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Kaminsin D, Warrit N, Sankhom R, Piamsanga K, Sanannu S, Baicharoen S, Wiwegweaw A. Detecting introgressive hybridization to maintain genetic integrity in endangered large waterbird: a case study in milky stork. Sci Rep 2023; 13:8892. [PMID: 37264039 DOI: 10.1038/s41598-023-35566-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2022] [Accepted: 05/20/2023] [Indexed: 06/03/2023] Open
Abstract
Hybridization between milky stork (Mycteria cinerea) and painted stork (M. leucocephala) occurs frequently in captivity. Dusit Zoo is a captive breeding facility where storks with phenotypically ambiguous patterns have recently been observed, and their status remaining inconclusive. Here, we used a combination of phenotypic characters and genetic markers (cytochrome b and 14 microsatellite markers) to distinguish and identify hybrids from the two parental species (n = 114). Haplotype analysis revealed asymmetric mtDNA introgression from M. cinerea to M. leucocephala, with twelve morphologically classified M. leucocephala individuals carrying heterospecific mtDNA. Comprehensive biparental genetic assessments identified 33% of all three genetic clusters as admixed individuals, of which most were either F2 hybrids, backcrosses with M. leucocephala, or hybrids of unknown generation, implying weak premating isolation with the absence of intrinsic postzygotic isolation between parentals. Morphological analysis demonstrated that the absence or indistinctness of a black bar across the breast is the most noticeable trait to identify these hybrids. The endangered M. cinerea was found to have genomic contamination from M. leucocephala and vice versa, with at least 41 hybrid individuals being identified. These findings provide critical information for detecting hybrids and identifying suitable breeding stocks with genetic purity for future reintroduction and conservation management.
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Affiliation(s)
- Damisa Kaminsin
- Population and Conservation Genetics Laboratory, Department of Biology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Natapot Warrit
- Center of Excellence in Entomology and Department of Biology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Rangsinee Sankhom
- Durrell Institute of Conservation and Ecology, School of Anthropology and Conservation, University of Kent, Canterbury, Kent, CT2 7NR, UK
| | - Krittee Piamsanga
- Population and Conservation Genetics Laboratory, Department of Biology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Saowaphang Sanannu
- Genomic Resource Center, Animal Conservation and Research Institute, The Zoological Park Organization of Thailand, Bangkok, 10300, Thailand
| | - Sudarath Baicharoen
- Genetic Center, Animal Conservation and Research Institute, The Zoological Park Organization of Thailand, Bangkok, 10300, Thailand
| | - Amporn Wiwegweaw
- Population and Conservation Genetics Laboratory, Department of Biology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand.
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2
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Daly EZ, Chabrerie O, Massol F, Facon B, Hess MC, Tasiemski A, Grandjean F, Chauvat M, Viard F, Forey E, Folcher L, Buisson E, Boivin T, Baltora‐Rosset S, Ulmer R, Gibert P, Thiébaut G, Pantel JH, Heger T, Richardson DM, Renault D. A synthesis of biological invasion hypotheses associated with the introduction–naturalisation–invasion continuum. OIKOS 2023. [DOI: 10.1111/oik.09645] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Ella Z. Daly
- Univ. of Rennes, CNRS, ECOBIO (Ecosystèmes, Biodiversité, Evolution), UMR 6553 Rennes France
| | - Olivier Chabrerie
- Univ. de Picardie Jules Verne, UMR 7058 CNRS EDYSAN Amiens Cedex 1 France
| | - Francois Massol
- Univ. Lille, CNRS, Inserm, CHU Lille, Inst. Pasteur de Lille, U1019 – UMR 9017 – CIIL – Center for Infection and Immunity of Lille Lille France
| | - Benoit Facon
- CBGP, INRAE, CIRAD, IRD, Montpellier Institut Agro, Univ. Montpellier Montpellier France
| | - Manon C.M. Hess
- Inst. Méditerranéen de Biodiversité et d'Ecologie Marine et Continentale (IMBE), UMR: Aix Marseille Univ., Avignon Université, CNRS, IRD France
- Inst. de Recherche pour la Conservation des zones Humides Méditerranéennes Tour du Valat, Le Sambuc Arles France
| | - Aurélie Tasiemski
- Univ. Lille, CNRS, Inserm, CHU Lille, Inst. Pasteur de Lille, U1019 – UMR 9017 – CIIL – Center for Infection and Immunity of Lille Lille France
| | - Frédéric Grandjean
- Univ. de Poitiers, UMR CNRS 7267 EBI‐Ecologie et Biologie des Interactions, équipe EES Poitiers Cedex 09 France
| | | | | | - Estelle Forey
- Normandie Univ., UNIROUEN, INRAE, USC ECODIV Rouen France
| | - Laurent Folcher
- ANSES – Agence Nationale de Sécurité Sanitaire de l'Alimentation, de l'Environnement et du Travail, Laboratoire de la Santé des Végétaux – Unité de Nématologie Le Rheu France
| | - Elise Buisson
- Inst. Méditerranéen de Biodiversité et d'Ecologie Marine et Continentale (IMBE), UMR: Aix Marseille Univ., Avignon Université, CNRS, IRD France
| | - Thomas Boivin
- INRAE, UR629 Écologie des Forêts Méditerranéennes, Centre de Recherche Provence‐Alpes‐Côte d'Azur Avignon France
| | | | - Romain Ulmer
- Univ. de Picardie Jules Verne, UMR 7058 CNRS EDYSAN Amiens Cedex 1 France
| | - Patricia Gibert
- UMR 5558 CNRS – Univ. Claude Bernard Lyon 1, Biométrie et Biologie Evolutive, Bât. Gregor Mendel Villeurbanne Cedex France
| | - Gabrielle Thiébaut
- Univ. of Rennes, CNRS, ECOBIO (Ecosystèmes, Biodiversité, Evolution), UMR 6553 Rennes France
| | - Jelena H. Pantel
- Ecological Modelling, Faculty of Biology, Univ. of Duisburg‐Essen Essen Germany
| | - Tina Heger
- Leibniz Inst. of Freshwater Ecology and Inland Fisheries (IGB) Berlin Germany
- Technical Univ. of Munich, Restoration Ecology Freising Germany
| | - David M. Richardson
- Centre for Invasion Biology, Dept. Botany & Zoology, Stellenbosch University Stellenbosch South Africa
- Inst. of Botany, Czech Academy of Sciences Průhonice Czech Republic
| | - David Renault
- Univ. of Rennes, CNRS, ECOBIO (Ecosystèmes, Biodiversité, Evolution), UMR 6553 Rennes France
- Inst. Universitaire de France Paris Cedex 05 France
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3
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Chaplin K, Smith Date K, Bray RD, Miller KA, Lutz ML, Razeng E, Thompson MB, Chapple DG. Intraspecific hybridisation of an invasive lizard on Lord Howe Island. AUST J ZOOL 2022. [DOI: 10.1071/zo21045] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Human-mediated dispersal of animals often acts to bring populations that have been separated for substantial periods of evolutionary time (e.g. millions of years) in their native range into contact in their introduced range. Whether these taxa successfully interbreed in the introduced range provides information on the strength of reproductive isolation amongst them. The invasive delicate skink (Lampropholis delicata) has been accidentally introduced to Lord Howe Island from four genetically divergent (>2 million years) regions of the species’ native range in eastern Australia. We used mitochondrial DNA and microsatellite data to investigate whether the individuals from four of the native-range source regions are interbreeding on Lord Howe Island. Our analyses indicate that intraspecific hybridisation among individuals from all four native-range source regions is occurring. Although there is little evidence for hybrids in the northern end of Lord Howe Island (proportion of hybrids: 0–0.02; n = 31), there is a high proportion of hybrids in the central (0.33–0.69; n = 59) and southern regions (0.38–0.75; n = 8) of the island. Given the strong evidence for interbreeding among all four native-range source regions examined, and the relatively minor morphological, life-history and phenotypic variation among them, we suggest that the delicate skink should continue to be treated as a single, widespread, but variable species.
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Nogueira DM, de Carvalho RS, de Oliveira AM, de Paula TS, Pereira DG, Pissinatti A, Loiola SDO, Carvalho EF, Silva DA, Bergallo HG, Ferreira AMDR. Uniparental genetic markers to investigate hybridization in wild-born marmosets with a mixed phenotype among Callithrix aurita and invasive species. Sci Rep 2022; 12:1487. [PMID: 35087079 PMCID: PMC8795268 DOI: 10.1038/s41598-021-04276-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2021] [Accepted: 12/20/2021] [Indexed: 11/09/2022] Open
Abstract
The native marmoset of the Southeastern Atlantic Forest in Brazil is among the 25 most endangered primates of the world. Hybridization with alien species is one of its main threats registered since the early 2000s based on phenotype, so far, without genetic confirmation. Using uniparental molecular markers, we analyzed 18 putative hybrids, captured from 2004 to 2013 in different localities of the Atlantic Forest. A nine base pair deletion in the SRY gene of C. aurita was used to investigate paternal ancestry. Maternal ancestry was assessed by DNA sequencing of ca. 455 bp from the COX2 gene. Hybridization was confirmed for 16 out of the 18 marmosets since they inherited COX2 haplotypes of the alien C. penicillata or C. jacchus and the SRY deletion specific to C. aurita. Two individuals inherited both parental lineages of C. aurita, which is probably related to backcrossing or hybrid interbreeding. The direction of hybridization of females with the matrilineal lineage of invasive species with males descending from the native lineage was predominant in our sampling. This is the first time that hybridization between C. aurita and invasive species has been confirmed through genetic analysis.
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Affiliation(s)
- Denise Monnerat Nogueira
- Departamento de Genética, Instituto de Ciências Biológicas e da Saúde, Universidade Federal Rural do Rio de Janeiro, BR-465, Km 07, Seropédica, Rio de Janeiro, CEP 23897000, Brazil.
| | | | - Andréa Maria de Oliveira
- Departamento de Genética, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brazil
| | - Thiago Silva de Paula
- Departamento de Genética, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brazil
| | | | - Alcides Pissinatti
- Centro de Primatologia do Rio de Janeiro, INEA, Guapimirim, Rio de Janeiro, Brazil
| | - Silvia de Oliveira Loiola
- Laboratório de Diagnósticos por DNA, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Elizeu Fagundes Carvalho
- Laboratório de Diagnósticos por DNA, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Dayse Aparecida Silva
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Helena Godoy Bergallo
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
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5
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Forsdick NJ, Martini D, Brown L, Cross HB, Maloney RF, Steeves TE, Knapp M. Genomic sequencing confirms absence of introgression despite past hybridisation between a critically endangered bird and its common congener. Glob Ecol Conserv 2021. [DOI: 10.1016/j.gecco.2021.e01681] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
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6
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Lima CS, Magalhães RF, Marmontel M, Meirelles AC, Carvalho VL, Lavergne A, Thoisy BDE, Santos FR. A hybrid swarm of manatees along the Guianas coastline, a peculiar environment under the influence of the Amazon River plume. AN ACAD BRAS CIENC 2019; 91:e20190325. [PMID: 31460594 DOI: 10.1590/0001-3765201920190325] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2019] [Accepted: 07/29/2019] [Indexed: 12/23/2022] Open
Abstract
The West Indian (Trichechus manatus) and Amazonian (T. inunguis) manatees have a sympatric occurrence at the mouth of the Amazon River. A result of this interspecific encounter is the occurrence of hybrids, which are frequently found along the coasts of Amapá state in Brazil, French Guiana and Guyana. Here we present new genetic evidence indicating the occurrence of a hybrid swarm along the Guianas Shield coastline, which is an interspecific hybrid zone that also separates T. manatus populations located east (Brazil) and west (Caribbean, Gulf of Mexico, Florida and Antilles). In addition, we suggest that this hybrid population occupies a peculiar mangrove-rich environment under strong influence of the Amazon River plume, which requires an independent management and should be considered a special conservation area.
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Affiliation(s)
- Camilla S Lima
- Laboratório de Biodiversidade e Evolução Molecular, Departamento de Genética, Ecologia e Evolução, ICB, Universidade Federal de Minas Gerais, Av. Antonio Carlos, 6627, 31270-010 Belo Horizonte, MG, Brazil
| | - Rafael F Magalhães
- Programa de Pós-Graduação em Zoologia, Departamento de Zoologia, ICB, Universidade Federal de Minas Gerais, Av. Antônio Carlos, 6627, 31270-901 Belo Horizonte, MG, Brazil
| | - Miriam Marmontel
- Instituto de Desenvolvimento Sustentável Mamirauá, Estrada do Bexiga, 2584, Fonte Boa, 69553-225 Tefé, AM, Brazil
| | - Ana Carolina Meirelles
- Associação de Pesquisa e Preservação de Ecossistemas Aquáticos/Aquasis, Av. José Alencar, 150, Sesc Iparana, 61627-010 Caucaia, CE, Brazil
| | - Vitor Luz Carvalho
- Associação de Pesquisa e Preservação de Ecossistemas Aquáticos/Aquasis, Av. José Alencar, 150, Sesc Iparana, 61627-010 Caucaia, CE, Brazil
| | - Anne Lavergne
- Institut Pasteur de Guyane, 23 Avenue Pasteur, BP 6010, Cayenne Cedex 97306, French Guiana, France
| | - Benoit DE Thoisy
- Institut Pasteur de Guyane, 23 Avenue Pasteur, BP 6010, Cayenne Cedex 97306, French Guiana, France.,Kwata NGO, 16 Avenue Pasteur, BP 60672 97335, Cayenne, French Guiana, France
| | - Fabrício R Santos
- Laboratório de Biodiversidade e Evolução Molecular, Departamento de Genética, Ecologia e Evolução, ICB, Universidade Federal de Minas Gerais, Av. Antonio Carlos, 6627, 31270-010 Belo Horizonte, MG, Brazil
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7
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Oswald JA, Harvey MG, Remsen RC, Foxworth DU, Dittmann DL, Cardiff SW, Brumfield RT. Evolutionary dynamics of hybridization and introgression following the recent colonization of Glossy Ibis (Aves:Plegadis falcinellus) into the New World. Mol Ecol 2019; 28:1675-1691. [DOI: 10.1111/mec.15008] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2018] [Revised: 12/07/2018] [Accepted: 12/19/2018] [Indexed: 01/03/2023]
Affiliation(s)
- Jessica A. Oswald
- Museum of Natural Science Louisiana State University Baton Rouge Louisiana
- Florida Museum of Natural History University of Florida Gainesville Florida
| | - Michael G. Harvey
- Museum of Natural Science Louisiana State University Baton Rouge Louisiana
- Department of Biological Sciences Louisiana State University Baton Rouge Louisiana
| | - Rosalind C. Remsen
- Museum of Natural Science Louisiana State University Baton Rouge Louisiana
| | - DePaul U. Foxworth
- Museum of Natural Science Louisiana State University Baton Rouge Louisiana
| | - Donna L. Dittmann
- Museum of Natural Science Louisiana State University Baton Rouge Louisiana
| | - Steven W. Cardiff
- Museum of Natural Science Louisiana State University Baton Rouge Louisiana
| | - Robb T. Brumfield
- Museum of Natural Science Louisiana State University Baton Rouge Louisiana
- Department of Biological Sciences Louisiana State University Baton Rouge Louisiana
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8
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Quilodrán CS, Nussberger B, Montoya‐Burgos JI, Currat M. Hybridization and introgression during density-dependent range expansion: European wildcats as a case study. Evolution 2019; 73:750-761. [PMID: 30815854 PMCID: PMC6594108 DOI: 10.1111/evo.13704] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2016] [Accepted: 02/12/2019] [Indexed: 01/03/2023]
Abstract
Interbreeding between historically allopatric species with incomplete reproductive barriers may result when species expand their range. The genetic consequences of such hybridization depend critically on the dynamics of the range expansion. Hybridization models during range expansion have been developed but assume dispersal to be independent from neighboring population densities. However, organisms may disperse because they are attracted by conspecifics or because they prefer depopulated areas. Here, through spatially explicit simulations, we assess the effect of various density-dependent dispersal modes on the introgression between two species. We find huge introgression from the local species into the invasive one with all dispersal modes investigated, even when the hybridization rate is relatively low. This represents a general expectation for neutral genes even if the dispersal modes differ in colonization times and amount of introgression. Invasive individuals attracted by conspecifics need more time to colonize the whole area and are more introgressed by local genes, whereas the opposite is found for solitary individuals. We applied our approach to a recent expansion of European wildcats in the Jura Mountains and the hybridization with domestic cats. We show that the simulations explained better the observed level of introgression at nuclear, mtDNA, and Y chromosome markers, when using solitary dispersal for wildcats instead of random or gregarious dispersal, in accordance with ecological knowledge. Thus, use of density-dependent dispersal models increases the predictive power of the approach.
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Affiliation(s)
- Claudio S. Quilodrán
- Laboratory of Anthropology, Genetics and Peopling History, Department of Genetics and Evolution, Anthropology UnitUniversity of GenevaGenevaSwitzerland
- Laboratory of Vertebrate Evolution, Department of Genetics and EvolutionUniversity of GenevaGenevaSwitzerland
- Department of ZoologyUniversity of OxfordOxfordUnited Kingdom
| | - Beatrice Nussberger
- Institute of Evolutionary Biology and Environmental StudiesUniversity of ZurichZurichSwitzerland
| | - Juan I. Montoya‐Burgos
- Laboratory of Vertebrate Evolution, Department of Genetics and EvolutionUniversity of GenevaGenevaSwitzerland
- Institute of Genetics and Genomics in Geneva (IGE3)GenevaSwitzerland
| | - Mathias Currat
- Laboratory of Anthropology, Genetics and Peopling History, Department of Genetics and Evolution, Anthropology UnitUniversity of GenevaGenevaSwitzerland
- Institute of Genetics and Genomics in Geneva (IGE3)GenevaSwitzerland
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9
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Beninde J, Feldmeier S, Veith M, Hochkirch A. Admixture of hybrid swarms of native and introduced lizards in cities is determined by the cityscape structure and invasion history. Proc Biol Sci 2018; 285:rspb.2018.0143. [PMID: 30051861 DOI: 10.1098/rspb.2018.0143] [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: 01/24/2018] [Accepted: 05/16/2018] [Indexed: 12/15/2022] Open
Abstract
Introductions of non-native lineages increase opportunities for hybridization. Non-native lineages of the common wall lizard, Podarcis muralis, are frequently introduced in cities where they hybridize with native populations. We aimed at unravelling the invasion history and admixture of native and non-native wall lizards in four German cities using citywide, comprehensive sampling. We barcoded and genotyped 826 lizards and tested if gene flow in populations composed of admixed native and introduced lineages is facilitated by similar environmental factors to those in native populations by comparing fine-scale landscape genetic patterns. In cities with non-native lineages, lizards commonly occurred in numerous clusters of hybrid swarms, which showed variable lineage composition, consisting of up to four distinct evolutionary lineages. Hybrid swarms held vast genetic diversity and showed recent admixture with other hybrid swarms. Landscape genetic analyses showed differential effects of cityscape structures across cities, but identified water bodies as strong barriers to gene flow in both native and admixed populations. By contrast, railway tracks facilitated gene flow of admixed populations only. Our study shows that cities represent unique settings for hybridization, caused by multiple introductions of non-native taxa. Cityscape structure and invasion histories of cities will determine future evolutionary pathways at these novel hybrid zones.
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Affiliation(s)
- Joscha Beninde
- Department of Biogeography, Trier University, 54286 Trier, Germany
| | | | - Michael Veith
- Department of Biogeography, Trier University, 54286 Trier, Germany
| | - Axel Hochkirch
- Department of Biogeography, Trier University, 54286 Trier, Germany
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10
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Quilodrán CS, Austerlitz F, Currat M, Montoya-Burgos JI. Cryptic Biological Invasions: a General Model of Hybridization. Sci Rep 2018; 8:2414. [PMID: 29402926 PMCID: PMC5799175 DOI: 10.1038/s41598-018-20543-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2017] [Accepted: 01/19/2018] [Indexed: 12/02/2022] Open
Abstract
The dispersal of non-native genes due to hybridization is a form of cryptic invasion with growing concern in evolution and conservation. This includes the spread of transgenic genes and antibiotic resistance. To investigate how genes and phenotypes are transmitted, we developed a general model that, for the first time, considers concurrently: multiple loci, quantitative and qualitative gene expression, assortative mating, dominance/recessivity inheritance and density-dependent demographic effects. Selection acting on alleles or genotypes can also be incorporated. Our results reveal that the conclusions about how hybridization threatens a species can be biased if they are based on single-gene models, while considering two or more genes can correct this bias. We also show that demography can amplify or balance the genetic effects, evidencing the need of jointly incorporating both processes. By implementing our model in a real case, we show that mallard ducks introduced in New Zealand benefit from hybridization to replace native grey-ducks. Total displacement can take a few generations and occurs by interspecific competition and by competition between hybrids and natives, demonstrating how hybridization may facilitate biological invasions. We argue that our general model represents a powerful tool for the study of a wide range of biological and societal questions.
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Affiliation(s)
- Claudio S Quilodrán
- Department of Zoology, University of Oxford, Oxford, OX1 3PS, United Kingdom.,Laboratory of vertebrate evolution, Department of Genetics and Evolution, University of Geneva, Geneva, Switzerland.,Laboratory of anthropology, genetics and peopling history, Department of Genetics and Evolution-Anthropology Unit, University of Geneva, Geneva, Switzerland
| | - Frédéric Austerlitz
- Laboratory of Eco-Anthropology and Ethnobiology, National Museum of Natural History, National Centre for Scientific Research, University Paris-Diderot, Paris, France
| | - Mathias Currat
- Laboratory of anthropology, genetics and peopling history, Department of Genetics and Evolution-Anthropology Unit, University of Geneva, Geneva, Switzerland.,Institute of Genetics and Genomics in Geneva (IGE3), Geneva, Switzerland
| | - Juan I Montoya-Burgos
- Laboratory of vertebrate evolution, Department of Genetics and Evolution, University of Geneva, Geneva, Switzerland. .,Institute of Genetics and Genomics in Geneva (IGE3), Geneva, Switzerland.
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11
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Oliveira R, Randi E, Mattucci F, Kurushima JD, Lyons LA, Alves PC. Toward a genome-wide approach for detecting hybrids: informative SNPs to detect introgression between domestic cats and European wildcats (Felis silvestris). Heredity (Edinb) 2015; 115:195-205. [PMID: 26103945 DOI: 10.1038/hdy.2015.25] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2014] [Revised: 12/13/2014] [Accepted: 02/03/2015] [Indexed: 01/16/2023] Open
Abstract
Endemic gene pools have been severely endangered by human-mediated hybridization, which is posing new challenges in the conservation of several vertebrate species. The endangered European wildcat is an example of this problem, as several natural populations are suffering introgression of genes from the domestic cat. The implementation of molecular methods for detecting hybridization is crucial for supporting appropriate conservation programs on the wildcat. In this study, genetic variation at 158 single-nucleotide polymorphisms (SNPs) was analyzed in 139 domestic cats, 130 putative European wildcats and 5 captive-bred hybrids (N=274). These SNPs were variable both in wild (HE=0.107) and domestic cats (HE=0.340). Although we did not find any SNP that was private in any population, 22 SNPs were monomorphic in wildcats and pairwise FCT values revealed marked differences between domestic and wildcats, with the most divergent 35 loci providing an average FCT>0.74. The power of all the loci to accurately identify admixture events and discriminate the different hybrid categories was evaluated. Results from simulated and real genotypes show that the 158 SNPs provide successful estimates of admixture, with 100% hybrid individuals (two to three generations in the past) being correctly identified in STRUCTURE and over 92% using the NEWHYBRIDS' algorithm. None of the unclassified cats were wrongly allocated to another hybrid class. Thirty-five SNPs, showing the highest FCT values, provided the most parsimonious panel for robust inferences of parental and first generations of admixed ancestries. This approach may be used to further reconstruct the evolution of wildcat populations and, hopefully, to develop sound conservation guidelines for its legal protection in Europe.
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Affiliation(s)
- R Oliveira
- 1] CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBIO-Laboratório Associado, Vairão, Portugal [2] Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal
| | - E Randi
- 1] Laboratorio di Genetica, Istituto Superiore per la Protezione e la Ricerca Ambientale (ISPRA), Bologna, Italy [2] Department 18/Section of Environmental Engineering, Aalborg University, Aalborg, Denmark
| | - F Mattucci
- Laboratorio di Genetica, Istituto Superiore per la Protezione e la Ricerca Ambientale (ISPRA), Bologna, Italy
| | - J D Kurushima
- Department of Population Health and Reproduction, School of Veterinary Medicine, University of California-Davis, Davis, CA, USA
| | - L A Lyons
- 1] Department of Population Health and Reproduction, School of Veterinary Medicine, University of California-Davis, Davis, CA, USA [2] Department of Veterinary Medicine and Surgery, College of Veterinary Medicine, University of Missouri-Columbia, Columbia, MI, USA
| | - P C Alves
- 1] CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBIO-Laboratório Associado, Vairão, Portugal [2] Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal [3] Wildlife Biology Program, University of Montana, Missoula, MT, USA
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12
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Chunco AJ. Hybridization in a warmer world. Ecol Evol 2014; 4:2019-31. [PMID: 24963394 PMCID: PMC4063493 DOI: 10.1002/ece3.1052] [Citation(s) in RCA: 106] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2013] [Revised: 03/01/2014] [Accepted: 03/11/2014] [Indexed: 01/09/2023] Open
Abstract
Climate change is profoundly affecting the evolutionary trajectory of individual species and ecological communities, in part through the creation of novel species assemblages. How climate change will influence competitive interactions has been an active area of research. Far less attention, however, has been given to altered reproductive interactions. Yet, reproductive interactions between formerly isolated species are inevitable as populations shift geographically and temporally as a result of climate change, potentially resulting in introgression, speciation, or even extinction. The susceptibility of hybridization rates to anthropogenic disturbance was first recognized in the 1930s. To date, work on anthropogenically mediated hybridization has focused primarily on either physical habitat disturbance or species invasion. Here, I review recent literature on hybridization to identify how ecological responses to climate change will increase the likelihood of hybridization via the dissolution of species barriers maintained by habitat, time, or behavior. Using this literature, I identify several cases where novel hybrid zones have recently formed, likely as a result of changing climate. Future research should focus on identifying areas and taxonomic groups where reproductive species interactions are most likely to be influenced by climate change. Furthermore, a better understanding of the evolutionary consequences of climate-mediated secondary contact is urgently needed. Paradoxically, hybridization is both a major conservation concern and an important source of novel genetic and phenotypic variation. Hybridization may therefore both contribute to increasing rates of extinction and stimulate the creation of novel phenotypes that will speed adaptation to novel climates. Predicting which result will occur following secondary contact will be an important contribution to conservation for many species.
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Affiliation(s)
- Amanda J Chunco
- Department of Environmental Studies, Elon University CB 2015, Elon, North Carolina 27244
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Randi E, Hulva P, Fabbri E, Galaverni M, Galov A, Kusak J, Bigi D, Bolfíková BČ, Smetanová M, Caniglia R. Multilocus detection of wolf x dog hybridization in italy, and guidelines for marker selection. PLoS One 2014; 9:e86409. [PMID: 24466077 PMCID: PMC3899229 DOI: 10.1371/journal.pone.0086409] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2013] [Accepted: 12/13/2013] [Indexed: 12/31/2022] Open
Abstract
Hybridization and introgression can impact the evolution of natural populations. Several wild canid species hybridize in nature, sometimes originating new taxa. However, hybridization with free-ranging dogs is threatening the genetic integrity of grey wolf populations (Canis lupus), or even the survival of endangered species (e.g., the Ethiopian wolf C. simensis). Efficient molecular tools to assess hybridization rates are essential in wolf conservation strategies. We evaluated the power of biparental and uniparental markers (39 autosomal and 4 Y-linked microsatellites, a melanistic deletion at the β-defensin CBD103 gene, the hypervariable domain of the mtDNA control-region) to identify the multilocus admixture patterns in wolf x dog hybrids. We used empirical data from 2 hybrid groups with different histories: 30 presumptive natural hybrids from Italy and 73 Czechoslovakian wolfdogs of known hybrid origin, as well as simulated data. We assessed the efficiency of various marker combinations and reference samples in admixture analyses using 69 dogs of different breeds and 99 wolves from Italy, Balkans and Carpathian Mountains. Results confirmed the occurrence of hybrids in Italy, some of them showing anomalous phenotypic traits and exogenous mtDNA or Y-chromosome introgression. Hybridization was mostly attributable to village dogs and not strictly patrilineal. The melanistic β-defensin deletion was found only in Italian dogs and in putative hybrids. The 24 most divergent microsatellites (largest wolf-dog FST values) were equally or more informative than the entire panel of 39 loci. A smaller panel of 12 microsatellites increased risks to identify false admixed individuals. The frequency of F1 and F2 was lower than backcrosses or introgressed individuals, suggesting hybridization already occurred some generations in the past, during early phases of wolf expansion from their historical core areas. Empirical and simulated data indicated the identification of the past generation backcrosses is always uncertain, and a larger number of ancestry-informative markers is needed.
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Affiliation(s)
- Ettore Randi
- Laboratorio di Genetica, Istituto Superiore per la Protezione e Ricerca Ambientale, Ozzano Emilia, Bologna, Italy
- Department 18/Section of Environmental Engineering, Aalborg University, Aalborg, Denmark
| | - Pavel Hulva
- Department of Zoology, Charles University in Prague, Prague, Czech Republic
- Life Science Research Centre, University of Ostrava, Ostrava, Czech Republic
| | - Elena Fabbri
- Laboratorio di Genetica, Istituto Superiore per la Protezione e Ricerca Ambientale, Ozzano Emilia, Bologna, Italy
| | - Marco Galaverni
- Laboratorio di Genetica, Istituto Superiore per la Protezione e Ricerca Ambientale, Ozzano Emilia, Bologna, Italy
| | - Ana Galov
- Department of Biology, Faculty of Science, University of Zagreb, Zagreb, Croatia
| | - Josip Kusak
- Department of Biology, Faculty of Veterinary Medicine, University of Zagreb, Zagreb, Croatia
| | - Daniele Bigi
- Department of Agricultural and Food Science and Technology, University of Bologna, Bologna, Italy
| | | | - Milena Smetanová
- Faculty of Tropical AgriSciences, Czech University of Life Sciences, Prague, Czech Republic
| | - Romolo Caniglia
- Laboratorio di Genetica, Istituto Superiore per la Protezione e Ricerca Ambientale, Ozzano Emilia, Bologna, Italy
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SCHULTE ULRICH, VEITH MICHAEL, HOCHKIRCH AXEL. Rapid genetic assimilation of native wall lizard populations (Podarcis muralis) through extensive hybridization with introduced lineages. Mol Ecol 2012; 21:4313-26. [DOI: 10.1111/j.1365-294x.2012.05693.x] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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