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Alfieri JM, Hingoranee R, Athrey GN, Blackmon H. Domestication is associated with increased interspecific hybrid compatibility in landfowl (order: Galliformes). J Hered 2024; 115:1-10. [PMID: 37769441 PMCID: PMC10838130 DOI: 10.1093/jhered/esad059] [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: 05/16/2023] [Revised: 09/15/2023] [Accepted: 09/26/2023] [Indexed: 09/30/2023] Open
Abstract
Some species are able to hybridize despite being exceptionally diverged. The causes of this variation in accumulation of reproductive isolation remain poorly understood, and domestication as an impetus or hindrance to reproductive isolation remains to be characterized. In this study, we investigated the role of divergence time, domestication, and mismatches in morphology, habitat, and clutch size among hybridizing species on reproductive isolation in the bird order Galliformes. We compiled and analyzed hybridization occurrences from literature and recorded measures of postzygotic reproductive isolation. We used a text-mining approach leveraging a historical aviculture magazine to quantify the degree of domestication across species. We obtained divergence time, morphology, habitat, and clutch size data from open sources. We found 123 species pairs (involving 77 species) with known offspring fertility (sterile, only males fertile, or both sexes fertile). We found that divergence time and clutch size were significant predictors of reproductive isolation (McFadden's Pseudo-R2 = 0.59), but not habitat or morphological mismatch. Perhaps most interesting, we found a significant relationship between domestication and reproductive compatibility after correcting for phylogeny, removing extreme values, and addressing potential biases (F1,74 = 5.43, R2 = 0.06, P-value = 0.02). We speculate that the genetic architecture and disruption in selective reproductive regimes associated with domestication may impact reproductive isolation, causing domesticated species to be more reproductively labile.
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Affiliation(s)
- James M Alfieri
- Interdisciplinary Program in Ecology and Evolutionary Biology, Texas A&M University, College Station, TX, USA
- Department of Poultry Science, Texas A&M University, College Station, TX, USA
- Department of Biology, Texas A&M University, College Station, TX, USA
| | - Reina Hingoranee
- Department of Epidemiology and Biostatistics, Texas A&M University, College Station, TX, USA
| | - Giridhar N Athrey
- Interdisciplinary Program in Ecology and Evolutionary Biology, Texas A&M University, College Station, TX, USA
- Department of Poultry Science, Texas A&M University, College Station, TX, USA
| | - Heath Blackmon
- Interdisciplinary Program in Ecology and Evolutionary Biology, Texas A&M University, College Station, TX, USA
- Department of Biology, Texas A&M University, College Station, TX, USA
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2
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Ottenburghs J. Avian introgression patterns are consistent with Haldane's Rule. J Hered 2022; 113:363-370. [PMID: 35134952 PMCID: PMC9308041 DOI: 10.1093/jhered/esac005] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Accepted: 01/27/2022] [Indexed: 11/13/2022] Open
Abstract
According to Haldane’s Rule, the heterogametic sex will show the greatest fitness reduction in a hybrid cross. In birds, where sex is determined by a ZW system, female hybrids are expected to experience lower fitness compared to male hybrids. This pattern has indeed been observed in several bird groups, but it is unknown whether the generality of Haldane’s Rule also extends to the molecular level. First, given the lower fitness of female hybrids, we can expect maternally inherited loci (i.e., mitochondrial and W-linked loci) to show lower introgression rates than biparentally inherited loci (i.e., autosomal loci) in females. Second, the faster evolution of Z-linked loci compared to autosomal loci and the hemizygosity of the Z-chromosome in females might speed up the accumulation of incompatible alleles on this sex chromosome, resulting in lower introgression rates for Z-linked loci than for autosomal loci. I tested these expectations by conducting a literature review which focused on studies that directly quantified introgression rates for autosomal, sex-linked, and mitochondrial loci. Although most studies reported introgression rates in line with Haldane’s Rule, it remains important to validate these genetic patterns with estimates of hybrid fitness and supporting field observations to rule out alternative explanations. Genomic data provide exciting opportunities to obtain a more fine-grained picture of introgression rates across the genome, which can consequently be linked to ecological and behavioral observations, potentially leading to novel insights into the genetic mechanisms underpinning Haldane’s Rule.
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Affiliation(s)
- Jente Ottenburghs
- Wildlife Ecology and Conservation, Wageningen University & Research, Wageningen, The Netherlands.,Forest Ecology and Forest Management, Wageningen University & Research, Wageningen, The Netherlands
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3
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Ottenburghs J, Harteman J. Sexually dichromatic hybrids between two monochromatic duck species, the Chiloé wigeon and the Philippine duck. Ecol Evol 2021; 11:16409-16412. [PMID: 34938444 PMCID: PMC8668737 DOI: 10.1002/ece3.8253] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2021] [Revised: 09/29/2021] [Accepted: 10/04/2021] [Indexed: 11/29/2022] Open
Abstract
Captive bird hybrids can provide important data on certain traits, such as hybrid viability and fertility. In this paper, we describe four hybrids between the Chiloé wigeon (Anas sibilatrix) and the Philippine duck (Anas luzonica). These two species diverged about 13 million years ago and are found on different continents, making the occurrence of wild hybrids extremely unlikely. Hence, these captive hybrids provide a unique opportunity to learn more about the outcome of hybridization between these highly divergent species. One pair of hybrids mated and produced six unfertilized eggs, suggesting that hybrids between these species are infertile. Morphologically, the hybrids were slightly larger than the parental species, but had intermediate bill lengths. With regard to plumage patterns, the hybrids displayed characteristics of both parental species: Males developed the iridescent green head pattern of the Chiloé wigeon, whereas the females showed the dark crown and eye stripe of the Philippine duck. Interestingly, Chiloé wigeon and Philippine duck are both sexually monochromatic whereas the hybrids showed clear sexual dimorphism. These hybrids can thus lead to novel insights into the genetic and developmental basis of sexual mono- and dichromatism in ducks.
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Affiliation(s)
- Jente Ottenburghs
- Wildlife Ecology and ConservationWageningen University & ResearchWageningenThe Netherlands
- Forest Ecology and Forest ManagementWageningen University & ResearchWageningenThe Netherlands
| | - Jan Harteman
- Harteman Wildfowl AviariesWinssenThe Netherlands
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4
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Matute DR, Cooper BS. Comparative studies on speciation: 30 years since Coyne and Orr. Evolution 2021; 75:764-778. [PMID: 33491225 PMCID: PMC8247902 DOI: 10.1111/evo.14181] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2020] [Revised: 12/16/2020] [Accepted: 12/22/2020] [Indexed: 12/28/2022]
Abstract
Understanding the processes of population divergence and speciation remains a core question in evolutionary biology. For nearly a hundred years evolutionary geneticists have characterized reproductive isolation (RI) mechanisms and specific barriers to gene flow required for species formation. The seminal work of Coyne and Orr provided the first comprehensive comparative analysis of speciation. By combining phylogenetic hypotheses and species range data with estimates of genetic divergence and multiple mechanisms of RI across Drosophila, Coyne and Orr's influential meta-analyses answered fundamental questions and motivated new analyses that continue to push the field forward today. Now 30 years later, we revisit the five questions addressed by Coyne and Orr, identifying results that remain well supported and others that seem less robust with new data. We then consider the future of speciation research, with emphasis on areas where novel methods and data motivate potential progress. While the literature remains biased towards Drosophila and other model systems, we are enthusiastic about the future of the field.
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Affiliation(s)
- Daniel R. Matute
- Biology DepartmentUniversity of North CarolinaChapel HillNorth Carolina27510
| | - Brandon S. Cooper
- Division of Biological SciencesUniversity of MontanaMissoulaMontana59812
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5
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Mariadassou M, Suez M, Sathyakumar S, Vignal A, Arca M, Nicolas P, Faraut T, Esquerré D, Nishibori M, Vieaud A, Chen CF, Manh Pham H, Roman Y, Hospital F, Zerjal T, Rognon X, Tixier-Boichard M. Unraveling the history of the genus Gallus through whole genome sequencing. Mol Phylogenet Evol 2020; 158:107044. [PMID: 33346111 DOI: 10.1016/j.ympev.2020.107044] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2020] [Revised: 10/23/2020] [Accepted: 12/14/2020] [Indexed: 12/16/2022]
Abstract
The genus Gallus is distributed across a large part of Southeast Asia and has received special interest because the domestic chicken, Gallus gallus domesticus, has spread all over the world and is a major protein source for humans. There are four species: the red junglefowl (G. gallus), the green junglefowl (G. varius), the Lafayette's junglefowl (G. lafayettii) and the grey junglefowl (G. sonneratii). The aim of this study is to reconstruct the history of these species by a whole genome sequencing approach and resolve inconsistencies between well supported topologies inferred using different data and methods. Using deep sequencing, we identified over 35 million SNPs and reconstructed the phylogeny of the Gallus genus using both distance (BioNJ) and maximum likelihood (ML) methods. We observed discrepancies according to reconstruction methods and genomic components. The two most supported topologies were previously reported and were discriminated by using phylogenetic and gene flow analyses, based on ABBA statistics. Terminology fix requested by the deputy editor led to support a scenario with G. gallus as the earliest branching lineage of the Gallus genus, instead of G. varius. We discuss the probable causes for the discrepancy. A likely one is that G. sonneratii samples from parks or private collections are all recent hybrids, with roughly 10% of their autosomal genome originating from G. gallus. The removal of those regions is needed to provide reliable data, which was not done in previous studies. We took care of this and additionally included two wild G. sonneratii samples from India, showing no trace of introgression. This reinforces the importance of carefully selecting and validating samples and genomic components in phylogenomics.
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Affiliation(s)
| | - Marie Suez
- Université Paris Saclay, INRAE, MaIAGE, 78350 Jouy-en-Josas, France
| | | | - Alain Vignal
- GenPhySE, Université de Toulouse, INRAE, ENVT, 31326 Castanet Tolosan, France
| | - Mariangela Arca
- Université Paris Saclay, INRAE, MaIAGE, 78350 Jouy-en-Josas, France
| | - Pierre Nicolas
- Université Paris Saclay, INRAE, MaIAGE, 78350 Jouy-en-Josas, France
| | - Thomas Faraut
- GenPhySE, Université de Toulouse, INRAE, ENVT, 31326 Castanet Tolosan, France
| | - Diane Esquerré
- GenPhySE, Université de Toulouse, INRAE, ENVT, 31326 Castanet Tolosan, France; Get-PlaGe, INRAE, 31326 Castanet Tolosan, France
| | - Masahide Nishibori
- Lab. of Animal Genetics, Department of Animal Life Science, Graduate School of Integrated Sciences for Life, Hiroshima University, Higashi-Hiroshima 739-8528, Japan
| | - Agathe Vieaud
- Université Paris Saclay, INRAE, AgroParisTech, GABI, 78350 Jouy-en-Josas, France
| | - Chih-Feng Chen
- Department of Animal Science, iEGG and Animal Biotechnology Center, National Chung-Hsing University, Taichung 40227, Taiwan
| | - Hung Manh Pham
- Faculty of Animal Science, Vietnam National University of Agriculture, Trau Quy Town, Gia Lam District, Ha Noi City, Viet Nam
| | | | - Frédéric Hospital
- Université Paris Saclay, INRAE, AgroParisTech, GABI, 78350 Jouy-en-Josas, France
| | - Tatiana Zerjal
- Université Paris Saclay, INRAE, AgroParisTech, GABI, 78350 Jouy-en-Josas, France
| | - Xavier Rognon
- Université Paris Saclay, INRAE, AgroParisTech, GABI, 78350 Jouy-en-Josas, France
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6
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Backcrossing of a capercaillie × black grouse hybrid male in the wild revealed with molecular markers. EUR J WILDLIFE RES 2020. [DOI: 10.1007/s10344-020-01377-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
AbstractThe black grouse Lyrurus tetrix and the capercaillie Tetrao urogallus are known to produce hybrids in wild populations. In general, these hybrids are regarded as infertile; however, conclusive evidence that F1-hybrids are infertile and unable to backcross in the wild are lacking. Using a molecular approach, we examined the ancestry of a bird assumed to be a male hybrid based on phenotypic characters. The specimen was legally shot during the hunting season in northern Norway in an area where the black grouse is common and the capercaillie is relatively rare. Analysis of the maternally inherited mitochondrial DNA revealed that the mother of the specimen was of capercaillie origin, while a diagnostic sex-chromosome (Z) linked microsatellite marker showed that the father had a black grouse allele. Diagnostic autosomal microsatellite markers revealed that the specimen was a backcross and not a first-generation hybrid. As galliform birds follow Haldane’s rule, i.e., that hybrid sterility is common in the heterogametic sex (female in birds), the hybrid parent of the backcross was, thus, likely a male. Our findings provide molecular evidence that capercaillie × black grouse F1-hybrid males can be fertile and successfully mate and backcross in a wild population.
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7
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Campagna L, Rodriguez P, Mazzulla JC. Transgressive phenotypes and evidence of weak postzygotic isolation in F1 hybrids between closely related capuchino seedeaters. PLoS One 2018; 13:e0199113. [PMID: 29902247 PMCID: PMC6002061 DOI: 10.1371/journal.pone.0199113] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Accepted: 05/31/2018] [Indexed: 11/18/2022] Open
Abstract
Postzygotic reproductive isolation may become strong only once the process of speciation is in its advanced stages. For taxa in the early stages of speciation, prezygotic reproductive isolation barriers may play a predominant role in maintaining species boundaries. Here, we study the recent capuchino seedeater biological radiation, a group of highly sympatric species from the genus Sporophila that have diversified during the Pleistocene in Neotropical grasslands. Capuchinos can be diagnosed by adult male coloration patterns and song, two sets of characters known to contribute to pre-mating reproductive isolation. However, it remains unknown whether potzygotic incompatibilities contribute to maintaining species limits in this group. Here we use existing breeding records from captive individuals to test for patterns consistent with F1 inviability. We compare hatching success, fledging success, and the sex ratio at adulthood between conspecific and hybrid capuchino pairs. We observed a trend towards lower numbers of the heterogametic sex among adult hybrids, consistent Haldane's rule, but this was supported by only one of our statistical tests. Our study is the first to document hybrid male capuchino phenotypes based on known crosses. We observed phenotypes that were similar or intermediate to those of the parental species, as well as novel plumage patterns that have not been described in the wild. One cross produced a plumage pattern that has been observed at low frequencies in natural populations. We discuss the implications of our results for understanding the relative importance of the mechanisms of reproductive isolation in capuchino seedeaters.
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Affiliation(s)
- Leonardo Campagna
- Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY, United States of America
- Fuller Evolutionary Biology Program, Cornell Lab of Ornithology, Cornell University, Ithaca, NY, United States of America
- * E-mail:
| | - Pablo Rodriguez
- Federación Ornitológica Argentina, Virrey Liniers, Ciudad Autónoma de Buenos Aires, Argentina
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8
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Wang Y, Kim KS, Guo W, Li Q, Zhang Y, Wang Z, Coates BS. Introgression between divergent corn borer species in a region of sympatry: Implications on the evolution and adaptation of pest arthropods. Mol Ecol 2017; 26:6892-6907. [PMID: 29105878 DOI: 10.1111/mec.14387] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2017] [Revised: 09/09/2017] [Accepted: 09/26/2017] [Indexed: 11/29/2022]
Abstract
The Asian corn borer, Ostrinia furnacalis, and European corn borer, O. nubilalis (Lepidoptera: Crambidae), cause damage to cultivated maize in spatially distinct geographies and have evolved divergent hydrocarbons as the basis of sexual communication. The Yili area of Xinjiang Uyghur Autonomous Region in China represents the only known region where O. furnacalis has invaded a native O. nubilalis range, and these two corn borer species have made secondary contact. Genetic differentiation was estimated between Ostrinia larvae collected from maize plants at 11 locations in Xinjiang and genotyped using high-throughput SNP and microsatellite markers. Maternal lineages were assessed by direct sequencing of mitochondrial cytochrome c oxidase subunit I and II haplotypes, and a high degree of genotypic diversity was demonstrated between lineages based on SNP genotypes. Furthermore, historical introgression was predicted among SNP genotypes only at sympatric locations in the Yili area, whereas in Xinjiang populations only O. furnacalis haplotypes were detected and no analogous introgressed genotypes were predicted. Our detection of putative hybrids and historical evidence of introgression defines Yili area as a hybrid zone between the species in normal ecological interactions and furthermore, might indicate that adaptive traits could spread even between seemingly divergent species through horizontal transmission. Results of this study indicate there may be a continuum in the degree of reproductive isolation between Ostrinia species and that the elegance of distinct and complete speciation based on modifications to the pheromone communication might need to be reconsidered.
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Affiliation(s)
- Yangzhou Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China.,Jilin Academy of Agricultural Sciences, Changchun, China
| | - Kyung Seok Kim
- Iowa State University, Department of Natural Resource Ecology and Management, Ames, IA, USA
| | - Wenchao Guo
- Research Institute of Plant Protection, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Qiyun Li
- Jilin Academy of Agricultural Sciences, Changchun, China
| | - Yunyue Zhang
- Jilin Academy of Agricultural Sciences, Changchun, China
| | - Zhenying Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Brad S Coates
- United States Department of Agriculture, Agricultural Research Service, Corn Insects and Crop Genetics Research Unit, Iowa State University, Ames, IA, USA
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Ottenburghs J, Megens HJ, Kraus RHS, van Hooft P, van Wieren SE, Crooijmans RPMA, Ydenberg RC, Groenen MAM, Prins HHT. A history of hybrids? Genomic patterns of introgression in the True Geese. BMC Evol Biol 2017; 17:201. [PMID: 28830337 PMCID: PMC5568201 DOI: 10.1186/s12862-017-1048-2] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2017] [Accepted: 08/11/2017] [Indexed: 12/19/2022] Open
Abstract
Background The impacts of hybridization on the process of speciation are manifold, leading to distinct patterns across the genome. Genetic differentiation accumulates in certain genomic regions, while divergence is hampered in other regions by homogenizing gene flow, resulting in a heterogeneous genomic landscape. A consequence of this heterogeneity is that genomes are mosaics of different gene histories that can be compared to unravel complex speciation and hybridization events. However, incomplete lineage sorting (often the outcome of rapid speciation) can result in similar patterns. New statistical techniques, such as the D-statistic and hybridization networks, can be applied to disentangle the contributions of hybridization and incomplete lineage sorting. We unravel patterns of hybridization and incomplete lineage sorting during and after the diversification of the True Geese (family Anatidae, tribe Anserini, genera Anser and Branta) using an exon-based hybridization network approach and taking advantage of discordant gene tree histories by re-sequencing all taxa of this clade. In addition, we determine the timing of introgression and reconstruct historical effective population sizes for all goose species to infer which demographic or biogeographic factors might explain the observed patterns of introgression. Results We find indications for ancient interspecific gene flow during the diversification of the True Geese and were able to pinpoint several putative hybridization events. Specifically, in the genus Branta, both the ancestor of the White-cheeked Geese (Hawaiian Goose, Canada Goose, Cackling Goose and Barnacle Goose) and the ancestor of the Brent Goose hybridized with Red-breasted Goose. One hybridization network suggests a hybrid origin for the Red-breasted Goose, but this scenario seems unlikely and it not supported by the D-statistic analysis. The complex, highly reticulated evolutionary history of the genus Anser hampered the estimation of ancient hybridization events by means of hybridization networks. The reconstruction of historical effective population sizes shows that most species showed a steady increase during the Pliocene and Pleistocene. These large effective population sizes might have facilitated contact between diverging goose species, resulting in the establishment of hybrid zones and consequent gene flow. Conclusions Our analyses suggest that the evolutionary history of the True Geese is influenced by introgressive hybridization. The approach that we have used, based on genome-wide phylogenetic incongruence and network analyses, will be a useful procedure to reconstruct the complex evolutionary histories of many naturally hybridizing species groups. Electronic supplementary material The online version of this article (doi:10.1186/s12862-017-1048-2) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Jente Ottenburghs
- Resource Ecology Group, Wageningen University & Research, Droevendaalsesteeg 3a, 6708 PB, Wageningen, the Netherlands.
| | - Hendrik-Jan Megens
- Animal Breeding and Genomics, Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Robert H S Kraus
- Department of Migration and Immuno-Ecology, Max Planck Institute for Ornithology, Am Obstberg, 1D-78315, Radolfzell, Germany.,Department of Biology, University of Konstanz, D-78457, Constance, Germany
| | - Pim van Hooft
- Resource Ecology Group, Wageningen University & Research, Droevendaalsesteeg 3a, 6708 PB, Wageningen, the Netherlands
| | - Sipke E van Wieren
- Resource Ecology Group, Wageningen University & Research, Droevendaalsesteeg 3a, 6708 PB, Wageningen, the Netherlands
| | - Richard P M A Crooijmans
- Animal Breeding and Genomics, Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Ronald C Ydenberg
- Resource Ecology Group, Wageningen University & Research, Droevendaalsesteeg 3a, 6708 PB, Wageningen, the Netherlands.,Centre for Wildlife Ecology, Simon Fraser University, V5A 1S6, Burnaby, BC, Canada
| | - Martien A M Groenen
- Animal Breeding and Genomics, Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Herbert H T Prins
- Resource Ecology Group, Wageningen University & Research, Droevendaalsesteeg 3a, 6708 PB, Wageningen, the Netherlands
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10
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Ishishita S, Matsuda Y. Interspecific hybrids of dwarf hamsters and Phasianidae birds as animal models for studying the genetic and developmental basis of hybrid incompatibility. Genes Genet Syst 2016; 91:63-75. [PMID: 27628130 DOI: 10.1266/ggs.16-00022] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
Hybrid incompatibility is important in speciation as it prevents gene flow between closely related populations. Reduced fitness from hybrid incompatibility may also reinforce prezygotic reproductive isolation between sympatric populations. However, the genetic and developmental basis of hybrid incompatibility in higher vertebrates remains poorly understood. Mammals and birds, both amniotes, have similar developmental processes, but marked differences in development such as the XY/ZW sex determination systems and the presence or absence of genomic imprinting. Here, we review the sterile phenotype of hybrids between the Phodopus dwarf hamsters P. campbelli and P. sungorus, and the inviable phenotype of hybrids between two birds of the family Phasianidae, chicken (Gallus gallus domesticus) and Japanese quail (Coturnix japonica). We propose hypotheses for developmental defects that are associated with these hybrid incompatibilities. In addition, we discuss the genetic and developmental basis for these defects in conjunction with recent findings from mouse and avian models of genetics, reproductive biology and genomics. We suggest that these hybrids are ideal animal models for studying the genetic and developmental basis of hybrid incompatibility in amniotes.
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Affiliation(s)
- Satoshi Ishishita
- Avian Bioscience Research Center, Graduate School of Bioagricultural Sciences, Nagoya University
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11
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Embryonic development and inviability phenotype of chicken-Japanese quail F1 hybrids. Sci Rep 2016; 6:26369. [PMID: 27199007 PMCID: PMC4873824 DOI: 10.1038/srep26369] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2015] [Accepted: 03/08/2016] [Indexed: 01/22/2023] Open
Abstract
Interspecific hybrid incompatibility, including inviability and sterility, is important in speciation; however, its genetic basis remains largely unknown in vertebrates. Crosses between male chickens and female Japanese quails using artificial insemination can generate intergeneric hybrids; however, the hatching rate is low, and hatched hybrids are only sterile males. Hybrid development is arrested frequently during the early embryonic stages, and the sex ratio of living embryos is male-biased. However, the development and sex ratio of hybrid embryos have not been comprehensively analyzed. In the present study, we observed delayed embryonic development of chicken-quail hybrids during the early stage, compared with that of chickens and quails. The survival rate of hybrids decreased markedly during the blastoderm-to-pre-circulation stage and then decreased gradually through the subsequent stages. Hybrid females were observed at more than 10 d of incubation; however, the sex ratio of hybrids became male-biased from 10 d of incubation. Severely malformed embryos were observed frequently in hybrids. These results suggest that developmental arrest occurs at various stages in hybrid embryos, including a sexually non-biased arrest during the early stage and a female-biased arrest during the late stage. We discuss the genetic basis for hybrid inviability and its sex bias.
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12
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Ottenburghs J, van Hooft P, van Wieren SE, Ydenberg RC, Prins HHT. Hybridization in geese: a review. Front Zool 2016; 13:20. [PMID: 27182276 PMCID: PMC4866292 DOI: 10.1186/s12983-016-0153-1] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2016] [Accepted: 05/10/2016] [Indexed: 11/10/2022] Open
Abstract
The high incidence of hybridization in waterfowl (ducks, geese and swans) makes this bird group an excellent study system to answer questions related to the evolution and maintenance of species boundaries. However, knowledge on waterfowl hybridization is biased towards ducks, with a large knowledge gap in geese. In this review, we assemble the available information on hybrid geese by focusing on three main themes: (1) incidence and frequency, (2) behavioural mechanisms leading to hybridization, and (3) hybrid fertility. Hybridization in geese is common on a species-level, but rare on a per-individual level. An overview of the different behavioural mechanisms indicates that forced extra-pair copulations and interspecific nest parasisitm can both lead to hybridization. Other sources of hybrids include hybridization in captivity and vagrant geese, which may both lead to a scarcity of conspecifics. The different mechanisms are not mutually exclusive and it is currently not possible to discriminate between the different mechanisms without quantitative data. Most hybrid geese are fertile; only in crosses between distantly related species do female hybrids become sterile. This fertility pattern, which is in line with Haldane's Rule, may facilitate interspecific gene flow between closely related species. The knowledge on hybrid geese should be used, in combination with the information available on hybridization in ducks, to study the process of avian speciation.
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Affiliation(s)
- Jente Ottenburghs
- Resource Ecology Group, Wageningen University, Droevendaalsesteeg 3a, 6708PB Wageningen, The Netherlands
| | - Pim van Hooft
- Resource Ecology Group, Wageningen University, Droevendaalsesteeg 3a, 6708PB Wageningen, The Netherlands
| | - Sipke E van Wieren
- Resource Ecology Group, Wageningen University, Droevendaalsesteeg 3a, 6708PB Wageningen, The Netherlands
| | - Ronald C Ydenberg
- Resource Ecology Group, Wageningen University, Droevendaalsesteeg 3a, 6708PB Wageningen, The Netherlands ; Centre of Wildlife Ecology, Simon Fraser University, V5A 1S6 Burnaby, BC Canada
| | - Herbert H T Prins
- Resource Ecology Group, Wageningen University, Droevendaalsesteeg 3a, 6708PB Wageningen, The Netherlands
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13
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Abstract
Over the last decade, tremendous progress has been made toward a comparative understanding of gene regulatory evolution. However, we know little about how gene regulation evolves in birds, and how divergent genomes interact in their hybrids. Because of the unique features of birds – female heterogamety, a highly conserved karyotype, and the slow evolution of reproductive incompatibilities – an understanding of regulatory evolution in birds is critical to a comprehensive understanding of regulatory evolution and its implications for speciation. Using a novel complement of analyses of replicated RNA-seq libraries, we demonstrate abundant divergence in brain gene expression between zebra finch (Taeniopygia guttata) subspecies. By comparing parental populations and their F1 hybrids, we also show that gene misexpression is relatively rare among brain-expressed transcripts in male birds. If this pattern is consistent across tissues and sexes, it may partially explain the slow buildup of postzygotic reproductive isolation observed in birds relative to other taxa. Although we expected that the action of genetic drift on the island-dwelling zebra finch subspecies would be manifested in a higher rate of trans regulatory divergence, we found that most divergence was in cis regulation, following a pattern commonly observed in other taxa. Thus, our study highlights both unique and shared features of avian regulatory evolution.
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Jančúchová-Lásková J, Landová E, Frynta D. Experimental Crossing of Two Distinct Species of Leopard Geckos, Eublepharis angramainyu and E. macularius: Viability, Fertility and Phenotypic Variation of the Hybrids. PLoS One 2015; 10:e0143630. [PMID: 26633648 PMCID: PMC4669172 DOI: 10.1371/journal.pone.0143630] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2015] [Accepted: 11/07/2015] [Indexed: 12/01/2022] Open
Abstract
Hybridization between distinct species of animals and subsequent genetic introgression plays a considerable role in the speciation process and the emergence of adaptive characters. Fitness of between-species hybrids usually sharply decreases with the divergence time of the concerned species and the divergence depth, which still allows for a successful crossing differs among principal clades of vertebrates. Recently, a review of hybridization events among distinct lizard species revealed that lizards belong to vertebrates with a highly developed ability to hybridize. In spite of this, reliable reports of experimental hybridizations between genetically fairly divergent species are only exceptional. Here, we show the results of the crossing of two distinct allopatric species of eyelid geckos possessing temperature sex determination and lacking sex chromosomes: Eublepharis macularius distributed in Pakistan/Afghanistan area and E. angramainyu, which inhabits Mesopotamia and adjacent areas. We demonstrated that F1 hybrids were viable and fertile, and the introgression of E. angramainyu genes into the E. macularius genome can be enabled via a backcrossing. The examined hybrids (except those of the F2 generation) displayed neither malformations nor a reduced survival. Analyses of morphometric and coloration traits confirmed phenotypic distinctness of both parental species and their F1 hybrids. These findings contrast with long-term geographic and an evolutionary separation of the studied species. Thus, the occurrence of fertile hybrids of comparably divergent species, such as E. angramainyu and E. macularius, may also be expected in other taxa of squamates. This would violate the current estimates of species diversity in lizards.
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Affiliation(s)
| | - Eva Landová
- Department of Zoology, Faculty of Science, Charles University in Prague, Prague, Czech Republic
| | - Daniel Frynta
- Department of Zoology, Faculty of Science, Charles University in Prague, Prague, Czech Republic
- * E-mail:
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15
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Differential introgression and effective size of marker type influence phylogenetic inference of a recently divergent avian group (Phasianidae: Tympanuchus). Mol Phylogenet Evol 2014; 84:1-13. [PMID: 25554526 DOI: 10.1016/j.ympev.2014.12.012] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2014] [Revised: 12/12/2014] [Accepted: 12/18/2014] [Indexed: 11/20/2022]
Abstract
Life history strategies can influence the effective population size (Ne) of loci differently based on their mode of inheritance. Recognizing how this may affect the rate of lineage sorting among marker types is important for studies focused on resolving phylogenetic relationships among recently divergent taxa. In this study, we use gene tree, coalescent-based species tree, and isolation-with-migration analyses to explore the differences between marker types (autosomal, Z-linked, and mitochondrial) in resolving phylogenetic relationships among North American prairie grouse (Tympanuchus). We found that Z-linked loci were more likely to identify monophyletic relationships among prairie grouse species compared to autosomal and mtDNA loci in both species and gene tree analyses, with species tree analyses outperforming gene trees. These results were further supported with isolation-with-migration analyses, where Z-linked loci largely followed a strict isolation model while autosomal loci were more likely to fit a model with gene flow between species following population divergence. While accounting for differences in inheritance pattern (or Ne) for marker type, results suggest that additional factors, such as strong sexual selection and sex-biased introgression (i.e., male-biased postzygotic hybrid behavioral isolation or "unsexy son"), may further explain the decreased diversity levels and increased rate of lineage sorting observed with the Z-linked loci relative to autosomal and mtDNA loci. In fact, to our knowledge no hybrid male prairie grouse have been observed breeding in the wild, yet hybrid females along with backcross females are known to produce viable offspring. Overall, this study highlights that more work is needed to determine how complex models of gene flow (i.e., sex biased introgression) and differences in the effective size among marker types based on differing life history strategies influence divergence date estimation and species delimitation.
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16
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Arntzen JW, Wielstra B, Wallis GP. The modality of nineTriturusnewt hybrid zones assessed with nuclear, mitochondrial and morphological data. Biol J Linn Soc Lond 2014. [DOI: 10.1111/bij.12358] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Affiliation(s)
- Jan W. Arntzen
- Naturalis Biodiversity Center; PO Box 9517 2300 RA Leiden the Netherlands
| | - Ben Wielstra
- Naturalis Biodiversity Center; PO Box 9517 2300 RA Leiden the Netherlands
- Department of Animal and Plant Sciences; University of Sheffield; S10 2TN Sheffield UK
| | - Graham P. Wallis
- Naturalis Biodiversity Center; PO Box 9517 2300 RA Leiden the Netherlands
- Department of Zoology; University of Otago; PO Box 56 Dunedin 9054 New Zealand
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17
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Campagna L, Kopuchian C, Tubaro PL, Lougheed SC. Secondary contact followed by gene flow between divergent mitochondrial lineages of a widespread Neotropical songbird (Zonotrichia capensis). Biol J Linn Soc Lond 2014. [DOI: 10.1111/bij.12272] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Leonardo Campagna
- Department of Biology; Queen's University; Kingston ON K7L 3N6 Canada
- División de Ornitología; Museo Argentino de Ciencias Naturales ‘Bernardino Rivadavia’; Avenida Ángel Gallardo 470, Ciudad de Buenos Aires Buenos Aires C1405DJR Argentina
| | - Cecilia Kopuchian
- División de Ornitología; Museo Argentino de Ciencias Naturales ‘Bernardino Rivadavia’; Avenida Ángel Gallardo 470, Ciudad de Buenos Aires Buenos Aires C1405DJR Argentina
- Centro de Ecología Aplicada del Litoral; Ruta 5, Km 2.5 Corrientes 3400 Argentina
| | - Pablo L. Tubaro
- División de Ornitología; Museo Argentino de Ciencias Naturales ‘Bernardino Rivadavia’; Avenida Ángel Gallardo 470, Ciudad de Buenos Aires Buenos Aires C1405DJR Argentina
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18
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Pucci MB, Barbosa P, Nogaroto V, Almeida MC, Artoni RF, Pansonato-Alves JC, Foresti F, Moreira-Filho O, Vicari MR. Population differentiation and speciation in the genusCharacidium(Characiformes: Crenuchidae): effects of reproductive and chromosomal barriers. Biol J Linn Soc Lond 2014. [DOI: 10.1111/bij.12218] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Marcela Baer Pucci
- Departamento de Biologia Estrutural, Molecular e Genética; Universidade Estadual de Ponta Grossa; Av. Carlos Cavalcanti, 4748 Ponta Grossa-PR 84030-900 Brazil
| | - Patrícia Barbosa
- Departamento de Biologia Estrutural, Molecular e Genética; Universidade Estadual de Ponta Grossa; Av. Carlos Cavalcanti, 4748 Ponta Grossa-PR 84030-900 Brazil
| | - Viviane Nogaroto
- Departamento de Biologia Estrutural, Molecular e Genética; Universidade Estadual de Ponta Grossa; Av. Carlos Cavalcanti, 4748 Ponta Grossa-PR 84030-900 Brazil
| | - Mara Cristina Almeida
- Departamento de Biologia Estrutural, Molecular e Genética; Universidade Estadual de Ponta Grossa; Av. Carlos Cavalcanti, 4748 Ponta Grossa-PR 84030-900 Brazil
| | - Roberto Ferreira Artoni
- Departamento de Biologia Estrutural, Molecular e Genética; Universidade Estadual de Ponta Grossa; Av. Carlos Cavalcanti, 4748 Ponta Grossa-PR 84030-900 Brazil
| | - José Carlos Pansonato-Alves
- Departamento de Morfologia; Universidade Estadual Paulista; Distrito de Rubião Junior, s/n Botucatu-SP 18618-970 Brazil
| | - Fausto Foresti
- Departamento de Morfologia; Universidade Estadual Paulista; Distrito de Rubião Junior, s/n Botucatu-SP 18618-970 Brazil
| | - Orlando Moreira-Filho
- Departamento de Genética e Evolução; Universidade Federal de São Carlos; Rodovia Washington Luís, Km 235 São Carlos-SP 13565-905 Brazil
| | - Marcelo Ricardo Vicari
- Departamento de Biologia Estrutural, Molecular e Genética; Universidade Estadual de Ponta Grossa; Av. Carlos Cavalcanti, 4748 Ponta Grossa-PR 84030-900 Brazil
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