[{"publisher":"Wiley","file_date_updated":"2020-07-14T12:47:31Z","quality_controlled":"1","page":"1579-1581","intvolume":"        28","title":"Breaking down barriers in morning glories","date_created":"2019-05-19T21:59:15Z","article_processing_charge":"No","department":[{"_id":"NiBa"}],"publication_status":"published","issue":"7","author":[{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","first_name":"David","last_name":"Field","orcid":"0000-0002-4014-8478","full_name":"Field, David"},{"full_name":"Fraisse, Christelle","orcid":"0000-0001-8441-5075","last_name":"Fraisse","first_name":"Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87"}],"scopus_import":"1","_id":"6466","ddc":["580","576"],"volume":28,"abstract":[{"text":"One of the most striking and consistent results in speciation genomics is the heterogeneous divergence observed across the genomes of closely related species. This pattern was initially attributed to different levels of gene exchange—with divergence preserved at loci generating a barrier to gene flow but homogenized at unlinked neutral loci. Although there is evidence to support this model, it is now recognized that interpreting patterns of divergence across genomes is not so straightforward. One \r\nproblem is that heterogenous divergence between populations can also be generated by other processes (e.g. recurrent selective sweeps or background selection) without any involvement of differential gene flow. Thus, integrated studies that identify which loci are likely subject to divergent selection are required to shed light on the interplay between selection and gene flow during the early phases of speciation. In this issue of Molecular Ecology, Rifkin et al. (2019) confront this challenge using a pair of sister morning glory species. They wisely design their sampling to take the geographic context of individuals into account, including geographically isolated (allopatric) and co‐occurring (sympatric) populations. This enabled them to show that individuals are phenotypically less differentiated in sympatry. They also found that the loci that resist introgression are enriched for those most differentiated in allopatry and loci that exhibit signals of divergent selection. One great strength of the \r\nstudy is the combination of methods from population genetics and molecular evolution, including the development of a model to simultaneously infer admixture proportions and selfing rates.","lang":"eng"}],"day":"01","doi":"10.1111/mec.15048","external_id":{"isi":["000474808300001"]},"isi":1,"year":"2019","citation":{"ama":"Field D, Fraisse C. Breaking down barriers in morning glories. <i>Molecular ecology</i>. 2019;28(7):1579-1581. doi:<a href=\"https://doi.org/10.1111/mec.15048\">10.1111/mec.15048</a>","apa":"Field, D., &#38; Fraisse, C. (2019). Breaking down barriers in morning glories. <i>Molecular Ecology</i>. Wiley. <a href=\"https://doi.org/10.1111/mec.15048\">https://doi.org/10.1111/mec.15048</a>","chicago":"Field, David, and Christelle Fraisse. “Breaking down Barriers in Morning Glories.” <i>Molecular Ecology</i>. Wiley, 2019. <a href=\"https://doi.org/10.1111/mec.15048\">https://doi.org/10.1111/mec.15048</a>.","ieee":"D. Field and C. Fraisse, “Breaking down barriers in morning glories,” <i>Molecular ecology</i>, vol. 28, no. 7. Wiley, pp. 1579–1581, 2019.","short":"D. Field, C. Fraisse, Molecular Ecology 28 (2019) 1579–1581.","mla":"Field, David, and Christelle Fraisse. “Breaking down Barriers in Morning Glories.” <i>Molecular Ecology</i>, vol. 28, no. 7, Wiley, 2019, pp. 1579–81, doi:<a href=\"https://doi.org/10.1111/mec.15048\">10.1111/mec.15048</a>.","ista":"Field D, Fraisse C. 2019. Breaking down barriers in morning glories. Molecular ecology. 28(7), 1579–1581."},"date_updated":"2023-08-25T10:37:30Z","language":[{"iso":"eng"}],"month":"04","oa_version":"Published Version","has_accepted_license":"1","publication":"Molecular ecology","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","file":[{"date_created":"2019-05-20T11:49:06Z","checksum":"521e3aff3e9263ddf2ffbfe0b6157715","file_size":367711,"date_updated":"2020-07-14T12:47:31Z","content_type":"application/pdf","file_name":"2019_MolecularEcology_Field.pdf","relation":"main_file","access_level":"open_access","file_id":"6472","creator":"dernst"}],"oa":1,"publication_identifier":{"eissn":["1365294X"]},"type":"journal_article","date_published":"2019-04-01T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"publisher":"Royal Society of London","article_type":"original","ec_funded":1,"quality_controlled":"1","date_created":"2019-05-19T21:59:15Z","article_processing_charge":"No","department":[{"_id":"BeVi"},{"_id":"NiBa"}],"publication_status":"published","intvolume":"        15","title":"The distribution of epistasis on simple fitness landscapes","scopus_import":"1","pmid":1,"_id":"6467","issue":"4","author":[{"first_name":"Christelle","last_name":"Fraisse","orcid":"0000-0001-8441-5075","full_name":"Fraisse, Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Welch, John J.","first_name":"John J.","last_name":"Welch"}],"volume":15,"day":"03","doi":"10.1098/rsbl.2018.0881","abstract":[{"lang":"eng","text":"Fitness interactions between mutations can influence a population’s evolution in many different ways. While epistatic effects are difficult to measure precisely, important information is captured by the mean and variance of log fitnesses for individuals carrying different numbers of mutations. We derive predictions for these quantities from a class of simple fitness landscapes, based on models of optimizing selection on quantitative traits. We also explore extensions to the models, including modular pleiotropy, variable effect sizes, mutational bias and maladaptation of the wild type. We illustrate our approach by reanalysing a large dataset of mutant effects in a yeast snoRNA (small nucleolar RNA). Though characterized by some large epistatic effects, these data give a good overall fit to the non-epistatic null model, suggesting that epistasis might have limited influence on the evolutionary dynamics in this system. We also show how the amount of epistasis depends on both the underlying fitness landscape and the distribution of mutations, and so is expected to vary in consistent ways between new mutations, standing variation and fixed mutations."}],"citation":{"short":"C. Fraisse, J.J. Welch, Biology Letters 15 (2019).","mla":"Fraisse, Christelle, and John J. Welch. “The Distribution of Epistasis on Simple Fitness Landscapes.” <i>Biology Letters</i>, vol. 15, no. 4, 0881, Royal Society of London, 2019, doi:<a href=\"https://doi.org/10.1098/rsbl.2018.0881\">10.1098/rsbl.2018.0881</a>.","ista":"Fraisse C, Welch JJ. 2019. The distribution of epistasis on simple fitness landscapes. Biology Letters. 15(4), 0881.","ama":"Fraisse C, Welch JJ. The distribution of epistasis on simple fitness landscapes. <i>Biology Letters</i>. 2019;15(4). doi:<a href=\"https://doi.org/10.1098/rsbl.2018.0881\">10.1098/rsbl.2018.0881</a>","apa":"Fraisse, C., &#38; Welch, J. J. (2019). The distribution of epistasis on simple fitness landscapes. <i>Biology Letters</i>. Royal Society of London. <a href=\"https://doi.org/10.1098/rsbl.2018.0881\">https://doi.org/10.1098/rsbl.2018.0881</a>","chicago":"Fraisse, Christelle, and John J. Welch. “The Distribution of Epistasis on Simple Fitness Landscapes.” <i>Biology Letters</i>. Royal Society of London, 2019. <a href=\"https://doi.org/10.1098/rsbl.2018.0881\">https://doi.org/10.1098/rsbl.2018.0881</a>.","ieee":"C. Fraisse and J. J. Welch, “The distribution of epistasis on simple fitness landscapes,” <i>Biology Letters</i>, vol. 15, no. 4. Royal Society of London, 2019."},"year":"2019","date_updated":"2023-08-25T10:34:41Z","external_id":{"isi":["000465405300010"],"pmid":["31014191"]},"isi":1,"language":[{"iso":"eng"}],"project":[{"name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"oa_version":"Published Version","article_number":"0881","month":"04","publication":"Biology Letters","main_file_link":[{"url":"https://doi.org/10.1098/rsbl.2018.0881","open_access":"1"}],"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","related_material":{"record":[{"id":"9798","relation":"research_data","status":"public"},{"status":"public","relation":"research_data","id":"9799"}],"link":[{"url":"https://dx.doi.org/10.6084/m9.figshare.c.4461008","relation":"supplementary_material"}]},"publication_identifier":{"issn":["17449561"],"eissn":["1744957X"]},"oa":1,"type":"journal_article","date_published":"2019-04-03T00:00:00Z"},{"main_file_link":[{"url":"https://doi.org/10.5061/dryad.tb2rbnzwk","open_access":"1"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"relation":"used_in_publication","id":"7205","status":"public"}]},"status":"public","ddc":["570"],"day":"02","doi":"10.5061/DRYAD.TB2RBNZWK","oa":1,"abstract":[{"text":"Genetic incompatibilities contribute to reproductive isolation between many diverging populations, but it is still unclear to what extent they play a role if divergence happens with gene flow. In contact zones between the \"Crab\" and \"Wave\" ecotypes of the snail Littorina saxatilis divergent selection forms strong barriers to gene flow, while the role of postzygotic barriers due to selection against hybrids remains unclear. High embryo abortion rates in this species could indicate the presence of such barriers. Postzygotic barriers might include genetic incompatibilities (e.g. Dobzhansky-Muller incompatibilities) but also maladaptation, both expected to be most pronounced in contact zones. In addition, embryo abortion might reflect physiological stress on females and embryos independent of any genetic stress. We examined all embryos of &gt;500 females sampled outside and inside contact zones of three populations in Sweden. Females' clutch size ranged from 0 to 1011 embryos (mean 130±123) and abortion rates varied between 0 and100% (mean 12%). We described female genotypes by using a hybrid index based on hundreds of SNPs differentiated between ecotypes with which we characterised female genotypes. We also calculated female SNP heterozygosity and inversion karyotype. Clutch size did not vary with female hybrid index and abortion rates were only weakly related to hybrid index in two sites but not at all in a third site. No additional variation in abortion rate was explained by female SNP heterozygosity, but increased female inversion heterozygosity added slightly to increased abortion. Our results show only weak and probably biologically insignificant postzygotic barriers contributing to ecotype divergence and the high and variable abortion rates were marginally, if at all, explained by hybrid index of females.","lang":"eng"}],"citation":{"mla":"Johannesson, Kerstin, et al. <i>Data from: Is Embryo Abortion a Postzygotic Barrier to Gene Flow between Littorina Ecotypes?</i> Dryad, 2019, doi:<a href=\"https://doi.org/10.5061/DRYAD.TB2RBNZWK\">10.5061/DRYAD.TB2RBNZWK</a>.","short":"K. Johannesson, Z. Zagrodzka, R. Faria, A.M. Westram, R. Butlin, (2019).","ista":"Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin R. 2019. Data from: Is embryo abortion a postzygotic barrier to gene flow between Littorina ecotypes?, Dryad, <a href=\"https://doi.org/10.5061/DRYAD.TB2RBNZWK\">10.5061/DRYAD.TB2RBNZWK</a>.","ama":"Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin R. Data from: Is embryo abortion a postzygotic barrier to gene flow between Littorina ecotypes? 2019. doi:<a href=\"https://doi.org/10.5061/DRYAD.TB2RBNZWK\">10.5061/DRYAD.TB2RBNZWK</a>","apa":"Johannesson, K., Zagrodzka, Z., Faria, R., Westram, A. M., &#38; Butlin, R. (2019). Data from: Is embryo abortion a postzygotic barrier to gene flow between Littorina ecotypes? Dryad. <a href=\"https://doi.org/10.5061/DRYAD.TB2RBNZWK\">https://doi.org/10.5061/DRYAD.TB2RBNZWK</a>","chicago":"Johannesson, Kerstin, Zuzanna Zagrodzka, Rui Faria, Anja M Westram, and Roger Butlin. “Data from: Is Embryo Abortion a Postzygotic Barrier to Gene Flow between Littorina Ecotypes?” Dryad, 2019. <a href=\"https://doi.org/10.5061/DRYAD.TB2RBNZWK\">https://doi.org/10.5061/DRYAD.TB2RBNZWK</a>.","ieee":"K. Johannesson, Z. Zagrodzka, R. Faria, A. M. Westram, and R. Butlin, “Data from: Is embryo abortion a postzygotic barrier to gene flow between Littorina ecotypes?” Dryad, 2019."},"year":"2019","tmp":{"legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","short":"CC0 (1.0)","name":"Creative Commons Public Domain Dedication (CC0 1.0)","image":"/images/cc_0.png"},"date_updated":"2023-09-06T14:48:57Z","type":"research_data_reference","date_published":"2019-12-02T00:00:00Z","publisher":"Dryad","article_processing_charge":"No","department":[{"_id":"NiBa"}],"date_created":"2023-05-23T16:36:27Z","oa_version":"Published Version","month":"12","title":"Data from: Is embryo abortion a postzygotic barrier to gene flow between Littorina ecotypes?","_id":"13067","author":[{"full_name":"Johannesson, Kerstin","last_name":"Johannesson","first_name":"Kerstin"},{"first_name":"Zuzanna","last_name":"Zagrodzka","full_name":"Zagrodzka, Zuzanna"},{"full_name":"Faria, Rui","first_name":"Rui","last_name":"Faria"},{"id":"3C147470-F248-11E8-B48F-1D18A9856A87","full_name":"Westram, Anja M","orcid":"0000-0003-1050-4969","last_name":"Westram","first_name":"Anja M"},{"full_name":"Butlin, Roger","first_name":"Roger","last_name":"Butlin"}]},{"status":"public","related_material":{"record":[{"id":"6022","relation":"used_in_publication","status":"public"}]},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","type":"research_data_reference","date_published":"2019-02-07T00:00:00Z","year":"2019","citation":{"ieee":"R. M. Merrill <i>et al.</i>, “Raw behavioral data.” Public Library of Science, 2019.","chicago":"Merrill, Richard M., Pasi Rastas, Simon H. Martin, Maria C Melo Hurtado, Sarah Barker, John Davey, W. Owen Mcmillan, and Chris D. Jiggins. “Raw Behavioral Data.” Public Library of Science, 2019. <a href=\"https://doi.org/10.1371/journal.pbio.2005902.s006\">https://doi.org/10.1371/journal.pbio.2005902.s006</a>.","apa":"Merrill, R. M., Rastas, P., Martin, S. H., Melo Hurtado, M. C., Barker, S., Davey, J., … Jiggins, C. D. (2019). Raw behavioral data. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pbio.2005902.s006\">https://doi.org/10.1371/journal.pbio.2005902.s006</a>","ama":"Merrill RM, Rastas P, Martin SH, et al. Raw behavioral data. 2019. doi:<a href=\"https://doi.org/10.1371/journal.pbio.2005902.s006\">10.1371/journal.pbio.2005902.s006</a>","ista":"Merrill RM, Rastas P, Martin SH, Melo Hurtado MC, Barker S, Davey J, Mcmillan WO, Jiggins CD. 2019. Raw behavioral data, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pbio.2005902.s006\">10.1371/journal.pbio.2005902.s006</a>.","short":"R.M. Merrill, P. Rastas, S.H. Martin, M.C. Melo Hurtado, S. Barker, J. Davey, W.O. Mcmillan, C.D. Jiggins, (2019).","mla":"Merrill, Richard M., et al. <i>Raw Behavioral Data</i>. Public Library of Science, 2019, doi:<a href=\"https://doi.org/10.1371/journal.pbio.2005902.s006\">10.1371/journal.pbio.2005902.s006</a>."},"date_updated":"2023-08-24T14:46:23Z","day":"07","doi":"10.1371/journal.pbio.2005902.s006","publisher":"Public Library of Science","author":[{"full_name":"Merrill, Richard M.","first_name":"Richard M.","last_name":"Merrill"},{"last_name":"Rastas","first_name":"Pasi","full_name":"Rastas, Pasi"},{"last_name":"Martin","first_name":"Simon H.","full_name":"Martin, Simon H."},{"id":"386D7308-F248-11E8-B48F-1D18A9856A87","full_name":"Melo Hurtado, Maria C","first_name":"Maria C","last_name":"Melo Hurtado"},{"full_name":"Barker, Sarah","first_name":"Sarah","last_name":"Barker"},{"full_name":"Davey, John","last_name":"Davey","first_name":"John"},{"full_name":"Mcmillan, W. Owen","first_name":"W. Owen","last_name":"Mcmillan"},{"last_name":"Jiggins","first_name":"Chris D.","full_name":"Jiggins, Chris D."}],"_id":"9801","month":"02","title":"Raw behavioral data","article_processing_charge":"No","date_created":"2021-08-06T11:34:56Z","department":[{"_id":"NiBa"}],"oa_version":"Published Version"},{"date_published":"2019-07-16T00:00:00Z","type":"research_data_reference","date_updated":"2023-08-29T06:43:57Z","citation":{"ama":"Sachdeva H. Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat. 2019. doi:<a href=\"https://doi.org/10.5061/dryad.8tp0900\">10.5061/dryad.8tp0900</a>","apa":"Sachdeva, H. (2019). Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat. Dryad. <a href=\"https://doi.org/10.5061/dryad.8tp0900\">https://doi.org/10.5061/dryad.8tp0900</a>","chicago":"Sachdeva, Himani. “Data from: Effect of Partial Selfing and Polygenic Selection on Establishment in a New Habitat.” Dryad, 2019. <a href=\"https://doi.org/10.5061/dryad.8tp0900\">https://doi.org/10.5061/dryad.8tp0900</a>.","ieee":"H. Sachdeva, “Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat.” Dryad, 2019.","short":"H. Sachdeva, (2019).","mla":"Sachdeva, Himani. <i>Data from: Effect of Partial Selfing and Polygenic Selection on Establishment in a New Habitat</i>. Dryad, 2019, doi:<a href=\"https://doi.org/10.5061/dryad.8tp0900\">10.5061/dryad.8tp0900</a>.","ista":"Sachdeva H. 2019. Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat, Dryad, <a href=\"https://doi.org/10.5061/dryad.8tp0900\">10.5061/dryad.8tp0900</a>."},"year":"2019","abstract":[{"lang":"eng","text":"This paper analyzes how partial selfing in a large source population influences its ability to colonize a new habitat via the introduction of a few founder individuals. Founders experience inbreeding depression due to partially recessive deleterious alleles as well as maladaptation to the new environment due to selection on a large number of additive loci. I first introduce a simplified version of the Inbreeding History Model (Kelly, 2007) in order to characterize mutation-selection balance in a large, partially selfing source population under selection involving multiple non-identical loci. I then use individual-based simulations to study the eco-evolutionary dynamics of founders establishing in the new habitat under a model of hard selection. The study explores how selfing rate shapes establishment probabilities of founders via effects on both inbreeding depression and adaptability to the new environment, and also distinguishes the effects of selfing on the initial fitness of founders from its effects on the long-term adaptive response of the populations they found. A high rate of (but not complete) selfing is found to aid establishment over a wide range of parameters, even in the absence of mate limitation. The sensitivity of the results to assumptions about the nature of polygenic selection are discussed."}],"oa":1,"doi":"10.5061/dryad.8tp0900","day":"16","related_material":{"record":[{"relation":"used_in_publication","id":"6680","status":"public"}]},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","status":"public","main_file_link":[{"url":"https://doi.org/10.5061/dryad.8tp0900","open_access":"1"}],"author":[{"full_name":"Sachdeva, Himani","last_name":"Sachdeva","first_name":"Himani","id":"42377A0A-F248-11E8-B48F-1D18A9856A87"}],"_id":"9802","month":"07","title":"Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat","oa_version":"Published Version","article_processing_charge":"No","department":[{"_id":"NiBa"}],"date_created":"2021-08-06T11:45:11Z","publisher":"Dryad"},{"_id":"9803","author":[{"first_name":"Gemma","last_name":"Puixeu Sala","orcid":"0000-0001-8330-1754","full_name":"Puixeu Sala, Gemma","id":"33AB266C-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pickup, Melinda","orcid":"0000-0001-6118-0541","last_name":"Pickup","first_name":"Melinda","id":"2C78037E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Field","first_name":"David","full_name":"Field, David"},{"full_name":"Barrett, Spencer C.H.","first_name":"Spencer C.H.","last_name":"Barrett"}],"oa_version":"Published Version","article_processing_charge":"No","date_created":"2021-08-06T11:48:42Z","department":[{"_id":"NiBa"},{"_id":"BeVi"}],"title":"Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics","month":"07","publisher":"Dryad","date_updated":"2023-08-29T07:17:07Z","year":"2019","citation":{"mla":"Puixeu Sala, Gemma, et al. <i>Data from: Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics</i>. Dryad, 2019, doi:<a href=\"https://doi.org/10.5061/dryad.n1701c9\">10.5061/dryad.n1701c9</a>.","short":"G. Puixeu Sala, M. Pickup, D. Field, S.C.H. Barrett, (2019).","ista":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. 2019. Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics, Dryad, <a href=\"https://doi.org/10.5061/dryad.n1701c9\">10.5061/dryad.n1701c9</a>.","apa":"Puixeu Sala, G., Pickup, M., Field, D., &#38; Barrett, S. C. H. (2019). Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics. Dryad. <a href=\"https://doi.org/10.5061/dryad.n1701c9\">https://doi.org/10.5061/dryad.n1701c9</a>","ama":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics. 2019. doi:<a href=\"https://doi.org/10.5061/dryad.n1701c9\">10.5061/dryad.n1701c9</a>","chicago":"Puixeu Sala, Gemma, Melinda Pickup, David Field, and Spencer C.H. Barrett. “Data from: Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” Dryad, 2019. <a href=\"https://doi.org/10.5061/dryad.n1701c9\">https://doi.org/10.5061/dryad.n1701c9</a>.","ieee":"G. Puixeu Sala, M. Pickup, D. Field, and S. C. H. Barrett, “Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics.” Dryad, 2019."},"date_published":"2019-07-22T00:00:00Z","type":"research_data_reference","doi":"10.5061/dryad.n1701c9","day":"22","abstract":[{"lang":"eng","text":"Understanding the mechanisms causing phenotypic differences between females and males has long fascinated evolutionary biologists. An extensive literature exists on animal sexual dimorphism but less is known about sex differences in plants, particularly the extent of geographical variation in sexual dimorphism and its life-cycle dynamics. Here, we investigate patterns of genetically-based sexual dimorphism in vegetative and reproductive traits of a wind-pollinated dioecious plant, Rumex hastatulus, across three life-cycle stages using open-pollinated families from 30 populations spanning the geographic range and chromosomal variation (XY and XY1Y2) of the species. The direction and degree of sexual dimorphism was highly variable among populations and life-cycle stages. Sex-specific differences in reproductive function explained a significant amount of temporal change in sexual dimorphism. For several traits, geographical variation in sexual dimorphism was associated with bioclimatic parameters, likely due to the differential responses of the sexes to climate. We found no systematic differences in sexual dimorphism between chromosome races. Sex-specific trait differences in dioecious plants largely result from a balance between sexual and natural selection on resource allocation. Our results indicate that abiotic factors associated with geographical context also play a role in modifying sexual dimorphism during the plant life cycle."}],"oa":1,"main_file_link":[{"url":"https://doi.org/10.5061/dryad.n1701c9","open_access":"1"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","status":"public","related_material":{"record":[{"relation":"used_in_publication","id":"14058","status":"public"},{"id":"6831","relation":"used_in_publication","status":"public"}]}},{"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","status":"public","related_material":{"record":[{"id":"6713","relation":"used_in_publication","status":"public"}]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.0q2h6tk"}],"date_published":"2019-06-06T00:00:00Z","type":"research_data_reference","date_updated":"2023-08-29T06:41:51Z","year":"2019","citation":{"ista":"Castro JP, Yancoskie MN, Marchini M, Belohlavy S, Hiramatsu L, Kučka M, Beluch WH, Naumann R, Skuplik I, Cobb J, Barton NH, Rolian C, Chan YF. 2019. Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice, Dryad, <a href=\"https://doi.org/10.5061/dryad.0q2h6tk\">10.5061/dryad.0q2h6tk</a>.","short":"J.P. Castro, M.N. Yancoskie, M. Marchini, S. Belohlavy, L. Hiramatsu, M. Kučka, W.H. Beluch, R. Naumann, I. Skuplik, J. Cobb, N.H. Barton, C. Rolian, Y.F. Chan, (2019).","mla":"Castro, João Pl, et al. <i>Data from: An Integrative Genomic Analysis of the Longshanks Selection Experiment for Longer Limbs in Mice</i>. Dryad, 2019, doi:<a href=\"https://doi.org/10.5061/dryad.0q2h6tk\">10.5061/dryad.0q2h6tk</a>.","chicago":"Castro, João Pl, Michelle N. Yancoskie, Marta Marchini, Stefanie Belohlavy, Layla Hiramatsu, Marek Kučka, William H. Beluch, et al. “Data from: An Integrative Genomic Analysis of the Longshanks Selection Experiment for Longer Limbs in Mice.” Dryad, 2019. <a href=\"https://doi.org/10.5061/dryad.0q2h6tk\">https://doi.org/10.5061/dryad.0q2h6tk</a>.","ieee":"J. P. Castro <i>et al.</i>, “Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice.” Dryad, 2019.","ama":"Castro JP, Yancoskie MN, Marchini M, et al. Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. 2019. doi:<a href=\"https://doi.org/10.5061/dryad.0q2h6tk\">10.5061/dryad.0q2h6tk</a>","apa":"Castro, J. P., Yancoskie, M. N., Marchini, M., Belohlavy, S., Hiramatsu, L., Kučka, M., … Chan, Y. F. (2019). Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. Dryad. <a href=\"https://doi.org/10.5061/dryad.0q2h6tk\">https://doi.org/10.5061/dryad.0q2h6tk</a>"},"abstract":[{"text":"Evolutionary studies are often limited by missing data that are critical to understanding the history of selection. Selection experiments, which reproduce rapid evolution under controlled conditions, are excellent tools to study how genomes evolve under selection. Here we present a genomic dissection of the Longshanks selection experiment, in which mice were selectively bred over 20 generations for longer tibiae relative to body mass, resulting in 13% longer tibiae in two replicates. We synthesized evolutionary theory, genome sequences and molecular genetics to understand the selection response and found that it involved both polygenic adaptation and discrete loci of major effect, with the strongest loci tending to be selected in parallel between replicates. We show that selection may favor de-repression of bone growth through inactivating two limb enhancers of an inhibitor, Nkx3-2. Our integrative genomic analyses thus show that it is possible to connect individual base-pair changes to the overall selection response.","lang":"eng"}],"oa":1,"doi":"10.5061/dryad.0q2h6tk","day":"06","publisher":"Dryad","author":[{"full_name":"Castro, João Pl","last_name":"Castro","first_name":"João Pl"},{"first_name":"Michelle N.","last_name":"Yancoskie","full_name":"Yancoskie, Michelle N."},{"first_name":"Marta","last_name":"Marchini","full_name":"Marchini, Marta"},{"full_name":"Belohlavy, Stefanie","orcid":"0000-0002-9849-498X","last_name":"Belohlavy","first_name":"Stefanie","id":"43FE426A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hiramatsu, Layla","first_name":"Layla","last_name":"Hiramatsu"},{"first_name":"Marek","last_name":"Kučka","full_name":"Kučka, Marek"},{"first_name":"William H.","last_name":"Beluch","full_name":"Beluch, William H."},{"full_name":"Naumann, Ronald","first_name":"Ronald","last_name":"Naumann"},{"last_name":"Skuplik","first_name":"Isabella","full_name":"Skuplik, Isabella"},{"full_name":"Cobb, John","last_name":"Cobb","first_name":"John"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240"},{"last_name":"Rolian","first_name":"Campbell","full_name":"Rolian, Campbell"},{"full_name":"Chan, Yingguang Frank","last_name":"Chan","first_name":"Yingguang Frank"}],"_id":"9804","month":"06","title":"Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice","oa_version":"Published Version","date_created":"2021-08-06T11:52:54Z","article_processing_charge":"No","department":[{"_id":"NiBa"}]},{"publisher":"Dryad","oa_version":"Published Version","article_processing_charge":"No","date_created":"2021-08-06T12:03:50Z","department":[{"_id":"NiBa"}],"month":"01","title":"Data from: The consequences of an introgression event","_id":"9805","author":[{"last_name":"Barton","first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.2kb6fh4"}],"status":"public","related_material":{"record":[{"status":"public","id":"40","relation":"used_in_publication"}]},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","doi":"10.5061/dryad.2kb6fh4","day":"09","abstract":[{"text":"The spread of adaptive alleles is fundamental to evolution, and in theory, this process is well‐understood. However, only rarely can we follow this process—whether it originates from the spread of a new mutation, or by introgression from another population. In this issue of Molecular Ecology, Hanemaaijer et al. (2018) report on a 25‐year long study of the mosquitoes Anopheles gambiae (Figure 1) and Anopheles coluzzi in Mali, based on genotypes at 15 single‐nucleotide polymorphism (SNP). The species are usually reproductively isolated from each other, but in 2002 and 2006, bursts of hybridization were observed, when F1 hybrids became abundant. Alleles backcrossed from A. gambiae into A. coluzzi, but after the first event, these declined over the following years. In contrast, after 2006, an insecticide resistance allele that had established in A. gambiae spread into A. coluzzi, and rose to high frequency there, over 6 years (~75 generations). Whole genome sequences of 74 individuals showed that A. gambiae SNP from across the genome had become common in the A. coluzzi population, but that most of these were clustered in 34 genes around the resistance locus. A new set of SNP from 25 of these genes were assayed over time; over the 4 years since near‐fixation of the resistance allele; some remained common, whereas others declined. What do these patterns tell us about this introgression event?","lang":"eng"}],"oa":1,"date_updated":"2023-09-19T10:06:07Z","citation":{"chicago":"Barton, Nicholas H. “Data from: The Consequences of an Introgression Event.” Dryad, 2019. <a href=\"https://doi.org/10.5061/dryad.2kb6fh4\">https://doi.org/10.5061/dryad.2kb6fh4</a>.","ieee":"N. H. Barton, “Data from: The consequences of an introgression event.” Dryad, 2019.","ama":"Barton NH. Data from: The consequences of an introgression event. 2019. doi:<a href=\"https://doi.org/10.5061/dryad.2kb6fh4\">10.5061/dryad.2kb6fh4</a>","apa":"Barton, N. H. (2019). Data from: The consequences of an introgression event. Dryad. <a href=\"https://doi.org/10.5061/dryad.2kb6fh4\">https://doi.org/10.5061/dryad.2kb6fh4</a>","ista":"Barton NH. 2019. Data from: The consequences of an introgression event, Dryad, <a href=\"https://doi.org/10.5061/dryad.2kb6fh4\">10.5061/dryad.2kb6fh4</a>.","mla":"Barton, Nicholas H. <i>Data from: The Consequences of an Introgression Event</i>. Dryad, 2019, doi:<a href=\"https://doi.org/10.5061/dryad.2kb6fh4\">10.5061/dryad.2kb6fh4</a>.","short":"N.H. Barton, (2019)."},"year":"2019","date_published":"2019-01-09T00:00:00Z","type":"research_data_reference"},{"author":[{"id":"3BBFB084-F248-11E8-B48F-1D18A9856A87","last_name":"Polechova","first_name":"Jitka","full_name":"Polechova, Jitka","orcid":"0000-0003-0951-3112"}],"_id":"9839","title":"Data from: Is the sky the limit? On the expansion threshold of a species' range","month":"06","oa_version":"Published Version","article_processing_charge":"No","date_created":"2021-08-09T13:07:28Z","department":[{"_id":"NiBa"}],"publisher":"Dryad","date_published":"2019-06-22T00:00:00Z","type":"research_data_reference","date_updated":"2023-02-23T11:14:30Z","citation":{"ieee":"J. Polechova, “Data from: Is the sky the limit? On the expansion threshold of a species’ range.” Dryad, 2019.","chicago":"Polechova, Jitka. “Data from: Is the Sky the Limit? On the Expansion Threshold of a Species’ Range.” Dryad, 2019. <a href=\"https://doi.org/10.5061/dryad.5vv37\">https://doi.org/10.5061/dryad.5vv37</a>.","apa":"Polechova, J. (2019). Data from: Is the sky the limit? On the expansion threshold of a species’ range. Dryad. <a href=\"https://doi.org/10.5061/dryad.5vv37\">https://doi.org/10.5061/dryad.5vv37</a>","ama":"Polechova J. Data from: Is the sky the limit? On the expansion threshold of a species’ range. 2019. doi:<a href=\"https://doi.org/10.5061/dryad.5vv37\">10.5061/dryad.5vv37</a>","ista":"Polechova J. 2019. Data from: Is the sky the limit? On the expansion threshold of a species’ range, Dryad, <a href=\"https://doi.org/10.5061/dryad.5vv37\">10.5061/dryad.5vv37</a>.","mla":"Polechova, Jitka. <i>Data from: Is the Sky the Limit? On the Expansion Threshold of a Species’ Range</i>. Dryad, 2019, doi:<a href=\"https://doi.org/10.5061/dryad.5vv37\">10.5061/dryad.5vv37</a>.","short":"J. Polechova, (2019)."},"year":"2019","abstract":[{"text":"More than 100 years after Grigg’s influential analysis of species’ borders, the causes of limits to species’ ranges still represent a puzzle that has never been understood with clarity. The topic has become especially important recently as many scientists have become interested in the potential for species’ ranges to shift in response to climate change—and yet nearly all of those studies fail to recognise or incorporate evolutionary genetics in a way that relates to theoretical developments. I show that range margins can be understood based on just two measurable parameters: (i) the fitness cost of dispersal—a measure of environmental heterogeneity—and (ii) the strength of genetic drift, which reduces genetic diversity. Together, these two parameters define an ‘expansion threshold’: adaptation fails when genetic drift reduces genetic diversity below that required for adaptation to a heterogeneous environment. When the key parameters drop below this expansion threshold locally, a sharp range margin forms. When they drop below this threshold throughout the species’ range, adaptation collapses everywhere, resulting in either extinction or formation of a fragmented metapopulation. Because the effects of dispersal differ fundamentally with dimension, the second parameter—the strength of genetic drift—is qualitatively different compared to a linear habitat. In two-dimensional habitats, genetic drift becomes effectively independent of selection. It decreases with ‘neighbourhood size’—the number of individuals accessible by dispersal within one generation. Moreover, in contrast to earlier predictions, which neglected evolution of genetic variance and/or stochasticity in two dimensions, dispersal into small marginal populations aids adaptation. This is because the reduction of both genetic and demographic stochasticity has a stronger effect than the cost of dispersal through increased maladaptation. The expansion threshold thus provides a novel, theoretically justified, and testable prediction for formation of the range margin and collapse of the species’ range.","lang":"eng"}],"oa":1,"doi":"10.5061/dryad.5vv37","day":"22","status":"public","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","related_material":{"record":[{"id":"315","relation":"used_in_publication","status":"public"}]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.5vv37"}]},{"language":[{"iso":"eng"}],"publication":"Genetics","oa_version":"Submitted Version","month":"08","main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/content/early/2017/11/30/227082"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","type":"journal_article","date_published":"2018-08-01T00:00:00Z","publist_id":"7617","oa":1,"quality_controlled":"1","page":"1279 - 1303","publisher":"Genetics Society of America","scopus_import":"1","_id":"282","issue":"4","author":[{"full_name":"Sachdeva, Himani","first_name":"Himani","last_name":"Sachdeva","id":"42377A0A-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"NiBa"}],"date_created":"2018-12-11T11:45:36Z","article_processing_charge":"No","publication_status":"published","intvolume":"       209","title":"Introgression of a block of genome under infinitesimal selection","volume":209,"year":"2018","citation":{"ieee":"H. Sachdeva and N. H. Barton, “Introgression of a block of genome under infinitesimal selection,” <i>Genetics</i>, vol. 209, no. 4. Genetics Society of America, pp. 1279–1303, 2018.","chicago":"Sachdeva, Himani, and Nicholas H Barton. “Introgression of a Block of Genome under Infinitesimal Selection.” <i>Genetics</i>. Genetics Society of America, 2018. <a href=\"https://doi.org/10.1534/genetics.118.301018\">https://doi.org/10.1534/genetics.118.301018</a>.","ama":"Sachdeva H, Barton NH. Introgression of a block of genome under infinitesimal selection. <i>Genetics</i>. 2018;209(4):1279-1303. doi:<a href=\"https://doi.org/10.1534/genetics.118.301018\">10.1534/genetics.118.301018</a>","apa":"Sachdeva, H., &#38; Barton, N. H. (2018). Introgression of a block of genome under infinitesimal selection. <i>Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/genetics.118.301018\">https://doi.org/10.1534/genetics.118.301018</a>","ista":"Sachdeva H, Barton NH. 2018. Introgression of a block of genome under infinitesimal selection. Genetics. 209(4), 1279–1303.","short":"H. Sachdeva, N.H. Barton, Genetics 209 (2018) 1279–1303.","mla":"Sachdeva, Himani, and Nicholas H. Barton. “Introgression of a Block of Genome under Infinitesimal Selection.” <i>Genetics</i>, vol. 209, no. 4, Genetics Society of America, 2018, pp. 1279–303, doi:<a href=\"https://doi.org/10.1534/genetics.118.301018\">10.1534/genetics.118.301018</a>."},"date_updated":"2023-09-13T08:22:32Z","external_id":{"isi":["000440014100020"]},"isi":1,"day":"01","doi":"10.1534/genetics.118.301018","abstract":[{"lang":"eng","text":"Adaptive introgression is common in nature and can be driven by selection acting on multiple, linked genes. We explore the effects of polygenic selection on introgression under the infinitesimal model with linkage. This model assumes that the introgressing block has an effectively infinite number of genes, each with an infinitesimal effect on the trait under selection. The block is assumed to introgress under directional selection within a native population that is genetically homogeneous. We use individual-based simulations and a branching process approximation to compute various statistics of the introgressing block, and explore how these depend on parameters such as the map length and initial trait value associated with the introgressing block, the genetic variability along the block, and the strength of selection. Our results show that the introgression dynamics of a block under infinitesimal selection is qualitatively different from the dynamics of neutral introgression. We also find that in the long run, surviving descendant blocks are likely to have intermediate lengths, and clarify how the length is shaped by the interplay between linkage and infinitesimal selection. Our results suggest that it may be difficult to distinguish introgression of single loci from that of genomic blocks with multiple, tightly linked and weakly selected loci."}]},{"type":"journal_article","date_published":"2018-09-01T00:00:00Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","related_material":{"record":[{"status":"public","relation":"popular_science","id":"5583"}]},"publication":"Molecular Ecology Resources","project":[{"name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"oa_version":"None","month":"09","language":[{"iso":"eng"}],"citation":{"apa":"Ellis, T., Field, D., &#38; Barton, N. H. (2018). Efficient inference of paternity and sibship inference given known maternity via hierarchical clustering. <i>Molecular Ecology Resources</i>. Wiley. <a href=\"https://doi.org/10.1111/1755-0998.12782\">https://doi.org/10.1111/1755-0998.12782</a>","ama":"Ellis T, Field D, Barton NH. Efficient inference of paternity and sibship inference given known maternity via hierarchical clustering. <i>Molecular Ecology Resources</i>. 2018;18(5):988-999. doi:<a href=\"https://doi.org/10.1111/1755-0998.12782\">10.1111/1755-0998.12782</a>","chicago":"Ellis, Thomas, David Field, and Nicholas H Barton. “Efficient Inference of Paternity and Sibship Inference given Known Maternity via Hierarchical Clustering.” <i>Molecular Ecology Resources</i>. Wiley, 2018. <a href=\"https://doi.org/10.1111/1755-0998.12782\">https://doi.org/10.1111/1755-0998.12782</a>.","ieee":"T. Ellis, D. Field, and N. H. Barton, “Efficient inference of paternity and sibship inference given known maternity via hierarchical clustering,” <i>Molecular Ecology Resources</i>, vol. 18, no. 5. Wiley, pp. 988–999, 2018.","mla":"Ellis, Thomas, et al. “Efficient Inference of Paternity and Sibship Inference given Known Maternity via Hierarchical Clustering.” <i>Molecular Ecology Resources</i>, vol. 18, no. 5, Wiley, 2018, pp. 988–99, doi:<a href=\"https://doi.org/10.1111/1755-0998.12782\">10.1111/1755-0998.12782</a>.","short":"T. Ellis, D. Field, N.H. Barton, Molecular Ecology Resources 18 (2018) 988–999.","ista":"Ellis T, Field D, Barton NH. 2018. Efficient inference of paternity and sibship inference given known maternity via hierarchical clustering. Molecular Ecology Resources. 18(5), 988–999."},"year":"2018","date_updated":"2025-05-28T11:42:43Z","external_id":{"isi":["000441753000007"]},"isi":1,"day":"01","doi":"10.1111/1755-0998.12782","abstract":[{"lang":"eng","text":"Pedigree and sibship reconstruction are important methods in quantifying relationships and fitness of individuals in natural populations. Current methods employ a Markov chain-based algorithm to explore plausible possible pedigrees iteratively. This provides accurate results, but is time-consuming. Here, we develop a method to infer sibship and paternity relationships from half-sibling arrays of known maternity using hierarchical clustering. Given 50 or more unlinked SNP markers and empirically derived error rates, the method performs as well as the widely used package Colony, but is faster by two orders of magnitude. Using simulations, we show that the method performs well across contrasting mating scenarios, even when samples are large. We then apply the method to open-pollinated arrays of the snapdragon Antirrhinum majus and find evidence for a high degree of multiple mating. Although we focus on diploid SNP data, the method does not depend on marker type and as such has broad applications in nonmodel systems. "}],"volume":18,"acknowledgement":"ERC, Grant/Award Number: 250152","scopus_import":"1","_id":"286","issue":"5","author":[{"id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","last_name":"Ellis","orcid":"0000-0002-8511-0254","full_name":"Ellis, Thomas"},{"full_name":"Field, David","orcid":"0000-0002-4014-8478","last_name":"Field","first_name":"David","id":"419049E2-F248-11E8-B48F-1D18A9856A87"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H"}],"department":[{"_id":"NiBa"}],"date_created":"2018-12-11T11:45:37Z","article_processing_charge":"No","publication_status":"published","intvolume":"        18","title":"Efficient inference of paternity and sibship inference given known maternity via hierarchical clustering","ec_funded":1,"quality_controlled":"1","page":"988 - 999","publisher":"Wiley"},{"language":[{"iso":"eng"}],"month":"06","article_number":"e2005372","oa_version":"Published Version","publication":"PLoS Biology","has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"relation":"research_data","id":"9839","status":"public"}]},"status":"public","file":[{"file_name":"2017_PLOS_Polechova.pdf","content_type":"application/pdf","date_updated":"2020-07-14T12:46:01Z","checksum":"908c52751bba30c55ed36789e5e4c84d","file_size":6968201,"date_created":"2019-01-22T08:30:03Z","creator":"dernst","file_id":"5870","access_level":"open_access","relation":"main_file"}],"oa":1,"publist_id":"7550","publication_identifier":{"issn":["15449173"]},"date_published":"2018-06-15T00:00:00Z","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publisher":"Public Library of Science","file_date_updated":"2020-07-14T12:46:01Z","quality_controlled":"1","title":"Is the sky the limit? On the expansion threshold of a species’ range","intvolume":"        16","publication_status":"published","department":[{"_id":"NiBa"}],"date_created":"2018-12-11T11:45:46Z","author":[{"full_name":"Polechova, Jitka","orcid":"0000-0003-0951-3112","last_name":"Polechova","first_name":"Jitka","id":"3BBFB084-F248-11E8-B48F-1D18A9856A87"}],"issue":"6","_id":"315","scopus_import":1,"ddc":["576"],"volume":16,"abstract":[{"lang":"eng","text":"More than 100 years after Grigg’s influential analysis of species’ borders, the causes of limits to species’ ranges still represent a puzzle that has never been understood with clarity. The topic has become especially important recently as many scientists have become interested in the potential for species’ ranges to shift in response to climate change—and yet nearly all of those studies fail to recognise or incorporate evolutionary genetics in a way that relates to theoretical developments. I show that range margins can be understood based on just two measurable parameters: (i) the fitness cost of dispersal—a measure of environmental heterogeneity—and (ii) the strength of genetic drift, which reduces genetic diversity. Together, these two parameters define an ‘expansion threshold’: adaptation fails when genetic drift reduces genetic diversity below that required for adaptation to a heterogeneous environment. When the key parameters drop below this expansion threshold locally, a sharp range margin forms. When they drop below this threshold throughout the species’ range, adaptation collapses everywhere, resulting in either extinction or formation of a fragmented metapopulation. Because the effects of dispersal differ fundamentally with dimension, the second parameter—the strength of genetic drift—is qualitatively different compared to a linear habitat. In two-dimensional habitats, genetic drift becomes effectively independent of selection. It decreases with ‘neighbourhood size’—the number of individuals accessible by dispersal within one generation. Moreover, in contrast to earlier predictions, which neglected evolution of genetic variance and/or stochasticity in two dimensions, dispersal into small marginal populations aids adaptation. This is because the reduction of both genetic and demographic stochasticity has a stronger effect than the cost of dispersal through increased maladaptation. The expansion threshold thus provides a novel, theoretically justified, and testable prediction for formation of the range margin and collapse of the species’ range."}],"doi":"10.1371/journal.pbio.2005372","day":"15","date_updated":"2023-02-23T14:10:16Z","year":"2018","citation":{"short":"J. Polechova, PLoS Biology 16 (2018).","mla":"Polechova, Jitka. “Is the Sky the Limit? On the Expansion Threshold of a Species’ Range.” <i>PLoS Biology</i>, vol. 16, no. 6, e2005372, Public Library of Science, 2018, doi:<a href=\"https://doi.org/10.1371/journal.pbio.2005372\">10.1371/journal.pbio.2005372</a>.","ista":"Polechova J. 2018. Is the sky the limit? On the expansion threshold of a species’ range. PLoS Biology. 16(6), e2005372.","ama":"Polechova J. Is the sky the limit? On the expansion threshold of a species’ range. <i>PLoS Biology</i>. 2018;16(6). doi:<a href=\"https://doi.org/10.1371/journal.pbio.2005372\">10.1371/journal.pbio.2005372</a>","apa":"Polechova, J. (2018). Is the sky the limit? On the expansion threshold of a species’ range. <i>PLoS Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pbio.2005372\">https://doi.org/10.1371/journal.pbio.2005372</a>","ieee":"J. Polechova, “Is the sky the limit? On the expansion threshold of a species’ range,” <i>PLoS Biology</i>, vol. 16, no. 6. Public Library of Science, 2018.","chicago":"Polechova, Jitka. “Is the Sky the Limit? On the Expansion Threshold of a Species’ Range.” <i>PLoS Biology</i>. Public Library of Science, 2018. <a href=\"https://doi.org/10.1371/journal.pbio.2005372\">https://doi.org/10.1371/journal.pbio.2005372</a>."}},{"language":[{"iso":"eng"}],"month":"07","oa_version":"Preprint","project":[{"call_identifier":"FP7","_id":"25B36484-B435-11E9-9278-68D0E5697425","name":"Mating system and the evolutionary dynamics of hybrid zones","grant_number":"329960"},{"_id":"25B07788-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"250152","name":"Limits to selection in biology and in evolutionary computation"},{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","grant_number":"291734"}],"publication":"Genetics","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","related_material":{"link":[{"url":"https://ist.ac.at/en/news/recognizing-others-but-not-yourself-new-insights-into-the-evolution-of-plant-mating/","relation":"press_release","description":"News on IST Homepage"}],"record":[{"status":"public","relation":"research_data","id":"9813"}]},"main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/node/80098.abstract"}],"oa":1,"date_published":"2018-07-01T00:00:00Z","type":"journal_article","article_type":"original","publisher":"Genetics Society of America","page":"861-883","ec_funded":1,"quality_controlled":"1","title":"Evolutionary pathways for the generation of new self-incompatibility haplotypes in a non-self recognition system","intvolume":"       209","publication_status":"published","department":[{"_id":"NiBa"},{"_id":"GaTk"}],"date_created":"2018-12-11T11:45:47Z","article_processing_charge":"No","author":[{"id":"2BA24EA0-F248-11E8-B48F-1D18A9856A87","first_name":"Katarina","last_name":"Bodova","orcid":"0000-0002-7214-0171","full_name":"Bodova, Katarina"},{"id":"3C869AA0-F248-11E8-B48F-1D18A9856A87","first_name":"Tadeas","last_name":"Priklopil","full_name":"Priklopil, Tadeas"},{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","first_name":"David","last_name":"Field","orcid":"0000-0002-4014-8478","full_name":"Field, David"},{"last_name":"Barton","first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"},{"id":"2C78037E-F248-11E8-B48F-1D18A9856A87","last_name":"Pickup","first_name":"Melinda","full_name":"Pickup, Melinda","orcid":"0000-0001-6118-0541"}],"issue":"3","_id":"316","scopus_import":"1","volume":209,"abstract":[{"lang":"eng","text":"Self-incompatibility (SI) is a genetically based recognition system that functions to prevent self-fertilization and mating among related plants. An enduring puzzle in SI is how the high diversity observed in nature arises and is maintained. Based on the underlying recognition mechanism, SI can be classified into two main groups: self- and non-self recognition. Most work has focused on diversification within self-recognition systems despite expected differences between the two groups in the evolutionary pathways and outcomes of diversification. Here, we use a deterministic population genetic model and stochastic simulations to investigate how novel S-haplotypes evolve in a gametophytic non-self recognition (SRNase/S Locus F-box (SLF)) SI system. For this model the pathways for diversification involve either the maintenance or breakdown of SI and can vary in the order of mutations of the female (SRNase) and male (SLF) components. We show analytically that diversification can occur with high inbreeding depression and self-pollination, but this varies with evolutionary pathway and level of completeness (which determines the number of potential mating partners in the population), and in general is more likely for lower haplotype number. The conditions for diversification are broader in stochastic simulations of finite population size. However, the number of haplotypes observed under high inbreeding and moderate to high self-pollination is less than that commonly observed in nature. Diversification was observed through pathways that maintain SI as well as through self-compatible intermediates. Yet the lifespan of diversified haplotypes was sensitive to their level of completeness. By examining diversification in a non-self recognition SI system, this model extends our understanding of the evolution and maintenance of haplotype diversity observed in a self recognition system common in flowering plants."}],"doi":"10.1534/genetics.118.300748","day":"01","isi":1,"external_id":{"isi":["000437171700017"]},"date_updated":"2025-05-28T11:42:44Z","year":"2018","citation":{"ista":"Bodova K, Priklopil T, Field D, Barton NH, Pickup M. 2018. Evolutionary pathways for the generation of new self-incompatibility haplotypes in a non-self recognition system. Genetics. 209(3), 861–883.","short":"K. Bodova, T. Priklopil, D. Field, N.H. Barton, M. Pickup, Genetics 209 (2018) 861–883.","mla":"Bodova, Katarina, et al. “Evolutionary Pathways for the Generation of New Self-Incompatibility Haplotypes in a Non-Self Recognition System.” <i>Genetics</i>, vol. 209, no. 3, Genetics Society of America, 2018, pp. 861–83, doi:<a href=\"https://doi.org/10.1534/genetics.118.300748\">10.1534/genetics.118.300748</a>.","ieee":"K. Bodova, T. Priklopil, D. Field, N. H. Barton, and M. Pickup, “Evolutionary pathways for the generation of new self-incompatibility haplotypes in a non-self recognition system,” <i>Genetics</i>, vol. 209, no. 3. Genetics Society of America, pp. 861–883, 2018.","chicago":"Bodova, Katarina, Tadeas Priklopil, David Field, Nicholas H Barton, and Melinda Pickup. “Evolutionary Pathways for the Generation of New Self-Incompatibility Haplotypes in a Non-Self Recognition System.” <i>Genetics</i>. Genetics Society of America, 2018. <a href=\"https://doi.org/10.1534/genetics.118.300748\">https://doi.org/10.1534/genetics.118.300748</a>.","ama":"Bodova K, Priklopil T, Field D, Barton NH, Pickup M. Evolutionary pathways for the generation of new self-incompatibility haplotypes in a non-self recognition system. <i>Genetics</i>. 2018;209(3):861-883. doi:<a href=\"https://doi.org/10.1534/genetics.118.300748\">10.1534/genetics.118.300748</a>","apa":"Bodova, K., Priklopil, T., Field, D., Barton, N. H., &#38; Pickup, M. (2018). Evolutionary pathways for the generation of new self-incompatibility haplotypes in a non-self recognition system. <i>Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/genetics.118.300748\">https://doi.org/10.1534/genetics.118.300748</a>"}},{"doi":"10.7717/peerj.5325","day":"01","abstract":[{"text":"Secondary contact is the reestablishment of gene flow between sister populations that have diverged. For instance, at the end of the Quaternary glaciations in Europe, secondary contact occurred during the northward expansion of the populations which had found refugia in the southern peninsulas. With the advent of multi-locus markers, secondary contact can be investigated using various molecular signatures including gradients of allele frequency, admixture clines, and local increase of genetic differentiation. We use coalescent simulations to investigate if molecular data provide enough information to distinguish between secondary contact following range expansion and an alternative evolutionary scenario consisting of a barrier to gene flow in an isolation-by-distance model. We find that an excess of linkage disequilibrium and of genetic diversity at the suture zone is a unique signature of secondary contact. We also find that the directionality index ψ, which was proposed to study range expansion, is informative to distinguish between the two hypotheses. However, although evidence for secondary contact is usually conveyed by statistics related to admixture coefficients, we find that they can be confounded by isolation-by-distance. We recommend to account for the spatial repartition of individuals when investigating secondary contact in order to better reflect the complex spatio-temporal evolution of populations and species.","lang":"eng"}],"date_updated":"2023-10-17T12:24:43Z","year":"2018","citation":{"short":"J. Bertl, H. Ringbauer, M. Blum, PeerJ 2018 (2018).","mla":"Bertl, Johanna, et al. “Can Secondary Contact Following Range Expansion Be Distinguished from Barriers to Gene Flow?” <i>PeerJ</i>, vol. 2018, no. 10, e5325, PeerJ, 2018, doi:<a href=\"https://doi.org/10.7717/peerj.5325\">10.7717/peerj.5325</a>.","ista":"Bertl J, Ringbauer H, Blum M. 2018. Can secondary contact following range expansion be distinguished from barriers to gene flow? PeerJ. 2018(10), e5325.","ama":"Bertl J, Ringbauer H, Blum M. Can secondary contact following range expansion be distinguished from barriers to gene flow? <i>PeerJ</i>. 2018;2018(10). doi:<a href=\"https://doi.org/10.7717/peerj.5325\">10.7717/peerj.5325</a>","apa":"Bertl, J., Ringbauer, H., &#38; Blum, M. (2018). Can secondary contact following range expansion be distinguished from barriers to gene flow? <i>PeerJ</i>. PeerJ. <a href=\"https://doi.org/10.7717/peerj.5325\">https://doi.org/10.7717/peerj.5325</a>","chicago":"Bertl, Johanna, Harald Ringbauer, and Michaël Blum. “Can Secondary Contact Following Range Expansion Be Distinguished from Barriers to Gene Flow?” <i>PeerJ</i>. PeerJ, 2018. <a href=\"https://doi.org/10.7717/peerj.5325\">https://doi.org/10.7717/peerj.5325</a>.","ieee":"J. Bertl, H. Ringbauer, and M. Blum, “Can secondary contact following range expansion be distinguished from barriers to gene flow?,” <i>PeerJ</i>, vol. 2018, no. 10. PeerJ, 2018."},"isi":1,"external_id":{"isi":["000447204400001"],"pmid":["30294507"]},"acknowledgement":"Johanna Bertl was supported by the Vienna Graduate School of Population Genetics (Austrian Science Fund (FWF): W1225-B20) and worked on this project while employed at the Department of Statistics and Operations Research, University of Vienna, Austria. This article was developed in the framework of the Grenoble Alpes Data Institute, which is supported by the French National Research Agency under the “Investissments d’avenir” program (ANR-15-IDEX-02).","volume":2018,"ddc":["576"],"publication_status":"published","department":[{"_id":"NiBa"}],"date_created":"2018-12-11T11:44:16Z","article_processing_charge":"No","title":"Can secondary contact following range expansion be distinguished from barriers to gene flow?","intvolume":"      2018","_id":"33","pmid":1,"scopus_import":"1","author":[{"first_name":"Johanna","last_name":"Bertl","full_name":"Bertl, Johanna"},{"full_name":"Ringbauer, Harald","orcid":"0000-0002-4884-9682","last_name":"Ringbauer","first_name":"Harald","id":"417FCFF4-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Michaël","last_name":"Blum","full_name":"Blum, Michaël"}],"issue":"10","publisher":"PeerJ","quality_controlled":"1","file_date_updated":"2020-07-14T12:46:06Z","oa":1,"publist_id":"8022","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_published":"2018-10-01T00:00:00Z","type":"journal_article","file":[{"creator":"dernst","file_id":"5692","access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_name":"2018_PeerJ_Bertl.pdf","date_updated":"2020-07-14T12:46:06Z","file_size":1328344,"checksum":"3334886c4b39678db4c4b74299ca14ba","date_created":"2018-12-17T10:46:06Z"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","month":"10","article_number":"e5325","publication":"PeerJ","has_accepted_license":"1","language":[{"iso":"eng"}]},{"has_accepted_license":"1","month":"02","oa_version":"Published Version","language":[{"iso":"eng"}],"type":"dissertation","date_published":"2018-02-21T00:00:00Z","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"publist_id":"7713","oa":1,"supervisor":[{"last_name":"Barton","first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"publication_identifier":{"issn":["2663-337X"]},"status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"563"},{"status":"public","relation":"part_of_dissertation","id":"1074"}]},"file":[{"date_updated":"2020-07-14T12:45:23Z","file_name":"IST-2018-963-v1+1_thesis.pdf","content_type":"application/pdf","date_created":"2018-12-12T10:14:55Z","file_size":5792935,"checksum":"8cc534d2b528ae017acf80874cce48c9","file_id":"5111","creator":"system","access_level":"open_access","relation":"main_file"},{"relation":"source_file","access_level":"closed","file_id":"6224","creator":"dernst","date_created":"2019-04-05T09:30:12Z","file_size":113365,"checksum":"6af18d7e5a7e2728ceda2f41ee24f628","date_updated":"2020-07-14T12:45:23Z","file_name":"2018_thesis_ringbauer_source.zip","content_type":"application/zip"}],"author":[{"last_name":"Ringbauer","first_name":"Harald","full_name":"Ringbauer, Harald","orcid":"0000-0002-4884-9682","id":"417FCFF4-F248-11E8-B48F-1D18A9856A87"}],"_id":"200","title":"Inferring recent demography from spatial genetic structure","alternative_title":["ISTA Thesis"],"pubrep_id":"963","article_processing_charge":"No","date_created":"2018-12-11T11:45:10Z","department":[{"_id":"NiBa"}],"publication_status":"published","file_date_updated":"2020-07-14T12:45:23Z","page":"146","publisher":"Institute of Science and Technology Austria","citation":{"ieee":"H. Ringbauer, “Inferring recent demography from spatial genetic structure,” Institute of Science and Technology Austria, 2018.","chicago":"Ringbauer, Harald. “Inferring Recent Demography from Spatial Genetic Structure.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">https://doi.org/10.15479/AT:ISTA:th_963</a>.","ama":"Ringbauer H. Inferring recent demography from spatial genetic structure. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">10.15479/AT:ISTA:th_963</a>","apa":"Ringbauer, H. (2018). <i>Inferring recent demography from spatial genetic structure</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">https://doi.org/10.15479/AT:ISTA:th_963</a>","ista":"Ringbauer H. 2018. Inferring recent demography from spatial genetic structure. Institute of Science and Technology Austria.","mla":"Ringbauer, Harald. <i>Inferring Recent Demography from Spatial Genetic Structure</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">10.15479/AT:ISTA:th_963</a>.","short":"H. Ringbauer, Inferring Recent Demography from Spatial Genetic Structure, Institute of Science and Technology Austria, 2018."},"year":"2018","date_updated":"2025-05-28T11:57:06Z","abstract":[{"text":"This thesis is concerned with the inference of current population structure based on geo-referenced genetic data. The underlying idea is that population structure affects its spatial genetic structure. Therefore, genotype information can be utilized to estimate important demographic parameters such as migration rates. These indirect estimates of population structure have become very attractive, as genotype data is now widely available. However, there also has been much concern about these approaches. Importantly, genetic structure can be influenced by many complex patterns, which often cannot be disentangled. Moreover, many methods merely fit heuristic patterns of genetic structure, and do not build upon population genetics theory. Here, I describe two novel inference methods that address these shortcomings. In Chapter 2, I introduce an inference scheme based on a new type of signal, identity by descent (IBD) blocks. Recently, it has become feasible to detect such long blocks of genome shared between pairs of samples. These blocks are direct traces of recent coalescence events. As such, they contain ample signal for inferring recent demography. I examine sharing of IBD blocks in two-dimensional populations with local migration. Using a diffusion approximation, I derive formulas for an isolation by distance pattern of long IBD blocks and show that sharing of long IBD blocks approaches rapid exponential decay for growing sample distance. I describe an inference scheme based on these results. It can robustly estimate the dispersal rate and population density, which is demonstrated on simulated data. I also show an application to estimate mean migration and the rate of recent population growth within Eastern Europe. Chapter 3 is about a novel method to estimate barriers to gene flow in a two dimensional population. This inference scheme utilizes geographically localized allele frequency fluctuations - a classical isolation by distance signal. The strength of these local fluctuations increases on average next to a barrier, and there is less correlation across it. I again use a framework of diffusion of ancestral lineages to model this effect, and provide an efficient numerical implementation to fit the results to geo-referenced biallelic SNP data. This inference scheme is able to robustly estimate strong barriers to gene flow, as tests on simulated data confirm.","lang":"eng"}],"day":"21","doi":"10.15479/AT:ISTA:th_963","degree_awarded":"PhD","ddc":["576"]},{"publisher":"Springer","file_date_updated":"2020-07-14T12:47:54Z","page":"1604 - 1633","quality_controlled":"1","ec_funded":1,"title":"How to escape local optima in black box optimisation when non elitism outperforms elitism","pubrep_id":"1014","intvolume":"        80","publication_status":"published","date_created":"2018-12-11T11:48:09Z","article_processing_charge":"No","department":[{"_id":"NiBa"},{"_id":"CaGu"}],"author":[{"full_name":"Oliveto, Pietro","last_name":"Oliveto","first_name":"Pietro"},{"last_name":"Paixao","first_name":"Tiago","full_name":"Paixao, Tiago","orcid":"0000-0003-2361-3953","id":"2C5658E6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pérez Heredia, Jorge","last_name":"Pérez Heredia","first_name":"Jorge"},{"full_name":"Sudholt, Dirk","first_name":"Dirk","last_name":"Sudholt"},{"id":"42302D54-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6873-2967","full_name":"Trubenova, Barbora","first_name":"Barbora","last_name":"Trubenova"}],"issue":"5","_id":"723","scopus_import":"1","ddc":["576"],"volume":80,"abstract":[{"text":"Escaping local optima is one of the major obstacles to function optimisation. Using the metaphor of a fitness landscape, local optima correspond to hills separated by fitness valleys that have to be overcome. We define a class of fitness valleys of tunable difficulty by considering their length, representing the Hamming path between the two optima and their depth, the drop in fitness. For this function class we present a runtime comparison between stochastic search algorithms using different search strategies. The (1+1) EA is a simple and well-studied evolutionary algorithm that has to jump across the valley to a point of higher fitness because it does not accept worsening moves (elitism). In contrast, the Metropolis algorithm and the Strong Selection Weak Mutation (SSWM) algorithm, a famous process in population genetics, are both able to cross the fitness valley by accepting worsening moves. We show that the runtime of the (1+1) EA depends critically on the length of the valley while the runtimes of the non-elitist algorithms depend crucially on the depth of the valley. Moreover, we show that both SSWM and Metropolis can also efficiently optimise a rugged function consisting of consecutive valleys.","lang":"eng"}],"doi":"10.1007/s00453-017-0369-2","day":"01","isi":1,"external_id":{"isi":["000428239300010"]},"date_updated":"2023-09-11T14:11:35Z","year":"2018","citation":{"short":"P. Oliveto, T. Paixao, J. Pérez Heredia, D. Sudholt, B. Trubenova, Algorithmica 80 (2018) 1604–1633.","mla":"Oliveto, Pietro, et al. “How to Escape Local Optima in Black Box Optimisation When Non Elitism Outperforms Elitism.” <i>Algorithmica</i>, vol. 80, no. 5, Springer, 2018, pp. 1604–33, doi:<a href=\"https://doi.org/10.1007/s00453-017-0369-2\">10.1007/s00453-017-0369-2</a>.","ista":"Oliveto P, Paixao T, Pérez Heredia J, Sudholt D, Trubenova B. 2018. How to escape local optima in black box optimisation when non elitism outperforms elitism. Algorithmica. 80(5), 1604–1633.","apa":"Oliveto, P., Paixao, T., Pérez Heredia, J., Sudholt, D., &#38; Trubenova, B. (2018). How to escape local optima in black box optimisation when non elitism outperforms elitism. <i>Algorithmica</i>. Springer. <a href=\"https://doi.org/10.1007/s00453-017-0369-2\">https://doi.org/10.1007/s00453-017-0369-2</a>","ama":"Oliveto P, Paixao T, Pérez Heredia J, Sudholt D, Trubenova B. How to escape local optima in black box optimisation when non elitism outperforms elitism. <i>Algorithmica</i>. 2018;80(5):1604-1633. doi:<a href=\"https://doi.org/10.1007/s00453-017-0369-2\">10.1007/s00453-017-0369-2</a>","ieee":"P. Oliveto, T. Paixao, J. Pérez Heredia, D. Sudholt, and B. Trubenova, “How to escape local optima in black box optimisation when non elitism outperforms elitism,” <i>Algorithmica</i>, vol. 80, no. 5. Springer, pp. 1604–1633, 2018.","chicago":"Oliveto, Pietro, Tiago Paixao, Jorge Pérez Heredia, Dirk Sudholt, and Barbora Trubenova. “How to Escape Local Optima in Black Box Optimisation When Non Elitism Outperforms Elitism.” <i>Algorithmica</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s00453-017-0369-2\">https://doi.org/10.1007/s00453-017-0369-2</a>."},"language":[{"iso":"eng"}],"month":"05","oa_version":"Published Version","project":[{"call_identifier":"FP7","_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","grant_number":"618091","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation"}],"publication":"Algorithmica","has_accepted_license":"1","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"file_size":691245,"checksum":"7d92f5d7be81e387edeec4f06442791c","date_created":"2018-12-12T10:08:14Z","file_name":"IST-2018-1014-v1+1_2018_Paixao_Escape.pdf","content_type":"application/pdf","date_updated":"2020-07-14T12:47:54Z","access_level":"open_access","relation":"main_file","creator":"system","file_id":"4674"}],"oa":1,"publist_id":"6957","date_published":"2018-05-01T00:00:00Z","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"doi":"10.15479/AT:ISTA:95","day":"12","abstract":[{"lang":"eng","text":"Data and scripts are provided in support of the manuscript \"Efficient inference of paternity and sibship inference given known maternity via hierarchical clustering\", and the associated Python package FAPS, available from www.github.com/ellisztamas/faps.\r\n\r\nSimulation scripts cover:\r\n1. Performance under different mating scenarios.\r\n2. Comparison with Colony2.\r\n3. Effect of changing the number of Monte Carlo draws\r\n\r\nThe final script covers the analysis of half-sib arrays from wild-pollinated seed in an Antirrhinum majus hybrid zone."}],"oa":1,"date_updated":"2025-05-28T11:56:58Z","tmp":{"legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","short":"CC0 (1.0)","name":"Creative Commons Public Domain Dedication (CC0 1.0)","image":"/images/cc_0.png"},"year":"2018","citation":{"ieee":"T. Ellis, “Data and Python scripts supporting Python package FAPS.” Institute of Science and Technology Austria, 2018.","chicago":"Ellis, Thomas. “Data and Python Scripts Supporting Python Package FAPS.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:95\">https://doi.org/10.15479/AT:ISTA:95</a>.","ama":"Ellis T. Data and Python scripts supporting Python package FAPS. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:95\">10.15479/AT:ISTA:95</a>","apa":"Ellis, T. (2018). Data and Python scripts supporting Python package FAPS. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:95\">https://doi.org/10.15479/AT:ISTA:95</a>","ista":"Ellis T. 2018. Data and Python scripts supporting Python package FAPS, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:95\">10.15479/AT:ISTA:95</a>.","mla":"Ellis, Thomas. <i>Data and Python Scripts Supporting Python Package FAPS</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:95\">10.15479/AT:ISTA:95</a>.","short":"T. Ellis, (2018)."},"date_published":"2018-02-12T00:00:00Z","type":"research_data","file":[{"file_id":"5606","creator":"system","relation":"main_file","access_level":"open_access","date_updated":"2020-07-14T12:47:07Z","file_name":"IST-2018-95-v1+1_amajus_GPS_2012.csv","content_type":"text/csv","date_created":"2018-12-12T13:02:41Z","file_size":122048,"checksum":"fc6aab51439f2622ba6df8632e66fd4f"},{"date_updated":"2020-07-14T12:47:07Z","content_type":"text/csv","file_name":"IST-2018-95-v1+2_offspring_SNPs_2012.csv","date_created":"2018-12-12T13:02:42Z","file_size":235980,"checksum":"92347586ae4f8a6eb7c04354797bf314","file_id":"5607","creator":"system","access_level":"open_access","relation":"main_file"},{"checksum":"3300813645a54e6c5c39f41917228354","file_size":311712,"date_created":"2018-12-12T13:02:43Z","content_type":"text/csv","file_name":"IST-2018-95-v1+3_parents_SNPs_2012.csv","date_updated":"2020-07-14T12:47:07Z","access_level":"open_access","relation":"main_file","creator":"system","file_id":"5608"},{"file_id":"5609","creator":"system","access_level":"open_access","relation":"main_file","date_updated":"2020-07-14T12:47:07Z","file_name":"IST-2018-95-v1+4_faps_scripts.zip","content_type":"application/zip","date_created":"2018-12-12T13:02:44Z","checksum":"e739fc473567fd8f39438b445fc46147","file_size":342090}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"status":"public","relation":"research_paper","id":"286"}]},"oa_version":"Published Version","date_created":"2018-12-12T12:31:39Z","department":[{"_id":"NiBa"}],"article_processing_charge":"No","month":"02","title":"Data and Python scripts supporting Python package FAPS","_id":"5583","has_accepted_license":"1","author":[{"last_name":"Ellis","first_name":"Thomas","full_name":"Ellis, Thomas","orcid":"0000-0002-8511-0254","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87"}],"datarep_id":"95","publisher":"Institute of Science and Technology Austria","contributor":[{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","last_name":"Field","first_name":"David"},{"first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"file_date_updated":"2020-07-14T12:47:07Z"},{"main_file_link":[{"url":"https://www.biorxiv.org/content/10.1101/205484v1","open_access":"1"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"200"}]},"status":"public","type":"journal_article","date_published":"2018-03-01T00:00:00Z","oa":1,"publist_id":"7251","language":[{"iso":"eng"}],"publication":"Genetics","oa_version":"Preprint","month":"03","volume":208,"citation":{"ieee":"H. Ringbauer, A. Kolesnikov, D. Field, and N. H. Barton, “Estimating barriers to gene flow from distorted isolation-by-distance patterns,” <i>Genetics</i>, vol. 208, no. 3. Genetics Society of America, pp. 1231–1245, 2018.","chicago":"Ringbauer, Harald, Alexander Kolesnikov, David Field, and Nicholas H Barton. “Estimating Barriers to Gene Flow from Distorted Isolation-by-Distance Patterns.” <i>Genetics</i>. Genetics Society of America, 2018. <a href=\"https://doi.org/10.1534/genetics.117.300638\">https://doi.org/10.1534/genetics.117.300638</a>.","ama":"Ringbauer H, Kolesnikov A, Field D, Barton NH. Estimating barriers to gene flow from distorted isolation-by-distance patterns. <i>Genetics</i>. 2018;208(3):1231-1245. doi:<a href=\"https://doi.org/10.1534/genetics.117.300638\">10.1534/genetics.117.300638</a>","apa":"Ringbauer, H., Kolesnikov, A., Field, D., &#38; Barton, N. H. (2018). Estimating barriers to gene flow from distorted isolation-by-distance patterns. <i>Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/genetics.117.300638\">https://doi.org/10.1534/genetics.117.300638</a>","ista":"Ringbauer H, Kolesnikov A, Field D, Barton NH. 2018. Estimating barriers to gene flow from distorted isolation-by-distance patterns. Genetics. 208(3), 1231–1245.","mla":"Ringbauer, Harald, et al. “Estimating Barriers to Gene Flow from Distorted Isolation-by-Distance Patterns.” <i>Genetics</i>, vol. 208, no. 3, Genetics Society of America, 2018, pp. 1231–45, doi:<a href=\"https://doi.org/10.1534/genetics.117.300638\">10.1534/genetics.117.300638</a>.","short":"H. Ringbauer, A. Kolesnikov, D. Field, N.H. Barton, Genetics 208 (2018) 1231–1245."},"year":"2018","date_updated":"2023-09-11T13:42:38Z","external_id":{"isi":["000426219600025"]},"isi":1,"day":"01","doi":"10.1534/genetics.117.300638","abstract":[{"text":"In continuous populations with local migration, nearby pairs of individuals have on average more similar genotypes\r\nthan geographically well separated pairs. A barrier to gene flow distorts this classical pattern of isolation by distance. Genetic similarity is decreased for sample pairs on different sides of the barrier and increased for pairs on the same side near the barrier. Here, we introduce an inference scheme that utilizes this signal to detect and estimate the strength of a linear barrier to gene flow in two-dimensions. We use a diffusion approximation to model the effects of a barrier on the geographical spread of ancestry backwards in time. This approach allows us to calculate the chance of recent coalescence and probability of identity by descent. We introduce an inference scheme that fits these theoretical results to the geographical covariance structure of bialleleic genetic markers. It can estimate the strength of the barrier as well as several demographic parameters. We investigate the power of our inference scheme to detect barriers by applying it to a wide range of simulated data. We also showcase an example application to a Antirrhinum majus (snapdragon) flower color hybrid zone, where we do not detect any signal of a strong genome wide barrier to gene flow.","lang":"eng"}],"quality_controlled":"1","page":"1231-1245","publisher":"Genetics Society of America","scopus_import":"1","_id":"563","issue":"3","author":[{"full_name":"Ringbauer, Harald","orcid":"0000-0002-4884-9682","last_name":"Ringbauer","first_name":"Harald","id":"417FCFF4-F248-11E8-B48F-1D18A9856A87"},{"id":"2D157DB6-F248-11E8-B48F-1D18A9856A87","full_name":"Kolesnikov, Alexander","first_name":"Alexander","last_name":"Kolesnikov"},{"full_name":"Field, David","last_name":"Field","first_name":"David"},{"first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"NiBa"},{"_id":"ChLa"}],"date_created":"2018-12-11T11:47:12Z","article_processing_charge":"No","publication_status":"published","intvolume":"       208","title":"Estimating barriers to gene flow from distorted isolation-by-distance patterns"},{"language":[{"iso":"eng"}],"has_accepted_license":"1","publication":"Theoretical Population Biology","project":[{"grant_number":"250152","name":"Limits to selection in biology and in evolutionary computation","call_identifier":"FP7","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"oa_version":"Submitted Version","month":"07","file":[{"date_updated":"2020-07-14T12:47:09Z","file_name":"bartonetheridge.pdf","content_type":"application/pdf","date_created":"2019-12-21T09:36:39Z","checksum":"0b96f6db47e3e91b5e7d103b847c239d","file_size":2287682,"file_id":"7199","creator":"nbarton","relation":"main_file","access_level":"open_access"}],"related_material":{"record":[{"status":"public","relation":"research_data","id":"9842"}]},"status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"type":"journal_article","date_published":"2018-07-01T00:00:00Z","publist_id":"7250","oa":1,"ec_funded":1,"quality_controlled":"1","page":"110-127","file_date_updated":"2020-07-14T12:47:09Z","publisher":"Academic Press","article_type":"original","scopus_import":"1","_id":"564","issue":"7","author":[{"full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Alison","last_name":"Etheridge","full_name":"Etheridge, Alison"}],"department":[{"_id":"NiBa"}],"date_created":"2018-12-11T11:47:12Z","article_processing_charge":"No","publication_status":"published","intvolume":"       122","title":"Establishment in a new habitat by polygenic adaptation","volume":122,"ddc":["519","576"],"year":"2018","citation":{"ieee":"N. H. Barton and A. Etheridge, “Establishment in a new habitat by polygenic adaptation,” <i>Theoretical Population Biology</i>, vol. 122, no. 7. Academic Press, pp. 110–127, 2018.","chicago":"Barton, Nicholas H, and Alison Etheridge. “Establishment in a New Habitat by Polygenic Adaptation.” <i>Theoretical Population Biology</i>. Academic Press, 2018. <a href=\"https://doi.org/10.1016/j.tpb.2017.11.007\">https://doi.org/10.1016/j.tpb.2017.11.007</a>.","ama":"Barton NH, Etheridge A. Establishment in a new habitat by polygenic adaptation. <i>Theoretical Population Biology</i>. 2018;122(7):110-127. doi:<a href=\"https://doi.org/10.1016/j.tpb.2017.11.007\">10.1016/j.tpb.2017.11.007</a>","apa":"Barton, N. H., &#38; Etheridge, A. (2018). Establishment in a new habitat by polygenic adaptation. <i>Theoretical Population Biology</i>. Academic Press. <a href=\"https://doi.org/10.1016/j.tpb.2017.11.007\">https://doi.org/10.1016/j.tpb.2017.11.007</a>","ista":"Barton NH, Etheridge A. 2018. Establishment in a new habitat by polygenic adaptation. Theoretical Population Biology. 122(7), 110–127.","mla":"Barton, Nicholas H., and Alison Etheridge. “Establishment in a New Habitat by Polygenic Adaptation.” <i>Theoretical Population Biology</i>, vol. 122, no. 7, Academic Press, 2018, pp. 110–27, doi:<a href=\"https://doi.org/10.1016/j.tpb.2017.11.007\">10.1016/j.tpb.2017.11.007</a>.","short":"N.H. Barton, A. Etheridge, Theoretical Population Biology 122 (2018) 110–127."},"date_updated":"2025-05-28T11:42:45Z","external_id":{"isi":["000440392900014"]},"isi":1,"day":"01","doi":"10.1016/j.tpb.2017.11.007","abstract":[{"lang":"eng","text":"Maladapted individuals can only colonise a new habitat if they can evolve a\r\npositive growth rate fast enough to avoid extinction, a process known as evolutionary\r\nrescue. We treat log fitness at low density in the new habitat as a\r\nsingle polygenic trait and thus use the infinitesimal model to follow the evolution\r\nof the growth rate; this assumes that the trait values of offspring of a\r\nsexual union are normally distributed around the mean of the parents’ trait\r\nvalues, with variance that depends only on the parents’ relatedness. The\r\nprobability that a single migrant can establish depends on just two parameters:\r\nthe mean and genetic variance of the trait in the source population.\r\nThe chance of success becomes small if migrants come from a population\r\nwith mean growth rate in the new habitat more than a few standard deviations\r\nbelow zero; this chance depends roughly equally on the probability\r\nthat the initial founder is unusually fit, and on the subsequent increase in\r\ngrowth rate of its offspring as a result of selection. The loss of genetic variation\r\nduring the founding event is substantial, but highly variable. With\r\ncontinued migration at rate M, establishment is inevitable; when migration\r\nis rare, the expected time to establishment decreases inversely with M.\r\nHowever, above a threshold migration rate, the population may be trapped\r\nin a ‘sink’ state, in which adaptation is held back by gene flow; above this\r\nthreshold, the expected time to establishment increases exponentially with M. This threshold behaviour is captured by a deterministic approximation,\r\nwhich assumes a Gaussian distribution of the trait in the founder population\r\nwith mean and variance evolving deterministically. By assuming a constant\r\ngenetic variance, we also develop a diffusion approximation for the joint distribution\r\nof population size and trait mean, which extends to include stabilising\r\nselection and density regulation. Divergence of the population from its\r\nancestors causes partial reproductive isolation, which we measure through\r\nthe reproductive value of migrants into the newly established population."}]},{"volume":208,"day":"01","doi":"10.1534/genetics.117.300426","abstract":[{"lang":"eng","text":"We re-examine the model of Kirkpatrick and Barton for the spread of an inversion into a local population. This model assumes that local selection maintains alleles at two or more loci, despite immigration of alternative alleles at these loci from another population. We show that an inversion is favored because it prevents the breakdown of linkage disequilibrium generated by migration; the selective advantage of an inversion is proportional to the amount of recombination between the loci involved, as in other cases where inversions are selected for. We derive expressions for the rate of spread of an inversion; when the loci covered by the inversion are tightly linked, these conditions deviate substantially from those proposed previously, and imply that an inversion can then have only a small advantage. "}],"citation":{"ama":"Charlesworth B, Barton NH. The spread of an inversion with migration and selection. <i>Genetics</i>. 2018;208(1):377-382. doi:<a href=\"https://doi.org/10.1534/genetics.117.300426\">10.1534/genetics.117.300426</a>","apa":"Charlesworth, B., &#38; Barton, N. H. (2018). The spread of an inversion with migration and selection. <i>Genetics</i>. Genetics . <a href=\"https://doi.org/10.1534/genetics.117.300426\">https://doi.org/10.1534/genetics.117.300426</a>","ieee":"B. Charlesworth and N. H. Barton, “The spread of an inversion with migration and selection,” <i>Genetics</i>, vol. 208, no. 1. Genetics , pp. 377–382, 2018.","chicago":"Charlesworth, Brian, and Nicholas H Barton. “The Spread of an Inversion with Migration and Selection.” <i>Genetics</i>. Genetics , 2018. <a href=\"https://doi.org/10.1534/genetics.117.300426\">https://doi.org/10.1534/genetics.117.300426</a>.","short":"B. Charlesworth, N.H. Barton, Genetics 208 (2018) 377–382.","mla":"Charlesworth, Brian, and Nicholas H. Barton. “The Spread of an Inversion with Migration and Selection.” <i>Genetics</i>, vol. 208, no. 1, Genetics , 2018, pp. 377–82, doi:<a href=\"https://doi.org/10.1534/genetics.117.300426\">10.1534/genetics.117.300426</a>.","ista":"Charlesworth B, Barton NH. 2018. The spread of an inversion with migration and selection. Genetics. 208(1), 377–382."},"year":"2018","date_updated":"2023-09-19T10:12:31Z","external_id":{"pmid":["29158424"],"isi":["000419356300025"]},"isi":1,"publisher":"Genetics ","article_type":"original","quality_controlled":"1","page":"377 - 382","department":[{"_id":"NiBa"}],"article_processing_charge":"No","date_created":"2018-12-11T11:47:12Z","publication_status":"published","intvolume":"       208","title":"The spread of an inversion with migration and selection","scopus_import":"1","_id":"565","pmid":1,"issue":"1","author":[{"first_name":"Brian","last_name":"Charlesworth","full_name":"Charlesworth, Brian"},{"last_name":"Barton","first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753870/","open_access":"1"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","publist_id":"7249","oa":1,"type":"journal_article","date_published":"2018-01-01T00:00:00Z","language":[{"iso":"eng"}],"oa_version":"Published Version","month":"01","publication":"Genetics"}]