for such matching patterns. Using a population of dunnocks (Prunella modularis), we empirically tested whether personality or behavioural plasticity is responsible for the non-random distribution of shy and bold individuals in a heterogeneous environment. We found evidence for bold individuals settling in areas with high human disturbance, but also that birds became bolder with increasing age. Importantly, personality primarily determines the distribution of individuals, and behavioural adjustment over time contributes very little to the observed patterns. We cannot, however, exclude a possibility of very early behavioural plasticity (a type of developmental plasticity) shaping what we refer to as 'personality'. Nonetheless, our findings highlight the role personality plays in shaping population structure, lending support to the theory of personality-mediated speciation. Moreover, personality-matching habitat choice has important implications for population management and conservation.
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Affiliation(s)
- Benedikt Holtmann
- Department of Zoology, University of Otago, 340 Great King Street, Dunedin 9016, New Zealand .,Division of Evolutionary Biology, Ludwig-Maximilians-University of Munich, Großhaderner Straße 2, 82152 Planegg-Martinsried, Germany
| | - Eduardo S A Santos
- Department of Zoology, University of Otago, 340 Great King Street, Dunedin 9016, New Zealand.,BECO do Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, Rua do Matão, trav. 14, no. 321, São Paulo, SP 05508-090, Brazil
| | - Carlos E Lara
- Department of Zoology, University of Otago, 340 Great King Street, Dunedin 9016, New Zealand
| | - Shinichi Nakagawa
- Department of Zoology, University of Otago, 340 Great King Street, Dunedin 9016, New Zealand.,Evolution & Ecology Research Centre and School of Biological, Earth and Environmental Science, University of New South Wales, Sydney, New South Wales 2052, Australia
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13
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Valkiūnas G, Ilgūnas M, Bukauskaitė D, Fragner K, Weissenböck H, Atkinson CT, Iezhova TA. Characterization of Plasmodium relictum, a cosmopolitan agent of avian malaria. Malar J 2018; 17:184. [PMID: 29720195 PMCID: PMC5930738 DOI: 10.1186/s12936-018-2325-2] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2018] [Accepted: 04/18/2018] [Indexed: 12/24/2022] Open
Abstract
Background Microscopic research has shown that Plasmodium relictum is the most common agent of avian malaria. Recent molecular studies confirmed this conclusion and identified several mtDNA lineages, suggesting the existence of significant intra-species genetic variation or cryptic speciation. Most identified lineages have a broad range of hosts and geographical distribution. Here, a rare new lineage of P. relictum was reported and information about biological characters of different lineages of this pathogen was reviewed, suggesting issues for future research. Methods The new lineage pPHCOL01 was detected in Common chiffchaff Phylloscopus collybita, and the parasite was passaged in domestic canaries Serinus canaria. Organs of infected birds were examined using histology and chromogenic in situ hybridization methods. Culex quinquefasciatus mosquitoes, Zebra finch Taeniopygia guttata, Budgerigar Melopsittacus undulatus and European goldfinch Carduelis carduelis were exposed experimentally. Both Bayesian and Maximum Likelihood analyses identified the same phylogenetic relationships among different, closely-related lineages pSGS1, pGRW4, pGRW11, pLZFUS01, pPHCOL01 of P. relictum. Morphology of their blood stages was compared using fixed and stained blood smears, and biological properties of these parasites were reviewed. Results Common canary and European goldfinch were susceptible to the parasite pPHCOL01, and had markedly variable individual prepatent periods and light transient parasitaemia. Exo-erythrocytic and sporogonic stages were not seen. The Zebra finch and Budgerigar were resistant. Neither blood stages nor vector stages of all examined P. relictum lineages can be distinguished morphologically. Conclusion Within the huge spectrum of vertebrate hosts, mosquito vectors, and ecological conditions, different lineages of P. relictum exhibit indistinguishable, markedly variable morphological forms. Parasites of same lineages often develop differently in different bird species. Even more, the variation of biological properties (parasitaemia dynamics, blood pathology, prepatent period) in different isolates of the same lineage might be greater than the variation in different lineages during development in the same species of birds, indicating negligible taxonomic value of such features. Available lineage information is excellent for parasite diagnostics, but is limited in predictions about relationships in certain host-parasite associations. A combination of experiments, field observations, microscopic and molecular diagnostics is essential for understanding the role of different P. relictum lineages in bird health. Electronic supplementary material The online version of this article (10.1186/s12936-018-2325-2) contains supplementary material, which is available to authorized users.
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Affiliation(s)
| | - Mikas Ilgūnas
- Nature Research Centre, Akademijos 2, LT-08412, Vilnius, Lithuania
| | | | - Karin Fragner
- Institute of Pathology and Forensic Veterinary Medicine, University of Veterinary Medicine, Vienna, 1210, Vienna, Austria
| | - Herbert Weissenböck
- Institute of Pathology and Forensic Veterinary Medicine, University of Veterinary Medicine, Vienna, 1210, Vienna, Austria
| | - Carter T Atkinson
- U.S. Geological Survey, Pacific Island Ecosystems Research Center, Hawaii National Park, HI, 96718, USA
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14
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Kim JM, Santure AW, Barton HJ, Quinn JL, Cole EF, Visser ME, Sheldon BC, Groenen MAM, van Oers K, Slate J. A high-density SNP chip for genotyping great tit (Parus major) populations and its application to studying the genetic architecture of exploration behaviour. Mol Ecol Resour 2018; 18:877-891. [PMID: 29573186 DOI: 10.1111/1755-0998.12778] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2017] [Revised: 03/05/2018] [Accepted: 03/05/2018] [Indexed: 12/25/2022]
Abstract
High-density SNP microarrays ("SNP chips") are a rapid, accurate and efficient method for genotyping several hundred thousand polymorphisms in large numbers of individuals. While SNP chips are routinely used in human genetics and in animal and plant breeding, they are less widely used in evolutionary and ecological research. In this article, we describe the development and application of a high-density Affymetrix Axiom chip with around 500,000 SNPs, designed to perform genomics studies of great tit (Parus major) populations. We demonstrate that the per-SNP genotype error rate is well below 1% and that the chip can also be used to identify structural or copy number variation. The chip is used to explore the genetic architecture of exploration behaviour (EB), a personality trait that has been widely studied in great tits and other species. No SNPs reached genomewide significance, including at DRD4, a candidate gene. However, EB is heritable and appears to have a polygenic architecture. Researchers developing similar SNP chips may note: (i) SNPs previously typed on alternative platforms are more likely to be converted to working assays; (ii) detecting SNPs by more than one pipeline, and in independent data sets, ensures a high proportion of working assays; (iii) allele frequency ascertainment bias is minimized by performing SNP discovery in individuals from multiple populations; and (iv) samples with the lowest call rates tend to also have the greatest genotyping error rates.
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Affiliation(s)
- J-M Kim
- Department of Animal & Plant Sciences, University of Sheffield, Sheffield, UK.,Department of Animal Science and Technology, Chung-Ang University, Anseong, Gyeonggi-do, Korea
| | - A W Santure
- Department of Animal & Plant Sciences, University of Sheffield, Sheffield, UK.,School of Biological Sciences, University of Auckland, Auckland, New Zealand
| | - H J Barton
- Department of Animal & Plant Sciences, University of Sheffield, Sheffield, UK
| | - J L Quinn
- School of Biological, Earth and Environmental Science (BEES), University College Cork, Cork, Ireland
| | - E F Cole
- Department of Zoology, Edward Grey Institute, University of Oxford, Oxford, UK
| | | | - M E Visser
- Department of Animal Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
| | - B C Sheldon
- Department of Zoology, Edward Grey Institute, University of Oxford, Oxford, UK
| | - M A M Groenen
- Wageningen University and Research - Animal Breeding and Genomics, Wageningen, Netherlands
| | - K van Oers
- Department of Animal Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
| | - J Slate
- Department of Animal & Plant Sciences, University of Sheffield, Sheffield, UK
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15
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Botero-Delgadillo E, Quirici V, Poblete Y, Cuevas É, Kuhn S, Girg A, Teltscher K, Poulin E, Kempenaers B, Vásquez RA. Variation in fine-scale genetic structure and local dispersal patterns between peripheral populations of a South American passerine bird. Ecol Evol 2017; 7:8363-8378. [PMID: 29075455 PMCID: PMC5648682 DOI: 10.1002/ece3.3342] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2017] [Revised: 07/23/2017] [Accepted: 08/01/2017] [Indexed: 12/24/2022] Open
Abstract
The distribution of suitable habitat influences natal and breeding dispersal at small spatial scales, resulting in strong microgeographic genetic structure. Although environmental variation can promote interpopulation differences in dispersal behavior and local spatial patterns, the effects of distinct ecological conditions on within‐species variation in dispersal strategies and in fine‐scale genetic structure remain poorly understood. We studied local dispersal and fine‐scale genetic structure in the thorn‐tailed rayadito (Aphrastura spinicauda), a South American bird that breeds along a wide latitudinal gradient. We combine capture‐mark‐recapture data from eight breeding seasons and molecular genetics to compare two peripheral populations with contrasting environments in Chile: Navarino Island, a continuous and low density habitat, and Fray Jorge National Park, a fragmented, densely populated and more stressful environment. Natal dispersal showed no sex bias in Navarino but was female‐biased in the more dense population in Fray Jorge. In the latter, male movements were restricted, and some birds seemed to skip breeding in their first year, suggesting habitat saturation. Breeding dispersal was limited in both populations, with males being more philopatric than females. Spatial genetic autocorrelation analyzes using 13 polymorphic microsatellite loci confirmed the observed dispersal patterns: a fine‐scale genetic structure was only detectable for males in Fray Jorge for distances up to 450 m. Furthermore, two‐dimensional autocorrelation analyzes and estimates of genetic relatedness indicated that related males tended to be spatially clustered in this population. Our study shows evidence for context‐dependent variation in natal dispersal and corresponding local genetic structure in peripheral populations of this bird. It seems likely that the costs of dispersal are higher in the fragmented and higher density environment in Fray Jorge, particularly for males. The observed differences in microgeographic genetic structure for rayaditos might reflect the genetic consequences of population‐specific responses to contrasting environmental pressures near the range limits of its distribution.
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Affiliation(s)
- Esteban Botero-Delgadillo
- Instituto de Ecología y Biodiversidad Departamento de Ciencias Ecológicas Facultad de Ciencias Universidad de Chile Santiago Chile.,SELVA: Research for conservation in the Neotropics Bogotá Colombia
| | - Verónica Quirici
- Departamento de Ecología y Biodiversidad Facultad de Ecología y Recursos Naturales Universidad Andrés Bello Santiago Chile.,Centro de Investigación Para la Sustentabilidad Universidad Andrés Bello Santiago Chile
| | - Yanina Poblete
- Instituto de Ecología y Biodiversidad Departamento de Ciencias Ecológicas Facultad de Ciencias Universidad de Chile Santiago Chile.,Instituto de Ciencias Naturales Universidad de las Américas Santiago Chile
| | - Élfego Cuevas
- Doctorado en Medicina de la Conservación Facultad de Ecología y Recursos Naturales Universidad Andrés Bello Santiago Chile
| | - Sylvia Kuhn
- Department of Behavioural Ecology and Evolutionary Genetics Max Plank Institute for Ornithology Seewiesen Germany
| | - Alexander Girg
- Department of Behavioural Ecology and Evolutionary Genetics Max Plank Institute for Ornithology Seewiesen Germany
| | - Kim Teltscher
- Department of Behavioural Ecology and Evolutionary Genetics Max Plank Institute for Ornithology Seewiesen Germany
| | - Elie Poulin
- Instituto de Ecología y Biodiversidad Departamento de Ciencias Ecológicas Facultad de Ciencias Universidad de Chile Santiago Chile
| | - Bart Kempenaers
- Department of Behavioural Ecology and Evolutionary Genetics Max Plank Institute for Ornithology Seewiesen Germany
| | - Rodrigo A Vásquez
- Instituto de Ecología y Biodiversidad Departamento de Ciencias Ecológicas Facultad de Ciencias Universidad de Chile Santiago Chile
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16
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Radersma R, Garroway CJ, Santure AW, de Cauwer I, Farine DR, Slate J, Sheldon BC. Social and spatial effects on genetic variation between foraging flocks in a wild bird population. Mol Ecol 2017; 26:5807-5819. [DOI: 10.1111/mec.14291] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2015] [Revised: 06/29/2017] [Accepted: 07/11/2017] [Indexed: 12/20/2022]
Affiliation(s)
- Reinder Radersma
- Edward Grey Institute; Department of Zoology; University of Oxford; Oxford UK
- Department of Biology; Lund University; Lund Sweden
| | - Colin J. Garroway
- Edward Grey Institute; Department of Zoology; University of Oxford; Oxford UK
- Department of Biological Sciences; University of Manitoba; Winnipeg MB Canada
| | - Anna W. Santure
- Department of Animal and Plant Sciences; University of Sheffield; Sheffield UK
- School of Biological Sciences; The University of Auckland; Auckland New Zealand
| | - Isabelle de Cauwer
- Department of Animal and Plant Sciences; University of Sheffield; Sheffield UK
- Univ. Lille; CNRS; UMR 8198 - Evo-Eco-Paleo; Lille France
| | - Damien R. Farine
- Edward Grey Institute; Department of Zoology; University of Oxford; Oxford UK
- Department of Collective Behaviour; Max Planck Institute for Ornithology; Konstanz Germany
- Chair of Biodiversity and Collective Behaviour; Department of Biology; University of Konstanz; Konstanz Germany
| | - Jon Slate
- Department of Animal and Plant Sciences; University of Sheffield; Sheffield UK
| | - Ben C. Sheldon
- Edward Grey Institute; Department of Zoology; University of Oxford; Oxford UK
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17
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Deconstructing isolation-by-distance: The genomic consequences of limited dispersal. PLoS Genet 2017; 13:e1006911. [PMID: 28771477 PMCID: PMC5542401 DOI: 10.1371/journal.pgen.1006911] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2017] [Accepted: 07/06/2017] [Indexed: 12/31/2022] Open
Abstract
Geographically limited dispersal can shape genetic population structure and result in a correlation between genetic and geographic distance, commonly called isolation-by-distance. Despite the prevalence of isolation-by-distance in nature, to date few studies have empirically demonstrated the processes that generate this pattern, largely because few populations have direct measures of individual dispersal and pedigree information. Intensive, long-term demographic studies and exhaustive genomic surveys in the Florida Scrub-Jay (Aphelocoma coerulescens) provide an excellent opportunity to investigate the influence of dispersal on genetic structure. Here, we used a panel of genome-wide SNPs and extensive pedigree information to explore the role of limited dispersal in shaping patterns of isolation-by-distance in both sexes, and at an exceedingly fine spatial scale (within ~10 km). Isolation-by-distance patterns were stronger in male-male and male-female comparisons than in female-female comparisons, consistent with observed differences in dispersal propensity between the sexes. Using the pedigree, we demonstrated how various genealogical relationships contribute to fine-scale isolation-by-distance. Simulations using field-observed distributions of male and female natal dispersal distances showed good agreement with the distribution of geographic distances between breeding individuals of different pedigree relationship classes. Furthermore, we built coalescent simulations parameterized by the observed dispersal curve, population density, and immigration rate, and showed how incorporating these extensions to Malécot’s theory of isolation-by-distance allows us to accurately reconstruct observed sex-specific isolation-by-distance patterns in autosomal and Z-linked SNPs. Therefore, patterns of fine-scale isolation-by-distance in the Florida Scrub-Jay can be well understood as a result of limited dispersal over contemporary timescales. Dispersal is a fundamental component of the life history of most organisms and therefore influences many biological processes. Dispersal is particularly important in creating genetic structure on the landscape. We often observe a pattern of decreased genetic relatedness between individuals as geographic distances increases, or isolation-by-distance. This pattern is particularly pronounced in organisms with extremely short dispersal distances. Despite the ubiquity of isolation-by-distance patterns in nature, there are few examples that explicitly demonstrate how limited dispersal influences spatial genetic structure. Here we investigate the processes that result in spatial genetic structure using the Florida Scrub-Jay, a bird with extremely limited dispersal behavior and extensive genome-wide data. We take advantage of the long-term monitoring of a contiguous population of Florida Scrub-Jays, which has resulted in a detailed pedigree and measurements of dispersal for hundreds of individuals. We show how limited dispersal results in close genealogical relatives living closer together geographically, which generates a strong pattern of isolation-by-distance at an extremely small spatial scale (<10 km) in just a few generations. Given the detailed dispersal, pedigree, and genomic data, we can achieve a fairly complete understanding of how dispersal shapes patterns of genetic diversity over short spatial scales.
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18
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Branch CL, Jahner JP, Kozlovsky DY, Parchman TL, Pravosudov VV. Absence of population structure across elevational gradients despite large phenotypic variation in mountain chickadees ( Poecile gambeli). ROYAL SOCIETY OPEN SCIENCE 2017; 4:170057. [PMID: 28405402 PMCID: PMC5383859 DOI: 10.1098/rsos.170057] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/25/2017] [Accepted: 02/16/2017] [Indexed: 06/07/2023]
Abstract
Montane habitats are characterized by predictably rapid heterogeneity along elevational gradients and are useful for investigating the consequences of environmental heterogeneity for local adaptation and population genetic structure. Food-caching mountain chickadees inhabit a continuous elevation gradient in the Sierra Nevada, and birds living at harsher, high elevations have better spatial memory ability and exhibit differences in male song structure and female mate preference compared to birds inhabiting milder, low elevations. While high elevation birds breed, on average, two weeks later than low elevation birds, the extent of gene flow between elevations is unknown. Despite phenotypic variation and indirect evidence for local adaptation, population genetic analyses based on 18 073 single nucleotide polymorphisms across three transects of high and low elevation populations provided no evidence for genetic differentiation. Analyses based on individual genotypes revealed no patterns of clustering, pairwise estimates of genetic differentiation (FST, Nei's D) were very low, and AMOVA revealed no evidence for genetic variation structured by transect or by low and high elevation sites within transects. In addition, we found no consistent evidence for strong parallel allele frequency divergence between low and high elevation sites within the three transects. Large elevation-related phenotypic variation may be maintained by strong selection despite gene flow and future work should focus on the mechanisms underlying such variation.
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19
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Wagner HH, Chávez-Pesqueira M, Forester BR. Spatial detection of outlier loci with Moran eigenvector maps. Mol Ecol Resour 2017; 17:1122-1135. [DOI: 10.1111/1755-0998.12653] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2016] [Revised: 12/01/2016] [Accepted: 12/06/2016] [Indexed: 11/30/2022]
Affiliation(s)
- Helene H. Wagner
- Department of Biology; University of Toronto Mississauga; 3359 Mississauga Road Mississauga ON L5L 1C6 Canada
| | - Mariana Chávez-Pesqueira
- Department of Biology; University of Toronto Mississauga; 3359 Mississauga Road Mississauga ON L5L 1C6 Canada
- Unidad de Recursos Naturales; Centro de Investigación Científica de Yucatán; Calle 43 No. 130, Col. Chuburná de Hidalgo CP 97205 Mérida, Yucatán México
| | - Brenna R. Forester
- Nicholas School of the Environment; University Program in Ecology; Duke University; Durham NC 27708 USA
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20
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Benestan L, Quinn BK, Maaroufi H, Laporte M, Clark FK, Greenwood SJ, Rochette R, Bernatchez L. Seascape genomics provides evidence for thermal adaptation and current-mediated population structure in American lobster (Homarus americanus). Mol Ecol 2016; 25:5073-5092. [DOI: 10.1111/mec.13811] [Citation(s) in RCA: 126] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2016] [Revised: 08/09/2016] [Accepted: 08/16/2016] [Indexed: 12/14/2022]
Affiliation(s)
- Laura Benestan
- Departement de Biologie; Institut de Biologie Intégrative et des Systèmes (IBIS); Université Laval; Pavillon Charles-Eugène-Marchand 1030 Avenue de la Médecine Québec Québec Canada G1V 0A6
| | - Brady K. Quinn
- Department of Biological Sciences; University of New Brunswick; P.O. Box 5050 Saint John NB Canada E2L 4L5
| | - Halim Maaroufi
- Institut de Biologie Integrative et des Systemes (IBIS); Pavillon Charles-Eugène Marchand; 1030, Avenue de la Médecine Québec Québec Canada G1V 0A6
| | - Martin Laporte
- Departement de Biologie; Institut de Biologie Intégrative et des Systèmes (IBIS); Université Laval; Pavillon Charles-Eugène-Marchand 1030 Avenue de la Médecine Québec Québec Canada G1V 0A6
| | - Fraser K. Clark
- Department of Biomedical Sciences; Atlantic Veterinary College; University of Prince Edward Island; Charlottetown Prince Edward Island Canada C1A 4P3
- AVC Lobster Science Centre; Atlantic Veterinary College; University of Prince Edward Island; Charlottetown Prince Edward Island Canada C1A 4P3
| | - Spencer J. Greenwood
- Department of Biomedical Sciences; Atlantic Veterinary College; University of Prince Edward Island; Charlottetown Prince Edward Island Canada C1A 4P3
- AVC Lobster Science Centre; Atlantic Veterinary College; University of Prince Edward Island; Charlottetown Prince Edward Island Canada C1A 4P3
| | - Rémy Rochette
- Department of Biological Sciences; University of New Brunswick; P.O. Box 5050 Saint John NB Canada E2L 4L5
| | - Louis Bernatchez
- Departement de Biologie; Institut de Biologie Intégrative et des Systèmes (IBIS); Université Laval; Pavillon Charles-Eugène-Marchand 1030 Avenue de la Médecine Québec Québec Canada G1V 0A6
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21
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Gonzalez-Quevedo C, Davies RG, Phillips KP, Spurgin LG, Richardson DS. Landscape-scale variation in an anthropogenic factor shapes immune gene variation within a wild population. Mol Ecol 2016; 25:4234-46. [PMID: 27411090 DOI: 10.1111/mec.13759] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2015] [Revised: 06/23/2016] [Accepted: 07/05/2016] [Indexed: 02/03/2023]
Abstract
Understanding the spatial scale at which selection acts upon adaptive genetic variation in natural populations is fundamental to our understanding of evolutionary ecology, and has important ramifications for conservation. The environmental factors to which individuals of a population are exposed can vary at fine spatial scales, potentially generating localized patterns of adaptation. Here, we compared patterns of neutral and major histocompatibility complex (MHC) variation within an island population of Berthelot's pipit (Anthus berthelotii) to assess whether landscape-level differences in pathogen-mediated selection generate fine-scale spatial structuring in these immune genes. Specifically, we tested for spatial associations between the distribution of avian malaria, and the factors previously shown to influence that distribution, and MHC variation within resident individuals. Although we found no overall genetic structure across the population for either neutral or MHC loci, we did find localized associations between environmental factors and MHC variation. One MHC class I allele (ANBE48) was directly associated with malaria infection risk, while the presence of the ANBE48 and ANBE38 alleles within individuals correlated (positively and negatively, respectively) with distance to the nearest poultry farm, an anthropogenic factor previously shown to be an important determinant of disease distribution in the study population. Our findings highlight the importance of considering small spatial scales when studying the patterns and processes involved in evolution at adaptive loci.
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Affiliation(s)
- Catalina Gonzalez-Quevedo
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK.,Grupo Ecología y Evolución de Vertebrados, Instituto de Biología, Facultad de Ciencias Exactas y Naturales, Universidad de Antioquia, Calle 70 No. 52-21, Medellín, Colombia
| | - Richard G Davies
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK
| | - Karl P Phillips
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK.,Evolutionary Biology Group, Institute of Environmental Biology, Faculty of Biology, Adam Mickiewicz University, Poznań, Poland
| | - Lewis G Spurgin
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK
| | - David S Richardson
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK
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22
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Szulkin M, Gagnaire PA, Bierne N, Charmantier A. Population genomic footprints of fine-scale differentiation between habitats in Mediterranean blue tits. Mol Ecol 2016; 25:542-58. [PMID: 26800038 DOI: 10.1111/mec.13486] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2015] [Revised: 11/13/2015] [Accepted: 11/17/2015] [Indexed: 12/20/2022]
Abstract
Linking population genetic variation to the spatial heterogeneity of the environment is of fundamental interest to evolutionary biology and ecology, in particular when phenotypic differences between populations are observed at biologically small spatial scales. Here, we applied restriction-site associated DNA sequencing (RAD-Seq) to test whether phenotypically differentiated populations of wild blue tits (Cyanistes caeruleus) breeding in a highly heterogeneous environment exhibit genetic structure related to habitat type. Using 12 106 SNPs in 197 individuals from deciduous and evergreen oak woodlands, we applied complementary population genomic analyses, which revealed that genetic variation is influenced by both geographical distance and habitat type. A fine-scale genetic differentiation supported by genome- and transcriptome-wide analyses was found within Corsica, between two adjacent habitats where blue tits exhibit marked differences in breeding time while nesting < 6 km apart. Using redundancy analysis (RDA), we show that genomic variation remains associated with habitat type when controlling for spatial and temporal effects. Finally, our results suggest that the observed patterns of genomic differentiation were not driven by a small proportion of highly differentiated loci, but rather emerged through a process such as habitat choice, which reduces gene flow between habitats across the entire genome. The pattern of genomic isolation-by-environment closely matches differentiation observed at the phenotypic level, thereby offering significant potential for future inference of phenotype-genotype associations in a heterogeneous environment.
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Affiliation(s)
- M Szulkin
- Centre d'Ecologie Fonctionnelle et Evolutive, UMR 5175 Campus CNRS, 1919 Route de Mende, 34293, Montpellier Cedex 5, France
| | - P-A Gagnaire
- Université Montpellier 2, Place Eugène Bataillon, 34095, Montpellier Cedex 5, France.,ISEM - CNRS, UMR 5554, SMEL, 2 rue des Chantiers, 34200, Sète, France
| | - N Bierne
- Université Montpellier 2, Place Eugène Bataillon, 34095, Montpellier Cedex 5, France.,ISEM - CNRS, UMR 5554, SMEL, 2 rue des Chantiers, 34200, Sète, France
| | - A Charmantier
- Centre d'Ecologie Fonctionnelle et Evolutive, UMR 5175 Campus CNRS, 1919 Route de Mende, 34293, Montpellier Cedex 5, France
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23
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Camacho C, Sáez P, Sánchez S, Palacios S, Molina C, Potti J. The road to opportunities: landscape change promotes body-size divergence in a highly mobile species. Curr Zool 2016; 62:7-14. [PMID: 29491885 PMCID: PMC5804134 DOI: 10.1093/cz/zov008] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2015] [Accepted: 04/23/2015] [Indexed: 11/16/2022] Open
Abstract
Landscape change provides a suitable framework for investigating population-level responses to novel ecological pressures. However, relatively little attention has been paid to examine the potential influence of landscape change on the geographic scale of population differentiation. Here, we tested for morphological differentiation of red-necked nightjars Caprimulgus ruficollis breeding in a managed property and a natural reserve situated less than 10 km apart. At both sites, we also estimated site fidelity over 5 years and quantified the potential foraging opportunities for nightjars. Breeding birds in the managed habitat were significantly larger in size—as indexed by keel length—than those in the natural one. However, there were no significant differences in wing or tail length. Immigration from neighboring areas was almost negligible and, furthermore, no individual (out of 1130 captures overall) exchanged habitats between years, indicating strong site fidelity. Food supply for nightjars was equally abundant in both habitats, but the availability of foraging sites was remarkably higher in the managed property. As a result, nightjars—particularly fledglings—in the latter habitat benefited from increased foraging opportunities in relation to those in the natural site. It seems likely that the fine-scale variation in nightjar morphology reflects a phenotypic response to unequal local conditions, since non-random dispersal or differential mortality had been determined not to be influential. High site fidelity appears to contribute to the maintenance of body-size differences between the two habitats. Results from this nightjar population highlight the potential of human-induced landscape change to promote population-level responses at exceedingly small geographic scales.
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Affiliation(s)
- Carlos Camacho
- Department of Evolutionary Ecology, Estación Biológica de Doñana-CSIC, Av. Américo Vespucio, 41092 Seville, Spain
| | - Pedro Sáez
- Department of Environmental Biology and Public Health. University of Huelva. Av. Andalucía, 21071 Huelva, Spain
| | - Sonia Sánchez
- Department of Evolutionary Ecology, Estación Biológica de Doñana-CSIC, Av. Américo Vespucio, 41092 Seville, Spain
| | - Sebastián Palacios
- Department of Conservation Biology, Estación Biológica de Doñana-CSIC, Av. Américo Vespucio, 41092 Seville, Spain, and
| | - Carlos Molina
- Sociedad Española de Ornitología. Centro Ornitológico Francisco Bernis. Paseo Marismeño sn, 21750 Huelva, Spain
| | - Jaime Potti
- Department of Evolutionary Ecology, Estación Biológica de Doñana-CSIC, Av. Américo Vespucio, 41092 Seville, Spain
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24
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Lemoine M, Lucek K, Perrier C, Saladin V, Adriaensen F, Barba E, Belda EJ, Charmantier A, Cichoń M, Eeva T, Grégoire A, Hinde CA, Johnsen A, Komdeur J, Mänd R, Matthysen E, Norte AC, Pitala N, Sheldon BC, Slagsvold T, Tinbergen JM, Török J, Ubels R, van Oers K, Visser ME, Doligez B, Richner H. Low but contrasting neutral genetic differentiation shaped by winter temperature in European great tits. Biol J Linn Soc Lond 2016. [DOI: 10.1111/bij.12745] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Affiliation(s)
- Mélissa Lemoine
- Institute for Evolutionary Biology and Environmental Studies; University of Zurich; Winterthurerstrasse 190 CH-8057 Zurich Switzerland
| | - Kay Lucek
- Aquatic Ecology and Evolution; Institute of Ecology and Evolution; University of Bern; Baltzerstrasse 6 CH-3012 Bern Switzerland
- Department of Animal and Plant Sciences; University of Sheffield; Sheffield S10 2TN UK
| | - Charles Perrier
- Centre d'Ecologie Fonctionnelle et Evolutive; Unité Mixte de Recherche 5175; 1919 Route de Mende FR-34293 Montpellier Cedex 5 France
| | - Verena Saladin
- Division of Evolutionary Ecology; Institute of Ecology and Evolution; University of Bern; Baltzerstrasse 6 CH-3012 Bern Switzerland
| | - Frank Adriaensen
- Evolutionary Ecology Group; Department of Biology; University of Antwerp; BE-2020 Antwerp Belgium
| | - Emilio Barba
- Cavanilles’ Institute of Biodiversity and Evolutionary Biology; University of Valencia; C/Catedrático José Beltrán 2 46980 Paterna Spain
| | - Eduardo J. Belda
- Instituto de Investigación para la Gestión Integrada de Zonas Costeras-IGIC; U.P.V.; C/Paranínfo n° 1 ES-46730 Gandia Valencia Spain
| | - Anne Charmantier
- Centre d'Ecologie Fonctionnelle et Evolutive; Unité Mixte de Recherche 5175; 1919 Route de Mende FR-34293 Montpellier Cedex 5 France
| | - Mariusz Cichoń
- Institute of Environmental Sciences; Jagiellonian University; Gronostajowa 7 30-387 Kraków Poland
| | - Tapio Eeva
- Department of Biology; University of Turku; FI-20014 Turku Finland
| | - Arnaud Grégoire
- Centre d'Ecologie Fonctionnelle et Evolutive; Unité Mixte de Recherche 5175; 1919 Route de Mende FR-34293 Montpellier Cedex 5 France
| | - Camilla A. Hinde
- Behavioural Ecology Group; Department of Animal Sciences; Wageningen University; 6700 AH Wageningen The Netherlands
| | - Arild Johnsen
- Natural History Museum; University of Oslo; PO Box 1172 Blindern NO-0318 Oslo Norway
| | - Jan Komdeur
- Behavioural Ecology and Self-organization; Centre for Ecological and Evolutionary studies; University of Groningen; PO Box 11103 NL-9747 AG Groningen The Netherlands
| | - Raivo Mänd
- Department of Zoology; Institute of Ecology and Earth Sciences; University of Tartu; Vanemuise 46 Tartu EE-51014 Estonia
| | - Erik Matthysen
- Evolutionary Ecology Group; Department of Biology; University of Antwerp; BE-2020 Antwerp Belgium
| | - Ana Cláudia Norte
- Department of Life Sciences; Largo Marquês de Pombal; Faculty of Sciences and Technology; Marine and Environmental Sciences Centre (MARE); University of Coimbra; 3004-517 Coimbra Portugal
| | - Natalia Pitala
- Department of Biological and Environmental Science; University of Jyväskylä; PO Box 35 FI-40014 Finland
| | - Ben C. Sheldon
- Edward Grey Institute of Field Ornithology; Department of Zoology; University of Oxford; South Parks Road Oxford OX1 3PS England
| | - Tore Slagsvold
- Centre for Ecological and Evolutionary Synthesis (CEES); Department of Biosciences; University of Oslo; PO Box 1066 Blindern NO-0316 Oslo Norway
| | - Joost M. Tinbergen
- Animal Ecology Group; Centre for Ecological and Evolutionary Studies; University of Groningen; PO Box 11103 NL-9747 AG Groningen The Netherlands
| | - János Török
- Behavioural Ecology Group; Department of Systematic Zoology and Ecology; Eötvös Loránd University; Pázmány Péter sétány 1/c 1117 Budapest Hungary
| | - Richard Ubels
- Animal Ecology Group; Centre for Ecological and Evolutionary Studies; University of Groningen; PO Box 11103 NL-9747 AG Groningen The Netherlands
| | - Kees van Oers
- Department of Animal Ecology; Netherlands Institute of Ecology (NIOO-KNAW); PO Box 50; 6700 AB Wageningen The Netherlands
| | - Marcel E. Visser
- Department of Animal Ecology; Netherlands Institute of Ecology (NIOO-KNAW); PO Box 50; 6700 AB Wageningen The Netherlands
| | - Blandine Doligez
- Department of Biometry and Evolutionary Biology; CNRS, University of Lyon, UMR 5558; F-69622 Villeurbanne Cedex France
- Animal Ecology/Department of Ecology and Genetics; Evolutionary Biology Centre; Uppsala University; Norbyvägen 18d SE-752 36 Uppsala Sweden
| | - Heinz Richner
- Division of Evolutionary Ecology; Institute of Ecology and Evolution; University of Bern; Baltzerstrasse 6 CH-3012 Bern Switzerland
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25
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Wrange AL, Charrier G, Thonig A, Alm Rosenblad M, Blomberg A, Havenhand JN, Jonsson PR, André C. The Story of a Hitchhiker: Population Genetic Patterns in the Invasive Barnacle Balanus(Amphibalanus) improvisus Darwin 1854. PLoS One 2016; 11:e0147082. [PMID: 26821161 PMCID: PMC4731558 DOI: 10.1371/journal.pone.0147082] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2015] [Accepted: 12/27/2015] [Indexed: 11/17/2022] Open
Abstract
Understanding the ecological and evolutionary forces that determine the genetic structure and spread of invasive species is a key component of invasion biology. The bay barnacle, Balanus improvisus (= Amphibalanus improvisus), is one of the most successful aquatic invaders worldwide, and is characterised by broad environmental tolerance. Although the species can spread through natural larval dispersal, human-mediated transport through (primarily) shipping has almost certainly contributed to the current global distribution of this species. Despite its worldwide distribution, little is known about the phylogeography of this species. Here, we characterize the population genetic structure and model dispersal dynamics of the barnacle B. improvisus, and describe how human-mediated spreading via shipping as well as natural larval dispersal may have contributed to observed genetic variation. We used both mitochondrial DNA (cytochrome c oxidase subunit I: COI) and nuclear microsatellites to characterize the genetic structure in 14 populations of B. improvisus on a global and regional scale (Baltic Sea). Genetic diversity was high in most populations, and many haplotypes were shared among populations on a global scale, indicating that long-distance dispersal (presumably through shipping and other anthropogenic activities) has played an important role in shaping the population genetic structure of this cosmopolitan species. We could not clearly confirm prior claims that B. improvisus originates from the western margins of the Atlantic coasts; although there were indications that Argentina could be part of a native region. In addition to dispersal via shipping, we show that natural larval dispersal may play an important role for further colonisation following initial introduction.
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Affiliation(s)
- Anna-Lisa Wrange
- University of Gothenburg, Department of Marine Sciences-Tjärnö, Sweden
| | - Gregory Charrier
- Institut Universitaire Européen de la Mer (IUEM), Technopôle Brest-Iroise, Plouzané, France
| | - Anne Thonig
- Roskilde University, Department of Environmental, Social and Spatial Change, Roskilde, Denmark
| | - Magnus Alm Rosenblad
- University of Gothenburg, Department of Chemistry and Molecular Biology, Gothenburg, Sweden
| | - Anders Blomberg
- University of Gothenburg, Department of Chemistry and Molecular Biology, Gothenburg, Sweden
| | | | - Per R Jonsson
- University of Gothenburg, Department of Marine Sciences-Tjärnö, Sweden
| | - Carl André
- University of Gothenburg, Department of Marine Sciences-Tjärnö, Sweden
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26
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Ferrer ES, García-Navas V, Bueno-Enciso J, Barrientos R, Serrano-Davies E, Cáliz-Campal C, Sanz JJ, Ortego J. The influence of landscape configuration and environment on population genetic structure in a sedentary passerine: insights from loci located in different genomic regions. J Evol Biol 2015; 29:205-19. [DOI: 10.1111/jeb.12776] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2015] [Revised: 10/07/2015] [Accepted: 10/12/2015] [Indexed: 11/29/2022]
Affiliation(s)
- E. S. Ferrer
- Grupo de Investigación de la Biodiversidad Genética y Cultural; Instituto de Investigación en Recursos Cinegéticos (CSIC-UCLM-JCCM); Ciudad Real Spain
- Departamento de Ciencias Ambientales; Facultad de Ciencias Ambientales y Bioquímica; Universidad de Castilla-La Mancha; Toledo Spain
| | - V. García-Navas
- Grupo de Investigación de la Biodiversidad Genética y Cultural; Instituto de Investigación en Recursos Cinegéticos (CSIC-UCLM-JCCM); Ciudad Real Spain
- Departamento de Ciencias Ambientales; Facultad de Ciencias Ambientales y Bioquímica; Universidad de Castilla-La Mancha; Toledo Spain
- Institute of Evolutionary Biology and Environmental Studies; University of Zurich; Zurich Switzerland
| | - J. Bueno-Enciso
- Departamento de Ciencias Ambientales; Facultad de Ciencias Ambientales y Bioquímica; Universidad de Castilla-La Mancha; Toledo Spain
| | - R. Barrientos
- Departamento de Ciencias Ambientales; Facultad de Ciencias Ambientales y Bioquímica; Universidad de Castilla-La Mancha; Toledo Spain
| | - E. Serrano-Davies
- Departamento de Ciencias Ambientales; Facultad de Ciencias Ambientales y Bioquímica; Universidad de Castilla-La Mancha; Toledo Spain
| | - C. Cáliz-Campal
- Grupo de Investigación de la Biodiversidad Genética y Cultural; Instituto de Investigación en Recursos Cinegéticos (CSIC-UCLM-JCCM); Ciudad Real Spain
- Department of Integrative Ecology; Estación Biológica de Doñana (EBD-CSIC); Seville Spain
| | - J. J. Sanz
- Departamento de Ecología Evolutiva; Museo Nacional de Ciencias Naturales (CSIC); Madrid Spain
| | - J. Ortego
- Department of Integrative Ecology; Estación Biológica de Doñana (EBD-CSIC); Seville Spain
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27
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Alvarado‐Serrano DF, Hickerson MJ. Spatially explicit summary statistics for historical population genetic inference. Methods Ecol Evol 2015. [DOI: 10.1111/2041-210x.12489] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Affiliation(s)
| | - Michael J. Hickerson
- Biology Department The City College of New York City University of New York New York NY 10031 USA
- Program in Ecology, Evolutionary Biology & Behavior The Graduate Center City University of New York (CUNY) New York NY 10016 USA
- Division of Invertebrate Zoology American Museum of Natural History New York NY 10024 USA
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28
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Aykanat T, Johnston SE, Orell P, Niemelä E, Erkinaro J, Primmer CR. Low but significant genetic differentiation underlies biologically meaningful phenotypic divergence in a large Atlantic salmon population. Mol Ecol 2015; 24:5158-74. [DOI: 10.1111/mec.13383] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2015] [Revised: 09/04/2015] [Accepted: 09/09/2015] [Indexed: 01/13/2023]
Affiliation(s)
- Tutku Aykanat
- Division of Genetics and Physiology; Department of Biology; University of Turku; Itäinen Pitkäkatu 4 Turku FI-20520 Finland
| | - Susan E. Johnston
- Division of Genetics and Physiology; Department of Biology; University of Turku; Itäinen Pitkäkatu 4 Turku FI-20520 Finland
- Institute of Evolutionary Biology; University of Edinburgh; Charlotte Auerbach Road Edinburgh EH9 3FL UK
| | - Panu Orell
- Natural Resources Institute Finland; Utsjoki FI-99980 Finland
| | - Eero Niemelä
- Natural Resources Institute Finland; Utsjoki FI-99980 Finland
| | - Jaakko Erkinaro
- Natural Resources Institute Finland; Utsjoki FI-99980 Finland
| | - Craig R. Primmer
- Division of Genetics and Physiology; Department of Biology; University of Turku; Itäinen Pitkäkatu 4 Turku FI-20520 Finland
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29
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Cézilly F, Quinard A, Motreuil S, Pradel R. Adult survival selection in relation to multilocus heterozygosity and body size in a tropical bird species, the Zenaida dove, Zenaida aurita. Oecologia 2015; 180:127-36. [PMID: 26433960 DOI: 10.1007/s00442-015-3466-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2015] [Accepted: 09/23/2015] [Indexed: 01/10/2023]
Abstract
Both phenotypic and genetic quality can influence the survival of individuals through time, although their relative influences are rarely addressed simultaneously. Here we used capture-mark-recapture modelling to assess the influence of both multilocus heterozygosity (MLH) and body size on apparent adult survival in a tropical bird species, the Zenaida dove, Zenaida aurita, using a sample of 391 individuals genotyped at 11 microsatellites, while controlling for the effects of sex. No effect of body size on either adult survival or capture rate was found. In the best model, survival was a logit linear function of MLH, whereas detection probability was a sex-dependent logit linear function of the logarithm of field effort, increasing with time and affected by a random individual effect. Using a Bayesian approach, we found that MLH explained 1.14% of the total deviance, as expected from theory and previous studies of heterozygosity-fitness correlations, with no evidence for local effects. However, results from capture-mark-recapture modelling indicated that expected longevity varied from 4.8 years in the least heterozygous individuals (MLH = 0.37) to 10.6 years in the most heterozygous ones (MLH = 1), thus suggesting that MLH had potentially a substantial effect on survival. We discuss our results in relation to current hypotheses about the origin of heterozygosity-fitness correlations.
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Affiliation(s)
- Frank Cézilly
- Université de Bourgogne, UMR CNRS 6282 Biogéosciences, 6 boulevard Gabriel, 21000, Dijon, France.
| | - Aurélie Quinard
- Université de Bourgogne, UMR CNRS 6282 Biogéosciences, 6 boulevard Gabriel, 21000, Dijon, France
| | - Sébastien Motreuil
- Université de Bourgogne, UMR CNRS 6282 Biogéosciences, 6 boulevard Gabriel, 21000, Dijon, France
| | - Roger Pradel
- CEFE UMR 5175, CNRS, Université de Montpellier, Université Paul-Valéry Montpellier, EPHE, Montpellier, France
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30
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Manthey JD, Moyle RG. Isolation by environment in White-breasted Nuthatches (Sitta carolinensis) of the Madrean Archipelago sky islands: a landscape genomics approach. Mol Ecol 2015; 24:3628-38. [DOI: 10.1111/mec.13258] [Citation(s) in RCA: 74] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2015] [Accepted: 05/29/2015] [Indexed: 12/31/2022]
Affiliation(s)
- Joseph D. Manthey
- Biodiversity Institute and Department of Ecology and Evolutionary Biology; University of Kansas; Lawrence KS 66045 USA
| | - Robert G. Moyle
- Biodiversity Institute and Department of Ecology and Evolutionary Biology; University of Kansas; Lawrence KS 66045 USA
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31
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Radersma R, Sheldon BC. A new permutation technique to explore and control for spatial autocorrelation. Methods Ecol Evol 2015. [DOI: 10.1111/2041-210x.12390] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Reinder Radersma
- Department of Zoology Edward Grey Institute University of Oxford Oxford OX1 3PS UK
- Department of Biology Lund University 22100 Lund Sweden
| | - Ben C. Sheldon
- Department of Zoology Edward Grey Institute University of Oxford Oxford OX1 3PS UK
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32
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Graham CF, Glenn TC, McArthur AG, Boreham DR, Kieran T, Lance S, Manzon RG, Martino JA, Pierson T, Rogers SM, Wilson JY, Somers CM. Impacts of degraded
DNA
on restriction enzyme associated
DNA
sequencing (
RADS
eq). Mol Ecol Resour 2015; 15:1304-15. [DOI: 10.1111/1755-0998.12404] [Citation(s) in RCA: 84] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2014] [Revised: 03/04/2015] [Accepted: 03/06/2015] [Indexed: 12/01/2022]
Affiliation(s)
- Carly F. Graham
- Department of Biology University of Regina Regina Saskatchewan S4S 0A2 Canada
| | - Travis C. Glenn
- College of Public Health University of Georgia Athens GA 30602 USA
| | - Andrew G. McArthur
- M.G. DeGroote Institute for Infectious Disease Research Department of Biochemistry and Biomedical Sciences DeGroote School of Medicine McMaster University 1280 Main Street West Hamilton Ontario L8S 4K1 Canada
| | - Douglas R. Boreham
- Medical Sciences Northern Ontario School of Medicine Greater Sudbury Ontario P0M Canada
| | - Troy Kieran
- College of Public Health University of Georgia Athens GA 30602 USA
| | - Stacey Lance
- Savannah River Ecology Laboratory University of Georgia Athens GA 30602 USA
| | - Richard G. Manzon
- Department of Biology University of Regina Regina Saskatchewan S4S 0A2 Canada
| | - Jessica A. Martino
- Department of Biology University of Regina Regina Saskatchewan S4S 0A2 Canada
| | - Todd Pierson
- College of Public Health University of Georgia Athens GA 30602 USA
| | - Sean M. Rogers
- Department of Biological Sciences University of Calgary Calgary Alberta T2N 1N4 Canada
| | - Joanna Y. Wilson
- Department of Biology McMaster University Hamilton Ontario L8S 4M1 Canada
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33
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Arendt JD. Effects of dispersal plasticity on population divergence and speciation. Heredity (Edinb) 2015; 115:306-11. [PMID: 25806544 DOI: 10.1038/hdy.2015.21] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2014] [Revised: 02/15/2015] [Accepted: 02/18/2015] [Indexed: 02/01/2023] Open
Abstract
Phenotypic plasticity is thought to have a role in driving population establishment, local adaptation and speciation. However, dispersal plasticity has been underappreciated in this literature. Plasticity in the decision to disperse is taxonomically widespread and I provide examples for insects, molluscs, polychaetes, vertebrates and flowering plants. Theoretical work is limited but indicates an interaction between dispersal distance and plasticity in the decision to disperse. When dispersal is confined to adjacent patches, dispersal plasticity may enhance local adaptation over unconditional (non-plastic) dispersal. However, when dispersal distances are greater, plasticity in dispersal decisions strongly reduces the potential for local adaptation and population divergence. Upon dispersal, settlement may be random, biased but genetically determined, or biased but plastically determined. Theory shows that biased settlement of either type increases population divergence over random settlement. One model suggests that plasticity further enhances chances of speciation. However, there are many strategies for deciding on where to settle such as a best-of-N strategy, sequential sampling with a threshold for acceptance or matching with natal habitat. To date, these strategies do not seem to have been compared within a single model. Although we are just beginning to explore evolutionary effects of dispersal plasticity, it clearly has the potential to enhance as well as inhibit population divergence. Additional work should pay particular attention to dispersal distance and the strategy used to decide on where to settle.
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Affiliation(s)
- J D Arendt
- Department of Biology, University of California at Riverside, Riverside, CA, USA
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34
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Sepil I, Radersma R, Santure AW, De Cauwer I, Slate J, Sheldon BC. No evidence for MHC class I-based disassortative mating in a wild population of great tits. J Evol Biol 2015; 28:642-54. [DOI: 10.1111/jeb.12600] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2014] [Revised: 01/07/2015] [Accepted: 01/23/2015] [Indexed: 11/28/2022]
Affiliation(s)
- I. Sepil
- Department of Zoology; Edward Grey Institute; University of Oxford; Oxford UK
| | - R. Radersma
- Department of Zoology; Edward Grey Institute; University of Oxford; Oxford UK
| | - A. W. Santure
- Department of Animal and Plant Sciences; University of Sheffield; Sheffield UK
- School of Biological Sciences; The University of Auckland; Auckland New Zealand
| | - I. De Cauwer
- Department of Animal and Plant Sciences; University of Sheffield; Sheffield UK
- Laboratoire de Génétique et Evolution des Populations Végétales; UMR CNRS 8198; Université des Sciences et Technologies de Lille-Lille 1; Villeneuve d'Ascq Cedex France
| | - J. Slate
- Department of Animal and Plant Sciences; University of Sheffield; Sheffield UK
| | - B. C. Sheldon
- Department of Zoology; Edward Grey Institute; University of Oxford; Oxford UK
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35
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Wang C, Lu X. Dispersal in Kin Coalition Throughout the Non-Breeding Season to Facilitate Fine-Scale Genetic Structure in the Breeding Season: Evidence From a Small Passerine. Ethology 2014. [DOI: 10.1111/eth.12273] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Chen Wang
- Department of Zoology; College of Life Sciences; Wuhan University; Wuhan China
| | - Xin Lu
- Department of Zoology; College of Life Sciences; Wuhan University; Wuhan China
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36
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García-Navas V, Ferrer ES, Sanz JJ, Ortego J. The role of immigration and local adaptation on fine-scale genotypic and phenotypic population divergence in a less mobile passerine. J Evol Biol 2014; 27:1590-603. [DOI: 10.1111/jeb.12412] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2014] [Revised: 03/18/2014] [Accepted: 04/11/2014] [Indexed: 11/28/2022]
Affiliation(s)
- V. García-Navas
- Grupo de Investigación de la Biodiversidad Genética y Cultural; Instituto de Investigación en Recursos Cinegéticos (CSIC-UCLM-JCCM); Ciudad Real Spain
- Departamento de Ciencias Ambientales; Facultad de Ciencias Ambientales y Bioquímica; Universidad de Castilla-La Mancha; Toledo Spain
| | - E. S. Ferrer
- Grupo de Investigación de la Biodiversidad Genética y Cultural; Instituto de Investigación en Recursos Cinegéticos (CSIC-UCLM-JCCM); Ciudad Real Spain
- Departamento de Ciencias Ambientales; Facultad de Ciencias Ambientales y Bioquímica; Universidad de Castilla-La Mancha; Toledo Spain
| | - J. J. Sanz
- Departamento de Ecología Evolutiva; Museo Nacional de Ciencias Naturales (CSIC); Madrid Spain
| | - J. Ortego
- Grupo de Investigación de la Biodiversidad Genética y Cultural; Instituto de Investigación en Recursos Cinegéticos (CSIC-UCLM-JCCM); Ciudad Real Spain
- Conservation and Evolutionary Genetics Group; Department of Integrative Ecology; Estación Biológica de Doñana (EBD-CSIC); Seville Spain
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37
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Knowles SCL, Wood MJ, Alves R, Sheldon BC. Dispersal in a patchy landscape reveals contrasting determinants of infection in a wild avian malaria system. J Anim Ecol 2013; 83:429-39. [DOI: 10.1111/1365-2656.12154] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2013] [Accepted: 09/14/2013] [Indexed: 11/30/2022]
Affiliation(s)
- Sarah C. L. Knowles
- Department of Zoology; Edward Grey Institute; University of Oxford; South Parks Road Oxford OX1 3PS UK
- Department of Infectious Disease Epidemiology; Imperial College London; St Mary's Campus, Norfolk Place London W2 1PG UK
| | - Matthew J. Wood
- Department of Zoology; Edward Grey Institute; University of Oxford; South Parks Road Oxford OX1 3PS UK
- Department of Natural and Social Sciences; University of Gloucestershire; Francis Close Hall Cheltenham GL50 4AZ UK
| | - Ricardo Alves
- Department of Zoology; Edward Grey Institute; University of Oxford; South Parks Road Oxford OX1 3PS UK
| | - Ben C. Sheldon
- Department of Zoology; Edward Grey Institute; University of Oxford; South Parks Road Oxford OX1 3PS UK
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38
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Affiliation(s)
- K. Petren
- Department of Biological Sciences; University of Cincinnati; Cincinnati Ohio 45221
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39
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Bourgeois YXC, Lhuillier E, Cézard T, Bertrand JAM, Delahaie B, Cornuault J, Duval T, Bouchez O, Milá B, Thébaud C. Mass production of
SNP
markers in a nonmodel passerine bird through
RAD
sequencing and contig mapping to the zebra finch genome. Mol Ecol Resour 2013; 13:899-907. [DOI: 10.1111/1755-0998.12137] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2013] [Revised: 05/24/2013] [Accepted: 06/04/2013] [Indexed: 01/01/2023]
Affiliation(s)
- Yann X. C. Bourgeois
- Laboratoire Évolution et Diversité Biologique UMR 5174 CNRS ‐ Université Paul Sabatier – ENFA 118 route de Narbonne, Bâtiment 4R1 F‐31062 Toulouse Cedex 9 France
| | - Emeline Lhuillier
- INRA UAR 1209 Département de Génétique Animale INRA Auzeville F‐31326 Castanet‐Tolosan France
- GeT‐PlaGe Genotoul INRA Auzeville F‐31326 Castanet‐Tolosan France
| | - Timothée Cézard
- The GenePool Ashworth Laboratories The University of Edinburgh The King's Building Edinburgh EH9 3JT UK
| | - Joris A. M. Bertrand
- Laboratoire Évolution et Diversité Biologique UMR 5174 CNRS ‐ Université Paul Sabatier – ENFA 118 route de Narbonne, Bâtiment 4R1 F‐31062 Toulouse Cedex 9 France
| | - Boris Delahaie
- Laboratoire Évolution et Diversité Biologique UMR 5174 CNRS ‐ Université Paul Sabatier – ENFA 118 route de Narbonne, Bâtiment 4R1 F‐31062 Toulouse Cedex 9 France
| | - Josselin Cornuault
- Laboratoire Évolution et Diversité Biologique UMR 5174 CNRS ‐ Université Paul Sabatier – ENFA 118 route de Narbonne, Bâtiment 4R1 F‐31062 Toulouse Cedex 9 France
| | - Thomas Duval
- Société Calédonienne d'Ornithologie Nord BP 236 F‐98822 Poindimié Nouvelle Calédonie France
| | - Olivier Bouchez
- GeT‐PlaGe Genotoul INRA Auzeville F‐31326 Castanet‐Tolosan France
- INRA UMR 444 Laboratoire de Génétique Cellulaire INRA Auzeville F‐31326 Castanet‐Tolosan France
| | - Borja Milá
- Museo Nacional de Ciencias Naturales CSIC José Gutiérrez Abascal 2 Madrid 28006 Spain
| | - Christophe Thébaud
- Laboratoire Évolution et Diversité Biologique UMR 5174 CNRS ‐ Université Paul Sabatier – ENFA 118 route de Narbonne, Bâtiment 4R1 F‐31062 Toulouse Cedex 9 France
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40
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Freas C, Bingman K, LaDage L, Pravosudov V. Untangling Elevation-Related Differences in the Hippocampus in Food-Caching Mountain Chickadees: The Effect of a Uniform Captive Environment. BRAIN, BEHAVIOR AND EVOLUTION 2013; 82:199-209. [DOI: 10.1159/000355503] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2013] [Accepted: 09/03/2013] [Indexed: 11/19/2022]
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