[{"year":"2017","date_created":"2018-12-11T11:50:31Z","pubrep_id":"727","file_date_updated":"2020-07-14T12:44:37Z","author":[{"first_name":"Sebastian","last_name":"Novak","orcid":"0000-0002-2519-824X","id":"461468AE-F248-11E8-B48F-1D18A9856A87","full_name":"Novak, Sebastian"},{"full_name":"Kollár, Richard","last_name":"Kollár","first_name":"Richard"}],"language":[{"iso":"eng"}],"ddc":["576"],"doi":"10.1534/genetics.116.193946","file":[{"date_created":"2018-12-12T10:10:43Z","file_id":"4833","creator":"system","checksum":"7c8ab79cda1f92760bbbbe0f53175bfc","access_level":"open_access","file_name":"IST-2016-727-v1+1_SFC_Genetics_final.pdf","file_size":361500,"date_updated":"2020-07-14T12:44:37Z","relation":"main_file","content_type":"application/pdf"}],"project":[{"_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","grant_number":"618091","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation","call_identifier":"FP7"},{"call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","_id":"25B07788-B435-11E9-9278-68D0E5697425","grant_number":"250152"}],"publication_status":"published","oa":1,"intvolume":"       205","department":[{"_id":"NiBa"}],"issue":"1","ec_funded":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1169","page":"367 - 374","has_accepted_license":"1","day":"01","publication":"Genetics","volume":205,"publist_id":"6188","title":"Spatial gene frequency waves under genotype dependent dispersal","isi":1,"article_processing_charge":"No","date_published":"2017-01-01T00:00:00Z","external_id":{"isi":["000393677300025"]},"date_updated":"2025-07-10T11:50:13Z","quality_controlled":"1","month":"01","oa_version":"Submitted Version","citation":{"chicago":"Novak, Sebastian, and Richard Kollár. “Spatial Gene Frequency Waves under Genotype Dependent Dispersal.” <i>Genetics</i>. Genetics Society of America, 2017. <a href=\"https://doi.org/10.1534/genetics.116.193946\">https://doi.org/10.1534/genetics.116.193946</a>.","apa":"Novak, S., &#38; Kollár, R. (2017). Spatial gene frequency waves under genotype dependent dispersal. <i>Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/genetics.116.193946\">https://doi.org/10.1534/genetics.116.193946</a>","ista":"Novak S, Kollár R. 2017. Spatial gene frequency waves under genotype dependent dispersal. Genetics. 205(1), 367–374.","short":"S. Novak, R. Kollár, Genetics 205 (2017) 367–374.","mla":"Novak, Sebastian, and Richard Kollár. “Spatial Gene Frequency Waves under Genotype Dependent Dispersal.” <i>Genetics</i>, vol. 205, no. 1, Genetics Society of America, 2017, pp. 367–74, doi:<a href=\"https://doi.org/10.1534/genetics.116.193946\">10.1534/genetics.116.193946</a>.","ieee":"S. Novak and R. Kollár, “Spatial gene frequency waves under genotype dependent dispersal,” <i>Genetics</i>, vol. 205, no. 1. Genetics Society of America, pp. 367–374, 2017.","ama":"Novak S, Kollár R. Spatial gene frequency waves under genotype dependent dispersal. <i>Genetics</i>. 2017;205(1):367-374. doi:<a href=\"https://doi.org/10.1534/genetics.116.193946\">10.1534/genetics.116.193946</a>"},"abstract":[{"lang":"eng","text":"Dispersal is a crucial factor in natural evolution, since it determines the habitat experienced by any population and defines the spatial scale of interactions between individuals. There is compelling evidence for systematic differences in dispersal characteristics within the same population, i.e., genotype-dependent dispersal. The consequences of genotype-dependent dispersal on other evolutionary phenomena, however, are poorly understood. In this article we investigate the effect of genotype-dependent dispersal on spatial gene frequency patterns, using a generalization of the classical diffusion model of selection and dispersal. Dispersal is characterized by the variance of dispersal (diffusion coefficient) and the mean displacement (directional advection term). We demonstrate that genotype-dependent dispersal may change the qualitative behavior of Fisher waves, which change from being “pulled” to being “pushed” wave fronts as the discrepancy in dispersal between genotypes increases. The speed of any wave is partitioned into components due to selection, genotype-dependent variance of dispersal, and genotype-dependent mean displacement. We apply our findings to wave fronts maintained by selection against heterozygotes. Furthermore, we identify a benefit of increased variance of dispersal, quantify its effect on the speed of the wave, and discuss the implications for the evolution of dispersal strategies."}],"scopus_import":"1","publisher":"Genetics Society of America","publication_identifier":{"issn":["0016-6731"]},"type":"journal_article","status":"public"},{"year":"2017","date_created":"2018-12-11T11:50:38Z","author":[{"full_name":"Kollár, Richard","last_name":"Kollár","first_name":"Richard"},{"id":"461468AE-F248-11E8-B48F-1D18A9856A87","full_name":"Novak, Sebastian","last_name":"Novak","first_name":"Sebastian","orcid":"0000-0002-2519-824X"}],"language":[{"iso":"eng"}],"intvolume":"        79","doi":"10.1007/s11538-016-0244-3","project":[{"call_identifier":"FP7","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation","grant_number":"618091","_id":"25B1EC9E-B435-11E9-9278-68D0E5697425"},{"name":"Limits to selection in biology and in evolutionary computation","call_identifier":"FP7","_id":"25B07788-B435-11E9-9278-68D0E5697425","grant_number":"250152"}],"publication_status":"published","oa":1,"ec_funded":1,"issue":"3","department":[{"_id":"NiBa"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","_id":"1191","page":"525-559","day":"01","publication":"Bulletin of Mathematical Biology","publist_id":"6160","volume":79,"isi":1,"acknowledgement":"We thank Nick Barton, Katarína Bod’ová, and Sr\r\n-\r\ndan Sarikas for constructive feed-\r\nback and support. Furthermore, we would like to express our deep gratitude to the anonymous referees (one\r\nof whom, Jimmy Garnier, agreed to reveal his identity) and the editor Max Souza, for very helpful and\r\ndetailed comments and suggestions that significantly helped us to improve the manuscript. This project has\r\nreceived funding from the European Union’s Seventh Framework Programme for research, technological\r\ndevelopment and demonstration under Grant Agreement 618091 Speed of Adaptation in Population Genet-\r\nics and Evolutionary Computation (SAGE) and the European Research Council (ERC) Grant No. 250152\r\n(SN), from the Scientific Grant Agency of the Slovak Republic under the Grant 1/0459/13 and by the Slovak\r\nResearch and Development Agency under the Contract No. APVV-14-0378 (RK). RK would also like to\r\nthank IST Austria for its hospitality during the work on this project.","date_published":"2017-03-01T00:00:00Z","arxiv":1,"article_processing_charge":"No","title":"Existence of traveling waves for the generalized F–KPP equation","date_updated":"2025-09-22T09:44:54Z","quality_controlled":"1","external_id":{"isi":["000395156200005"],"arxiv":["1607.00944"]},"month":"03","oa_version":"Preprint","abstract":[{"text":"Variation in genotypes may be responsible for differences in dispersal rates, directional biases, and growth rates of individuals. These traits may favor certain genotypes and enhance their spatiotemporal spreading into areas occupied by the less advantageous genotypes. We study how these factors influence the speed of spreading in the case of two competing genotypes under the assumption that spatial variation of the total population is small compared to the spatial variation of the frequencies of the genotypes in the population. In that case, the dynamics of the frequency of one of the genotypes is approximately described by a generalized Fisher–Kolmogorov–Petrovskii–Piskunov (F–KPP) equation. This generalized F–KPP equation with (nonlinear) frequency-dependent diffusion and advection terms admits traveling wave solutions that characterize the invasion of the dominant genotype. Our existence results generalize the classical theory for traveling waves for the F–KPP with constant coefficients. Moreover, in the particular case of the quadratic (monostable) nonlinear growth–decay rate in the generalized F–KPP we study in detail the influence of the variance in diffusion and mean displacement rates of the two genotypes on the minimal wave propagation speed.","lang":"eng"}],"scopus_import":"1","citation":{"apa":"Kollár, R., &#38; Novak, S. (2017). Existence of traveling waves for the generalized F–KPP equation. <i>Bulletin of Mathematical Biology</i>. Springer. <a href=\"https://doi.org/10.1007/s11538-016-0244-3\">https://doi.org/10.1007/s11538-016-0244-3</a>","chicago":"Kollár, Richard, and Sebastian Novak. “Existence of Traveling Waves for the Generalized F–KPP Equation.” <i>Bulletin of Mathematical Biology</i>. Springer, 2017. <a href=\"https://doi.org/10.1007/s11538-016-0244-3\">https://doi.org/10.1007/s11538-016-0244-3</a>.","mla":"Kollár, Richard, and Sebastian Novak. “Existence of Traveling Waves for the Generalized F–KPP Equation.” <i>Bulletin of Mathematical Biology</i>, vol. 79, no. 3, Springer, 2017, pp. 525–59, doi:<a href=\"https://doi.org/10.1007/s11538-016-0244-3\">10.1007/s11538-016-0244-3</a>.","ista":"Kollár R, Novak S. 2017. Existence of traveling waves for the generalized F–KPP equation. Bulletin of Mathematical Biology. 79(3), 525–559.","short":"R. Kollár, S. Novak, Bulletin of Mathematical Biology 79 (2017) 525–559.","ieee":"R. Kollár and S. Novak, “Existence of traveling waves for the generalized F–KPP equation,” <i>Bulletin of Mathematical Biology</i>, vol. 79, no. 3. Springer, pp. 525–559, 2017.","ama":"Kollár R, Novak S. Existence of traveling waves for the generalized F–KPP equation. <i>Bulletin of Mathematical Biology</i>. 2017;79(3):525-559. doi:<a href=\"https://doi.org/10.1007/s11538-016-0244-3\">10.1007/s11538-016-0244-3</a>"},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1607.00944"}],"publisher":"Springer","status":"public","type":"journal_article"},{"month":"01","external_id":{"isi":["000392229100011"]},"date_updated":"2025-04-15T07:11:02Z","quality_controlled":"1","title":"How does epistasis influence the response to selection?","isi":1,"article_processing_charge":"No","date_published":"2017-01-01T00:00:00Z","volume":118,"publist_id":"6151","type":"journal_article","status":"public","related_material":{"record":[{"id":"9710","relation":"research_data","status":"public"}]},"publisher":"Nature Publishing Group","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5176114/","open_access":"1"}],"oa_version":"Submitted Version","abstract":[{"text":"Much of quantitative genetics is based on the ‘infinitesimal model’, under which selection has a negligible effect on the genetic variance. This is typically justified by assuming a very large number of loci with additive effects. However, it applies even when genes interact, provided that the number of loci is large enough that selection on each of them is weak relative to random drift. In the long term, directional selection will change allele frequencies, but even then, the effects of epistasis on the ultimate change in trait mean due to selection may be modest. Stabilising selection can maintain many traits close to their optima, even when the underlying alleles are weakly selected. However, the number of traits that can be optimised is apparently limited to ~4Ne by the ‘drift load’, and this is hard to reconcile with the apparent complexity of many organisms. Just as for the mutation load, this limit can be evaded by a particular form of negative epistasis. A more robust limit is set by the variance in reproductive success. This suggests that selection accumulates information most efficiently in the infinitesimal regime, when selection on individual alleles is weak, and comparable with random drift. A review of evidence on selection strength suggests that although most variance in fitness may be because of alleles with large Nes, substantial amounts of adaptation may be because of alleles in the infinitesimal regime, in which epistasis has modest effects.","lang":"eng"}],"citation":{"ieee":"N. H. Barton, “How does epistasis influence the response to selection?,” <i>Heredity</i>, vol. 118. Nature Publishing Group, pp. 96–109, 2017.","ama":"Barton NH. How does epistasis influence the response to selection? <i>Heredity</i>. 2017;118:96-109. doi:<a href=\"https://doi.org/10.1038/hdy.2016.109\">10.1038/hdy.2016.109</a>","chicago":"Barton, Nicholas H. “How Does Epistasis Influence the Response to Selection?” <i>Heredity</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/hdy.2016.109\">https://doi.org/10.1038/hdy.2016.109</a>.","apa":"Barton, N. H. (2017). How does epistasis influence the response to selection? <i>Heredity</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/hdy.2016.109\">https://doi.org/10.1038/hdy.2016.109</a>","short":"N.H. Barton, Heredity 118 (2017) 96–109.","ista":"Barton NH. 2017. How does epistasis influence the response to selection? Heredity. 118, 96–109.","mla":"Barton, Nicholas H. “How Does Epistasis Influence the Response to Selection?” <i>Heredity</i>, vol. 118, Nature Publishing Group, 2017, pp. 96–109, doi:<a href=\"https://doi.org/10.1038/hdy.2016.109\">10.1038/hdy.2016.109</a>."},"scopus_import":"1","doi":"10.1038/hdy.2016.109","project":[{"call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","oa":1,"intvolume":"       118","author":[{"first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H"}],"language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:40Z","year":"2017","publication":"Heredity","day":"01","page":"96 - 109","ec_funded":1,"department":[{"_id":"NiBa"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"1199"},{"license":"https://creativecommons.org/licenses/by/4.0/","quality_controlled":"1","date_updated":"2026-04-16T09:55:33Z","external_id":{"isi":["000400379500013"]},"month":"06","publist_id":"5931","volume":78,"article_processing_charge":"No","date_published":"2017-06-01T00:00:00Z","isi":1,"title":"Towards a runtime comparison of natural and artificial evolution","status":"public","type":"journal_article","publication_identifier":{"issn":["0178-4617"]},"abstract":[{"lang":"eng","text":"Evolutionary algorithms (EAs) form a popular optimisation paradigm inspired by natural evolution. In recent years the field of evolutionary computation has developed a rigorous analytical theory to analyse the runtimes of EAs on many illustrative problems. Here we apply this theory to a simple model of natural evolution. In the Strong Selection Weak Mutation (SSWM) evolutionary regime the time between occurrences of new mutations is much longer than the time it takes for a mutated genotype to take over the population. In this situation, the population only contains copies of one genotype and evolution can be modelled as a stochastic process evolving one genotype by means of mutation and selection between the resident and the mutated genotype. The probability of accepting the mutated genotype then depends on the change in fitness. We study this process, SSWM, from an algorithmic perspective, quantifying its expected optimisation time for various parameters and investigating differences to a similar evolutionary algorithm, the well-known (1+1) EA. We show that SSWM can have a moderate advantage over the (1+1) EA at crossing fitness valleys and study an example where SSWM outperforms the (1+1) EA by taking advantage of information on the fitness gradient."}],"scopus_import":"1","citation":{"mla":"Paixao, Tiago, et al. “Towards a Runtime Comparison of Natural and Artificial Evolution.” <i>Algorithmica</i>, vol. 78, no. 2, Springer, 2017, pp. 681–713, doi:<a href=\"https://doi.org/10.1007/s00453-016-0212-1\">10.1007/s00453-016-0212-1</a>.","short":"T. Paixao, J. Pérez Heredia, D. Sudholt, B. Trubenova, Algorithmica 78 (2017) 681–713.","ista":"Paixao T, Pérez Heredia J, Sudholt D, Trubenova B. 2017. Towards a runtime comparison of natural and artificial evolution. Algorithmica. 78(2), 681–713.","apa":"Paixao, T., Pérez Heredia, J., Sudholt, D., &#38; Trubenova, B. (2017). Towards a runtime comparison of natural and artificial evolution. <i>Algorithmica</i>. Springer. <a href=\"https://doi.org/10.1007/s00453-016-0212-1\">https://doi.org/10.1007/s00453-016-0212-1</a>","chicago":"Paixao, Tiago, Jorge Pérez Heredia, Dirk Sudholt, and Barbora Trubenova. “Towards a Runtime Comparison of Natural and Artificial Evolution.” <i>Algorithmica</i>. Springer, 2017. <a href=\"https://doi.org/10.1007/s00453-016-0212-1\">https://doi.org/10.1007/s00453-016-0212-1</a>.","ama":"Paixao T, Pérez Heredia J, Sudholt D, Trubenova B. Towards a runtime comparison of natural and artificial evolution. <i>Algorithmica</i>. 2017;78(2):681-713. doi:<a href=\"https://doi.org/10.1007/s00453-016-0212-1\">10.1007/s00453-016-0212-1</a>","ieee":"T. Paixao, J. Pérez Heredia, D. Sudholt, and B. Trubenova, “Towards a runtime comparison of natural and artificial evolution,” <i>Algorithmica</i>, vol. 78, no. 2. Springer, pp. 681–713, 2017."},"oa_version":"Published Version","publisher":"Springer","ddc":["576"],"language":[{"iso":"eng"}],"author":[{"full_name":"Paixao, Tiago","id":"2C5658E6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2361-3953","last_name":"Paixao","first_name":"Tiago"},{"last_name":"Pérez Heredia","first_name":"Jorge","full_name":"Pérez Heredia, Jorge"},{"full_name":"Sudholt, Dirk","last_name":"Sudholt","first_name":"Dirk"},{"full_name":"Trubenova, Barbora","id":"42302D54-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6873-2967","last_name":"Trubenova","first_name":"Barbora"}],"file_date_updated":"2020-07-14T12:44:44Z","pubrep_id":"658","intvolume":"        78","oa":1,"publication_status":"published","doi":"10.1007/s00453-016-0212-1","project":[{"grant_number":"618091","_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation"}],"file":[{"content_type":"application/pdf","date_updated":"2020-07-14T12:44:44Z","relation":"main_file","file_size":710206,"file_id":"4805","date_created":"2018-12-12T10:10:19Z","access_level":"open_access","file_name":"IST-2016-658-v1+1_s00453-016-0212-1.pdf","checksum":"7873f665a0c598ac747c908f34cb14b9","creator":"system"}],"year":"2017","date_created":"2018-12-11T11:51:27Z","day":"01","publication":"Algorithmica","_id":"1336","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","ec_funded":1,"issue":"2","department":[{"_id":"NiBa"},{"_id":"CaGu"}],"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","page":"681 - 713"},{"month":"12","date_updated":"2025-07-10T11:50:42Z","quality_controlled":"1","external_id":{"isi":["000414343200003"]},"isi":1,"article_processing_charge":"No","date_published":"2017-12-01T00:00:00Z","title":"Model checking the evolution of gene regulatory networks","publist_id":"5898","volume":54,"status":"public","publication_identifier":{"issn":["0001-5903"]},"type":"journal_article","related_material":{"record":[{"id":"1835","relation":"earlier_version","status":"public"}]},"publisher":"Springer","oa_version":"Published Version","abstract":[{"text":"The behaviour of gene regulatory networks (GRNs) is typically analysed using simulation-based statistical testing-like methods. In this paper, we demonstrate that we can replace this approach by a formal verification-like method that gives higher assurance and scalability. We focus on Wagner’s weighted GRN model with varying weights, which is used in evolutionary biology. In the model, weight parameters represent the gene interaction strength that may change due to genetic mutations. For a property of interest, we synthesise the constraints over the parameter space that represent the set of GRNs satisfying the property. We experimentally show that our parameter synthesis procedure computes the mutational robustness of GRNs—an important problem of interest in evolutionary biology—more efficiently than the classical simulation method. We specify the property in linear temporal logic. We employ symbolic bounded model checking and SMT solving to compute the space of GRNs that satisfy the property, which amounts to synthesizing a set of linear constraints on the weights.","lang":"eng"}],"scopus_import":"1","citation":{"mla":"Giacobbe, Mirco, et al. “Model Checking the Evolution of Gene Regulatory Networks.” <i>Acta Informatica</i>, vol. 54, no. 8, Springer, 2017, pp. 765–87, doi:<a href=\"https://doi.org/10.1007/s00236-016-0278-x\">10.1007/s00236-016-0278-x</a>.","short":"M. Giacobbe, C.C. Guet, A. Gupta, T.A. Henzinger, T. Paixao, T. Petrov, Acta Informatica 54 (2017) 765–787.","ista":"Giacobbe M, Guet CC, Gupta A, Henzinger TA, Paixao T, Petrov T. 2017. Model checking the evolution of gene regulatory networks. Acta Informatica. 54(8), 765–787.","apa":"Giacobbe, M., Guet, C. C., Gupta, A., Henzinger, T. A., Paixao, T., &#38; Petrov, T. (2017). Model checking the evolution of gene regulatory networks. <i>Acta Informatica</i>. Springer. <a href=\"https://doi.org/10.1007/s00236-016-0278-x\">https://doi.org/10.1007/s00236-016-0278-x</a>","chicago":"Giacobbe, Mirco, Calin C Guet, Ashutosh Gupta, Thomas A Henzinger, Tiago Paixao, and Tatjana Petrov. “Model Checking the Evolution of Gene Regulatory Networks.” <i>Acta Informatica</i>. Springer, 2017. <a href=\"https://doi.org/10.1007/s00236-016-0278-x\">https://doi.org/10.1007/s00236-016-0278-x</a>.","ama":"Giacobbe M, Guet CC, Gupta A, Henzinger TA, Paixao T, Petrov T. Model checking the evolution of gene regulatory networks. <i>Acta Informatica</i>. 2017;54(8):765-787. doi:<a href=\"https://doi.org/10.1007/s00236-016-0278-x\">10.1007/s00236-016-0278-x</a>","ieee":"M. Giacobbe, C. C. Guet, A. Gupta, T. A. Henzinger, T. Paixao, and T. Petrov, “Model checking the evolution of gene regulatory networks,” <i>Acta Informatica</i>, vol. 54, no. 8. Springer, pp. 765–787, 2017."},"intvolume":"        54","project":[{"grant_number":"267989","_id":"25EE3708-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Quantitative Reactive Modeling"},{"name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","name":"Formal methods for the design and analysis of complex systems","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425"},{"_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","grant_number":"618091","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation","call_identifier":"FP7"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"_id":"25B07788-B435-11E9-9278-68D0E5697425","grant_number":"250152","name":"Limits to selection in biology and in evolutionary computation","call_identifier":"FP7"}],"file":[{"file_size":755241,"date_updated":"2020-07-14T12:44:46Z","content_type":"application/pdf","relation":"main_file","date_created":"2019-01-17T15:57:29Z","file_id":"5841","checksum":"4e661d9135d7f8c342e8e258dee76f3e","creator":"dernst","file_name":"2017_ActaInformatica_Giacobbe.pdf","access_level":"open_access"}],"doi":"10.1007/s00236-016-0278-x","publication_status":"published","oa":1,"author":[{"orcid":"0000-0001-8180-0904","first_name":"Mirco","last_name":"Giacobbe","full_name":"Giacobbe, Mirco","id":"3444EA5E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Calin C","last_name":"Guet","orcid":"0000-0001-6220-2052","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","full_name":"Guet, Calin C"},{"first_name":"Ashutosh","last_name":"Gupta","id":"335E5684-F248-11E8-B48F-1D18A9856A87","full_name":"Gupta, Ashutosh"},{"first_name":"Thomas A","last_name":"Henzinger","orcid":"0000−0002−2985−7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A"},{"id":"2C5658E6-F248-11E8-B48F-1D18A9856A87","full_name":"Paixao, Tiago","first_name":"Tiago","last_name":"Paixao","orcid":"0000-0003-2361-3953"},{"first_name":"Tatjana","last_name":"Petrov","orcid":"0000-0002-9041-0905","id":"3D5811FC-F248-11E8-B48F-1D18A9856A87","full_name":"Petrov, Tatjana"}],"ddc":["006","576"],"language":[{"iso":"eng"}],"pubrep_id":"649","file_date_updated":"2020-07-14T12:44:46Z","date_created":"2018-12-11T11:51:32Z","year":"2017","publication":"Acta Informatica","corr_author":"1","day":"01","has_accepted_license":"1","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"page":"765 - 787","ec_funded":1,"department":[{"_id":"ToHe"},{"_id":"CaGu"},{"_id":"NiBa"}],"issue":"8","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1351"},{"year":"2017","date_created":"2018-12-11T11:47:14Z","file_date_updated":"2020-07-14T12:47:10Z","pubrep_id":"918","language":[{"iso":"eng"}],"ddc":["576"],"author":[{"full_name":"Lagator, Mato","id":"345D25EC-F248-11E8-B48F-1D18A9856A87","first_name":"Mato","last_name":"Lagator"},{"first_name":"Srdjan","last_name":"Sarikas","id":"35F0286E-F248-11E8-B48F-1D18A9856A87","full_name":"Sarikas, Srdjan"},{"last_name":"Acar","first_name":"Hande","orcid":"0000-0003-1986-9753","id":"2DDF136A-F248-11E8-B48F-1D18A9856A87","full_name":"Acar, Hande"},{"id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","full_name":"Bollback, Jonathan P","last_name":"Bollback","first_name":"Jonathan P","orcid":"0000-0002-4624-4612"},{"orcid":"0000-0001-6220-2052","last_name":"Guet","first_name":"Calin C","full_name":"Guet, Calin C","id":"47F8433E-F248-11E8-B48F-1D18A9856A87"}],"oa":1,"publication_status":"published","file":[{"file_size":8453470,"date_updated":"2020-07-14T12:47:10Z","content_type":"application/pdf","relation":"main_file","date_created":"2018-12-12T10:14:42Z","file_id":"5096","creator":"system","checksum":"273ab17f33305e4eaafd911ff88e7c5b","file_name":"IST-2017-918-v1+1_elife-28921-figures-v3.pdf","access_level":"open_access"},{"date_created":"2018-12-12T10:14:43Z","file_id":"5097","creator":"system","checksum":"b433f90576c7be597cd43367946f8e7f","file_name":"IST-2017-918-v1+2_elife-28921-v3.pdf","access_level":"open_access","file_size":1953221,"date_updated":"2020-07-14T12:47:10Z","relation":"main_file","content_type":"application/pdf"}],"doi":"10.7554/eLife.28921","project":[{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"name":"Selective Barriers to Horizontal Gene Transfer","call_identifier":"H2020","grant_number":"648440","_id":"2578D616-B435-11E9-9278-68D0E5697425"}],"intvolume":"         6","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","_id":"570","department":[{"_id":"CaGu"},{"_id":"JoBo"},{"_id":"NiBa"}],"ec_funded":1,"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","day":"13","corr_author":"1","publication":"eLife","volume":6,"publist_id":"7244","title":"Regulatory network structure determines patterns of intermolecular epistasis","article_processing_charge":"No","date_published":"2017-11-13T00:00:00Z","isi":1,"external_id":{"isi":["000425868200001"]},"date_updated":"2025-09-11T07:40:30Z","quality_controlled":"1","month":"11","article_number":"e28921","scopus_import":"1","abstract":[{"lang":"eng","text":"Most phenotypes are determined by molecular systems composed of specifically interacting molecules. However, unlike for individual components, little is known about the distributions of mutational effects of molecular systems as a whole. We ask how the distribution of mutational effects of a transcriptional regulatory system differs from the distributions of its components, by first independently, and then simultaneously, mutating a transcription factor and the associated promoter it represses. We find that the system distribution exhibits increased phenotypic variation compared to individual component distributions - an effect arising from intermolecular epistasis between the transcription factor and its DNA-binding site. In large part, this epistasis can be qualitatively attributed to the structure of the transcriptional regulatory system and could therefore be a common feature in prokaryotes. Counter-intuitively, intermolecular epistasis can alleviate the constraints of individual components, thereby increasing phenotypic variation that selection could act on and facilitating adaptive evolution. "}],"citation":{"ieee":"M. Lagator, S. Sarikas, H. Acar, J. P. Bollback, and C. C. Guet, “Regulatory network structure determines patterns of intermolecular epistasis,” <i>eLife</i>, vol. 6. eLife Sciences Publications, 2017.","ama":"Lagator M, Sarikas S, Acar H, Bollback JP, Guet CC. Regulatory network structure determines patterns of intermolecular epistasis. <i>eLife</i>. 2017;6. doi:<a href=\"https://doi.org/10.7554/eLife.28921\">10.7554/eLife.28921</a>","apa":"Lagator, M., Sarikas, S., Acar, H., Bollback, J. P., &#38; Guet, C. C. (2017). Regulatory network structure determines patterns of intermolecular epistasis. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.28921\">https://doi.org/10.7554/eLife.28921</a>","chicago":"Lagator, Mato, Srdjan Sarikas, Hande Acar, Jonathan P Bollback, and Calin C Guet. “Regulatory Network Structure Determines Patterns of Intermolecular Epistasis.” <i>ELife</i>. eLife Sciences Publications, 2017. <a href=\"https://doi.org/10.7554/eLife.28921\">https://doi.org/10.7554/eLife.28921</a>.","mla":"Lagator, Mato, et al. “Regulatory Network Structure Determines Patterns of Intermolecular Epistasis.” <i>ELife</i>, vol. 6, e28921, eLife Sciences Publications, 2017, doi:<a href=\"https://doi.org/10.7554/eLife.28921\">10.7554/eLife.28921</a>.","short":"M. Lagator, S. Sarikas, H. Acar, J.P. Bollback, C.C. Guet, ELife 6 (2017).","ista":"Lagator M, Sarikas S, Acar H, Bollback JP, Guet CC. 2017. Regulatory network structure determines patterns of intermolecular epistasis. eLife. 6, e28921."},"oa_version":"Published Version","publisher":"eLife Sciences Publications","type":"journal_article","publication_identifier":{"issn":["2050-084X"]},"status":"public"},{"type":"journal_article","publication_identifier":{"issn":["0036-8075"]},"status":"public","citation":{"ama":"Bradley D, Xu P, Mohorianu I, et al. Evolution of flower color pattern through selection on regulatory small RNAs. <i>Science</i>. 2017;358(6365):925-928. doi:<a href=\"https://doi.org/10.1126/science.aao3526\">10.1126/science.aao3526</a>","ieee":"D. Bradley <i>et al.</i>, “Evolution of flower color pattern through selection on regulatory small RNAs,” <i>Science</i>, vol. 358, no. 6365. American Association for the Advancement of Science, pp. 925–928, 2017.","mla":"Bradley, Desmond, et al. “Evolution of Flower Color Pattern through Selection on Regulatory Small RNAs.” <i>Science</i>, vol. 358, no. 6365, American Association for the Advancement of Science, 2017, pp. 925–28, doi:<a href=\"https://doi.org/10.1126/science.aao3526\">10.1126/science.aao3526</a>.","ista":"Bradley D, Xu P, Mohorianu I, Whibley A, Field D, Tavares H, Couchman M, Copsey L, Carpenter R, Li M, Li Q, Xue Y, Dalmay T, Coen E. 2017. Evolution of flower color pattern through selection on regulatory small RNAs. Science. 358(6365), 925–928.","short":"D. Bradley, P. Xu, I. Mohorianu, A. Whibley, D. Field, H. Tavares, M. Couchman, L. Copsey, R. Carpenter, M. Li, Q. Li, Y. Xue, T. Dalmay, E. Coen, Science 358 (2017) 925–928.","apa":"Bradley, D., Xu, P., Mohorianu, I., Whibley, A., Field, D., Tavares, H., … Coen, E. (2017). Evolution of flower color pattern through selection on regulatory small RNAs. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.aao3526\">https://doi.org/10.1126/science.aao3526</a>","chicago":"Bradley, Desmond, Ping Xu, Irina Mohorianu, Annabel Whibley, David Field, Hugo Tavares, Matthew Couchman, et al. “Evolution of Flower Color Pattern through Selection on Regulatory Small RNAs.” <i>Science</i>. American Association for the Advancement of Science, 2017. <a href=\"https://doi.org/10.1126/science.aao3526\">https://doi.org/10.1126/science.aao3526</a>."},"abstract":[{"lang":"eng","text":"Small RNAs (sRNAs) regulate genes in plants and animals. Here, we show that population-wide differences in color patterns in snapdragon flowers are caused by an inverted duplication that generates sRNAs. The complexity and size of the transcripts indicate that the duplication represents an intermediate on the pathway to microRNA evolution. The sRNAs repress a pigment biosynthesis gene, creating a yellow highlight at the site of pollinator entry. The inverted duplication exhibits steep clines in allele frequency in a natural hybrid zone, showing that the allele is under selection. Thus, regulatory interactions of evolutionarily recent sRNAs can be acted upon by selection and contribute to the evolution of phenotypic diversity."}],"scopus_import":"1","oa_version":"None","publisher":"American Association for the Advancement of Science","external_id":{"isi":["000415293000047"]},"date_updated":"2025-09-11T07:34:49Z","quality_controlled":"1","month":"11","volume":358,"publist_id":"7193","title":"Evolution of flower color pattern through selection on regulatory small RNAs","date_published":"2017-11-17T00:00:00Z","article_processing_charge":"No","isi":1,"day":"17","publication":"Science","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","_id":"611","issue":"6365","department":[{"_id":"NiBa"}],"page":"925 - 928","language":[{"iso":"eng"}],"author":[{"full_name":"Bradley, Desmond","first_name":"Desmond","last_name":"Bradley"},{"full_name":"Xu, Ping","first_name":"Ping","last_name":"Xu"},{"first_name":"Irina","last_name":"Mohorianu","full_name":"Mohorianu, Irina"},{"last_name":"Whibley","first_name":"Annabel","full_name":"Whibley, Annabel"},{"full_name":"Field, David","id":"419049E2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4014-8478","first_name":"David","last_name":"Field"},{"first_name":"Hugo","last_name":"Tavares","full_name":"Tavares, Hugo"},{"last_name":"Couchman","first_name":"Matthew","full_name":"Couchman, Matthew"},{"full_name":"Copsey, Lucy","last_name":"Copsey","first_name":"Lucy"},{"first_name":"Rosemary","last_name":"Carpenter","full_name":"Carpenter, Rosemary"},{"full_name":"Li, Miaomiao","last_name":"Li","first_name":"Miaomiao"},{"last_name":"Li","first_name":"Qun","full_name":"Li, Qun"},{"first_name":"Yongbiao","last_name":"Xue","full_name":"Xue, Yongbiao"},{"first_name":"Tamas","last_name":"Dalmay","full_name":"Dalmay, Tamas"},{"first_name":"Enrico","last_name":"Coen","full_name":"Coen, Enrico"}],"publication_status":"published","doi":"10.1126/science.aao3526","intvolume":"       358","year":"2017","date_created":"2018-12-11T11:47:29Z"},{"related_material":{"record":[{"status":"public","id":"7163","relation":"popular_science"}]},"status":"public","publication_identifier":{"issn":["2041-1723"]},"type":"journal_article","oa_version":"Published Version","citation":{"ama":"Fraisse C, Picard MAL, Vicoso B. The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W. <i>Nature Communications</i>. 2017;8(1). doi:<a href=\"https://doi.org/10.1038/s41467-017-01663-5\">10.1038/s41467-017-01663-5</a>","ieee":"C. Fraisse, M. A. L. Picard, and B. Vicoso, “The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W,” <i>Nature Communications</i>, vol. 8, no. 1. Nature Publishing Group, 2017.","mla":"Fraisse, Christelle, et al. “The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.” <i>Nature Communications</i>, vol. 8, no. 1, 1486, Nature Publishing Group, 2017, doi:<a href=\"https://doi.org/10.1038/s41467-017-01663-5\">10.1038/s41467-017-01663-5</a>.","short":"C. Fraisse, M.A.L. Picard, B. Vicoso, Nature Communications 8 (2017).","ista":"Fraisse C, Picard MAL, Vicoso B. 2017. The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W. Nature Communications. 8(1), 1486.","apa":"Fraisse, C., Picard, M. A. L., &#38; Vicoso, B. (2017). The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41467-017-01663-5\">https://doi.org/10.1038/s41467-017-01663-5</a>","chicago":"Fraisse, Christelle, Marion A L Picard, and Beatriz Vicoso. “The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.” <i>Nature Communications</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/s41467-017-01663-5\">https://doi.org/10.1038/s41467-017-01663-5</a>."},"scopus_import":"1","article_number":"1486","abstract":[{"lang":"eng","text":"Moths and butterflies (Lepidoptera) usually have a pair of differentiated WZ sex chromosomes. However, in most lineages outside of the division Ditrysia, as well as in the sister order Trichoptera, females lack a W chromosome. The W is therefore thought to have been acquired secondarily. Here we compare the genomes of three Lepidoptera species (one Dytrisia and two non-Dytrisia) to test three models accounting for the origin of the W: (1) a Z-autosome fusion; (2) a sex chromosome turnover; and (3) a non-canonical mechanism (e.g., through the recruitment of a B chromosome). We show that the gene content of the Z is highly conserved across Lepidoptera (rejecting a sex chromosome turnover) and that very few genes moved onto the Z in the common ancestor of the Ditrysia (arguing against a Z-autosome fusion). Our comparative genomics analysis therefore supports the secondary acquisition of the Lepidoptera W by a non-canonical mechanism, and it confirms the extreme stability of well-differentiated sex chromosomes."}],"publisher":"Nature Publishing Group","quality_controlled":"1","date_updated":"2025-09-11T07:33:34Z","external_id":{"pmid":["29133797"],"isi":["000415124000013"]},"month":"12","publist_id":"7190","volume":8,"isi":1,"article_processing_charge":"No","date_published":"2017-12-01T00:00:00Z","title":"The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W","day":"01","publication":"Nature Communications","corr_author":"1","pmid":1,"issue":"1","department":[{"_id":"BeVi"},{"_id":"NiBa"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","_id":"614","has_accepted_license":"1","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"author":[{"first_name":"Christelle","last_name":"Fraisse","orcid":"0000-0001-8441-5075","id":"32DF5794-F248-11E8-B48F-1D18A9856A87","full_name":"Fraisse, Christelle"},{"orcid":"0000-0002-8101-2518","last_name":"Picard","first_name":"Marion A","full_name":"Picard, Marion A","id":"2C921A7A-F248-11E8-B48F-1D18A9856A87"},{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz","first_name":"Beatriz","last_name":"Vicoso","orcid":"0000-0002-4579-8306"}],"language":[{"iso":"eng"}],"ddc":["570","576"],"pubrep_id":"910","file_date_updated":"2020-07-14T12:47:20Z","intvolume":"         8","project":[{"grant_number":"P28842-B22","_id":"250ED89C-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Sex chromosome evolution under male- and female- heterogamety"}],"doi":"10.1038/s41467-017-01663-5","file":[{"file_size":1201520,"content_type":"application/pdf","relation":"main_file","date_updated":"2020-07-14T12:47:20Z","creator":"dernst","checksum":"4da2651303c8afc2f7fc419be42a2433","file_name":"2017_NatureComm_Fraisse.pdf","access_level":"open_access","date_created":"2020-03-03T15:55:50Z","file_id":"7562"}],"oa":1,"publication_status":"published","year":"2017","article_type":"original","date_created":"2018-12-11T11:47:30Z"},{"status":"public","type":"journal_article","publication_identifier":{"issn":["0040-5809"]},"abstract":[{"lang":"eng","text":"Our focus here is on the infinitesimal model. In this model, one or several quantitative traits are described as the sum of a genetic and a non-genetic component, the first being distributed within families as a normal random variable centred at the average of the parental genetic components, and with a variance independent of the parental traits. Thus, the variance that segregates within families is not perturbed by selection, and can be predicted from the variance components. This does not necessarily imply that the trait distribution across the whole population should be Gaussian, and indeed selection or population structure may have a substantial effect on the overall trait distribution. One of our main aims is to identify some general conditions on the allelic effects for the infinitesimal model to be accurate. We first review the long history of the infinitesimal model in quantitative genetics. Then we formulate the model at the phenotypic level in terms of individual trait values and relationships between individuals, but including different evolutionary processes: genetic drift, recombination, selection, mutation, population structure, …. We give a range of examples of its application to evolutionary questions related to stabilising selection, assortative mating, effective population size and response to selection, habitat preference and speciation. We provide a mathematical justification of the model as the limit as the number M of underlying loci tends to infinity of a model with Mendelian inheritance, mutation and environmental noise, when the genetic component of the trait is purely additive. We also show how the model generalises to include epistatic effects. We prove in particular that, within each family, the genetic components of the individual trait values in the current generation are indeed normally distributed with a variance independent of ancestral traits, up to an error of order 1∕M. Simulations suggest that in some cases the convergence may be as fast as 1∕M."}],"scopus_import":"1","citation":{"apa":"Barton, N. H., Etheridge, A., &#38; Véber, A. (2017). The infinitesimal model: Definition derivation and implications. <i>Theoretical Population Biology</i>. Academic Press. <a href=\"https://doi.org/10.1016/j.tpb.2017.06.001\">https://doi.org/10.1016/j.tpb.2017.06.001</a>","chicago":"Barton, Nicholas H, Alison Etheridge, and Amandine Véber. “The Infinitesimal Model: Definition Derivation and Implications.” <i>Theoretical Population Biology</i>. Academic Press, 2017. <a href=\"https://doi.org/10.1016/j.tpb.2017.06.001\">https://doi.org/10.1016/j.tpb.2017.06.001</a>.","mla":"Barton, Nicholas H., et al. “The Infinitesimal Model: Definition Derivation and Implications.” <i>Theoretical Population Biology</i>, vol. 118, Academic Press, 2017, pp. 50–73, doi:<a href=\"https://doi.org/10.1016/j.tpb.2017.06.001\">10.1016/j.tpb.2017.06.001</a>.","short":"N.H. Barton, A. Etheridge, A. Véber, Theoretical Population Biology 118 (2017) 50–73.","ista":"Barton NH, Etheridge A, Véber A. 2017. The infinitesimal model: Definition derivation and implications. Theoretical Population Biology. 118, 50–73.","ieee":"N. H. Barton, A. Etheridge, and A. Véber, “The infinitesimal model: Definition derivation and implications,” <i>Theoretical Population Biology</i>, vol. 118. Academic Press, pp. 50–73, 2017.","ama":"Barton NH, Etheridge A, Véber A. The infinitesimal model: Definition derivation and implications. <i>Theoretical Population Biology</i>. 2017;118:50-73. doi:<a href=\"https://doi.org/10.1016/j.tpb.2017.06.001\">10.1016/j.tpb.2017.06.001</a>"},"oa_version":"Published Version","publisher":"Academic Press","date_updated":"2025-09-11T07:29:31Z","quality_controlled":"1","external_id":{"isi":["000417668700005"]},"month":"12","publist_id":"7169","volume":118,"date_published":"2017-12-01T00:00:00Z","article_processing_charge":"No","isi":1,"title":"The infinitesimal model: Definition derivation and implications","day":"01","publication":"Theoretical Population Biology","corr_author":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","_id":"626","ec_funded":1,"department":[{"_id":"NiBa"}],"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","page":"50 - 73","ddc":["576"],"language":[{"iso":"eng"}],"author":[{"last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H"},{"first_name":"Alison","last_name":"Etheridge","full_name":"Etheridge, Alison"},{"full_name":"Véber, Amandine","first_name":"Amandine","last_name":"Véber"}],"file_date_updated":"2020-07-14T12:47:25Z","pubrep_id":"908","intvolume":"       118","publication_status":"published","oa":1,"file":[{"content_type":"application/pdf","date_updated":"2020-07-14T12:47:25Z","relation":"main_file","file_size":1133924,"access_level":"open_access","file_name":"IST-2017-908-v1+1_1-s2.0-S0040580917300886-main_1_.pdf","checksum":"7dd02bfcfe8f244f4a6c19091aedf2c8","creator":"system","file_id":"4964","date_created":"2018-12-12T10:12:45Z"}],"doi":"10.1016/j.tpb.2017.06.001","project":[{"name":"Limits to selection in biology and in evolutionary computation","call_identifier":"FP7","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"year":"2017","date_created":"2018-12-11T11:47:34Z"},{"year":"2017","alternative_title":["ISTA Thesis"],"date_created":"2019-04-09T15:16:45Z","language":[{"iso":"eng"}],"ddc":["570"],"author":[{"id":"35F78294-F248-11E8-B48F-1D18A9856A87","full_name":"Payne, Pavel","first_name":"Pavel","last_name":"Payne","orcid":"0000-0002-2711-9453"}],"file_date_updated":"2021-02-22T13:45:59Z","degree_awarded":"PhD","publication_status":"published","oa":1,"file":[{"file_size":3025175,"relation":"main_file","date_updated":"2020-07-14T12:47:27Z","content_type":"application/pdf","date_created":"2019-04-09T15:15:32Z","file_id":"6292","checksum":"a0fc5c26a89c0ea759947ffba87d0d8f","creator":"dernst","file_name":"thesis_pavel_payne_final_w_signature_page.pdf","access_level":"closed"},{"file_size":3111536,"content_type":"application/pdf","date_updated":"2021-02-22T13:45:59Z","relation":"main_file","creator":"dernst","checksum":"af531e921a7f64a9e0af4cd8783b2226","file_name":"2017_Payne_Thesis.pdf","access_level":"open_access","date_created":"2021-02-22T13:45:59Z","success":1,"file_id":"9187"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","_id":"6291","department":[{"_id":"NiBa"},{"_id":"JoBo"}],"has_accepted_license":"1","supervisor":[{"id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","full_name":"Bollback, Jonathan P","last_name":"Bollback","first_name":"Jonathan P","orcid":"0000-0002-4624-4612"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240"}],"page":"83","day":"01","corr_author":"1","OA_place":"publisher","date_published":"2017-02-01T00:00:00Z","article_processing_charge":"No","title":"Bacterial herd and social immunity to phages","date_updated":"2026-04-08T14:16:28Z","month":"02","citation":{"apa":"Payne, P. (2017). <i>Bacterial herd and social immunity to phages</i>. Institute of Science and Technology Austria.","chicago":"Payne, Pavel. “Bacterial Herd and Social Immunity to Phages.” Institute of Science and Technology Austria, 2017.","mla":"Payne, Pavel. <i>Bacterial Herd and Social Immunity to Phages</i>. Institute of Science and Technology Austria, 2017.","short":"P. Payne, Bacterial Herd and Social Immunity to Phages, Institute of Science and Technology Austria, 2017.","ista":"Payne P. 2017. Bacterial herd and social immunity to phages. Institute of Science and Technology Austria.","ieee":"P. Payne, “Bacterial herd and social immunity to phages,” Institute of Science and Technology Austria, 2017.","ama":"Payne P. Bacterial herd and social immunity to phages. 2017."},"abstract":[{"text":"Bacteria and their pathogens – phages – are the most abundant living entities on Earth. Throughout their coevolution, bacteria have evolved multiple immune systems to overcome the ubiquitous threat from the phages. Although the molecu- lar details of these immune systems’ functions are relatively well understood, their epidemiological consequences for the phage-bacterial communities have been largely neglected. In this thesis we employed both experimental and theoretical methods to explore whether herd and social immunity may arise in bacterial popu- lations. Using our experimental system consisting of Escherichia coli strains with a CRISPR based immunity to the T7 phage we show that herd immunity arises in phage-bacterial communities and that it is accentuated when the populations are spatially structured. By fitting a mathematical model, we inferred expressions for the herd immunity threshold and the velocity of spread of a phage epidemic in partially resistant bacterial populations, which both depend on the bacterial growth rate, phage burst size and phage latent period. We also investigated the poten- tial for social immunity in Streptococcus thermophilus and its phage 2972 using a bioinformatic analysis of potentially coding short open reading frames with a signalling signature, encoded within the CRISPR associated genes. Subsequently, we tested one identified potentially signalling peptide and found that its addition to a phage-challenged culture increases probability of survival of bacteria two fold, although the results were only marginally significant. Together, these results demonstrate that the ubiquitous arms races between bacteria and phages have further consequences at the level of the population.","lang":"eng"}],"oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","status":"public","type":"dissertation","publication_identifier":{"issn":["2663-337X"]}},{"publication_status":"published","oa":1,"project":[{"name":"Limits to selection in biology and in evolutionary computation","call_identifier":"FP7","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"doi":"10.1111/evo.13191","intvolume":"        71","language":[{"iso":"eng"}],"author":[{"first_name":"Hildegard","last_name":"Uecker","orcid":"0000-0001-9435-2813","id":"2DB8F68A-F248-11E8-B48F-1D18A9856A87","full_name":"Uecker, Hildegard"}],"date_created":"2018-12-11T11:49:57Z","year":"2017","publication":"Evolution","day":"01","page":"845 - 858","_id":"1063","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ec_funded":1,"department":[{"_id":"NiBa"}],"issue":"4","month":"04","external_id":{"isi":["000398545200003"],"biorxivid":["10.1101/081042"]},"quality_controlled":"1","date_updated":"2026-06-22T14:05:53Z","title":"Evolutionary rescue in randomly mating, selfing, and clonal populations","article_processing_charge":"No","date_published":"2017-04-01T00:00:00Z","isi":1,"volume":71,"biorxivid":1,"publist_id":"6327","type":"journal_article","publication_identifier":{"issn":["0014-3820"]},"status":"public","publisher":"Wiley","main_file_link":[{"url":"https://doi.org/10.1101/081042","open_access":"1"}],"das_tickbox":"1","scopus_import":"1","abstract":[{"text":"Severe environmental change can drive a population extinct unless the population adapts in time to the new conditions (“evolutionary rescue”). How does biparental sexual reproduction influence the chances of population persistence compared to clonal reproduction or selfing? In this article, we set up a one‐locus two‐allele model for adaptation in diploid species, where rescue is contingent on the establishment of the mutant homozygote. Reproduction can occur by random mating, selfing, or clonally. Random mating generates and destroys the rescue mutant; selfing is efficient at generating it but at the same time depletes the heterozygote, which can lead to a low mutant frequency in the standing genetic variation. Due to these (and other) antagonistic effects, we find a nontrivial dependence of population survival on the rate of sex/selfing, which is strongly influenced by the dominance coefficient of the mutation before and after the environmental change. Importantly, since mating with the wild‐type breaks the mutant homozygote up, a slow decay of the wild‐type population size can impede rescue in randomly mating populations.","lang":"eng"}],"citation":{"ieee":"H. Uecker, “Evolutionary rescue in randomly mating, selfing, and clonal populations,” <i>Evolution</i>, vol. 71, no. 4. Wiley, pp. 845–858, 2017.","ama":"Uecker H. Evolutionary rescue in randomly mating, selfing, and clonal populations. <i>Evolution</i>. 2017;71(4):845-858. doi:<a href=\"https://doi.org/10.1111/evo.13191\">10.1111/evo.13191</a>","apa":"Uecker, H. (2017). Evolutionary rescue in randomly mating, selfing, and clonal populations. <i>Evolution</i>. Wiley. <a href=\"https://doi.org/10.1111/evo.13191\">https://doi.org/10.1111/evo.13191</a>","chicago":"Uecker, Hildegard. “Evolutionary Rescue in Randomly Mating, Selfing, and Clonal Populations.” <i>Evolution</i>. Wiley, 2017. <a href=\"https://doi.org/10.1111/evo.13191\">https://doi.org/10.1111/evo.13191</a>.","mla":"Uecker, Hildegard. “Evolutionary Rescue in Randomly Mating, Selfing, and Clonal Populations.” <i>Evolution</i>, vol. 71, no. 4, Wiley, 2017, pp. 845–58, doi:<a href=\"https://doi.org/10.1111/evo.13191\">10.1111/evo.13191</a>.","short":"H. Uecker, Evolution 71 (2017) 845–858.","ista":"Uecker H. 2017. Evolutionary rescue in randomly mating, selfing, and clonal populations. Evolution. 71(4), 845–858."},"oa_version":"Submitted Version"},{"year":"2017","date_created":"2018-12-11T11:50:00Z","language":[{"iso":"eng"}],"author":[{"orcid":"0000-0002-4884-9682","last_name":"Ringbauer","first_name":"Harald","full_name":"Ringbauer, Harald","id":"417FCFF4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Coop, Graham","first_name":"Graham","last_name":"Coop"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240"}],"intvolume":"       205","publication_status":"published","oa":1,"doi":"10.1534/genetics.116.196220","project":[{"name":"Limits to selection in biology and in evolutionary computation","call_identifier":"FP7","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"_id":"1074","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ec_funded":1,"issue":"3","department":[{"_id":"NiBa"}],"page":"1335 - 1351","day":"01","publication":"Genetics","publist_id":"6307","volume":205,"date_published":"2017-03-01T00:00:00Z","article_processing_charge":"No","isi":1,"title":"Inferring recent demography from isolation by distance of long shared sequence blocks","date_updated":"2026-04-08T14:06:35Z","quality_controlled":"1","external_id":{"isi":["000395807200023"]},"month":"03","scopus_import":"1","abstract":[{"text":"Recently it has become feasible to detect long blocks of nearly identical sequence shared between pairs of genomes. These IBD blocks are direct traces of recent coalescence events and, as such, contain ample signal to infer recent demography. Here, we examine sharing of such blocks in two-dimensional populations with local migration. Using a diffusion approximation to trace genetic ancestry, we derive analytical formulae for patterns of isolation by distance of IBD blocks, which can also incorporate recent population density changes. We introduce an inference scheme that uses a composite likelihood approach to fit these formulae. We then extensively evaluate our theory and inference method on a range of scenarios using simulated data. We first validate the diffusion approximation by showing that the theoretical results closely match the simulated block sharing patterns. We then demonstrate that our inference scheme can accurately and robustly infer dispersal rate and effective density, as well as bounds on recent dynamics of population density. To demonstrate an application, we use our estimation scheme to explore the fit of a diffusion model to Eastern European samples in the POPRES data set. We show that ancestry diffusing with a rate of σ ≈ 50–100 km/√gen during the last centuries, combined with accelerating population growth, can explain the observed exponential decay of block sharing with increasing pairwise sample distance.","lang":"eng"}],"citation":{"ieee":"H. Ringbauer, G. Coop, and N. H. Barton, “Inferring recent demography from isolation by distance of long shared sequence blocks,” <i>Genetics</i>, vol. 205, no. 3. Genetics Society of America, pp. 1335–1351, 2017.","ama":"Ringbauer H, Coop G, Barton NH. Inferring recent demography from isolation by distance of long shared sequence blocks. <i>Genetics</i>. 2017;205(3):1335-1351. doi:<a href=\"https://doi.org/10.1534/genetics.116.196220\">10.1534/genetics.116.196220</a>","chicago":"Ringbauer, Harald, Graham Coop, and Nicholas H Barton. “Inferring Recent Demography from Isolation by Distance of Long Shared Sequence Blocks.” <i>Genetics</i>. Genetics Society of America, 2017. <a href=\"https://doi.org/10.1534/genetics.116.196220\">https://doi.org/10.1534/genetics.116.196220</a>.","apa":"Ringbauer, H., Coop, G., &#38; Barton, N. H. (2017). Inferring recent demography from isolation by distance of long shared sequence blocks. <i>Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/genetics.116.196220\">https://doi.org/10.1534/genetics.116.196220</a>","short":"H. Ringbauer, G. Coop, N.H. Barton, Genetics 205 (2017) 1335–1351.","ista":"Ringbauer H, Coop G, Barton NH. 2017. Inferring recent demography from isolation by distance of long shared sequence blocks. Genetics. 205(3), 1335–1351.","mla":"Ringbauer, Harald, et al. “Inferring Recent Demography from Isolation by Distance of Long Shared Sequence Blocks.” <i>Genetics</i>, vol. 205, no. 3, Genetics Society of America, 2017, pp. 1335–51, doi:<a href=\"https://doi.org/10.1534/genetics.116.196220\">10.1534/genetics.116.196220</a>."},"oa_version":"Preprint","main_file_link":[{"url":"http://www.biorxiv.org/content/early/2016/09/23/076810","open_access":"1"}],"publisher":"Genetics Society of America","related_material":{"record":[{"id":"200","relation":"dissertation_contains","status":"public"}]},"status":"public","type":"journal_article","publication_identifier":{"issn":["0016-6731"]}},{"title":"Evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family","isi":1,"date_published":"2017-01-04T00:00:00Z","article_processing_charge":"Yes (in subscription journal)","volume":14,"publist_id":"6303","month":"01","external_id":{"isi":["000393380400001"]},"date_updated":"2025-07-10T11:49:59Z","quality_controlled":"1","publisher":"Royal Society of London","oa_version":"Published Version","abstract":[{"lang":"eng","text":"Viral capsids are structurally constrained by interactions among the amino acids (AAs) of their constituent proteins. Therefore, epistasis is expected to evolve among physically interacting sites and to influence the rates of substitution. To study the evolution of epistasis, we focused on the major structural protein of the fX174 phage family by first reconstructing the ancestral protein sequences of 18 species using a Bayesian statistical framework. The inferred ancestral reconstruction differed at eight AAs, for a total of 256 possible ancestral haplotypes. For each ancestral haplotype and the extant species, we estimated, in silico, the distribution of free energies and epistasis of the capsid structure. We found that free energy has not significantly increased but epistasis has. We decomposed epistasis up to fifth order and found that higher-order epistasis sometimes compensates pairwise interactions making the free energy seem additive. The dN/dS ratio is low, suggesting strong purifying selection, and that structure is under stabilizing selection. We synthesized phages carrying ancestral haplotypes of the coat protein gene and measured their fitness experimentally. Our findings indicate that stabilizing mutations can have higher fitness, and that fitness optima do not necessarily coincide with energy minima."}],"scopus_import":"1","citation":{"mla":"Fernandes Redondo, Rodrigo A., et al. “Evolutionary Interplay between Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.” <i>Journal of the Royal Society Interface</i>, vol. 14, no. 126, 20160139, Royal Society of London, 2017, doi:<a href=\"https://doi.org/10.1098/rsif.2016.0139\">10.1098/rsif.2016.0139</a>.","ista":"Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2017. Evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. Journal of the Royal Society Interface. 14(126), 20160139.","short":"R.A. Fernandes Redondo, H. de Vladar, T. Włodarski, J.P. Bollback, Journal of the Royal Society Interface 14 (2017).","apa":"Fernandes Redondo, R. A., de Vladar, H., Włodarski, T., &#38; Bollback, J. P. (2017). Evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. <i>Journal of the Royal Society Interface</i>. Royal Society of London. <a href=\"https://doi.org/10.1098/rsif.2016.0139\">https://doi.org/10.1098/rsif.2016.0139</a>","chicago":"Fernandes Redondo, Rodrigo A, Harold de Vladar, Tomasz Włodarski, and Jonathan P Bollback. “Evolutionary Interplay between Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.” <i>Journal of the Royal Society Interface</i>. Royal Society of London, 2017. <a href=\"https://doi.org/10.1098/rsif.2016.0139\">https://doi.org/10.1098/rsif.2016.0139</a>.","ama":"Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. Evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. <i>Journal of the Royal Society Interface</i>. 2017;14(126). doi:<a href=\"https://doi.org/10.1098/rsif.2016.0139\">10.1098/rsif.2016.0139</a>","ieee":"R. A. Fernandes Redondo, H. de Vladar, T. Włodarski, and J. P. Bollback, “Evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family,” <i>Journal of the Royal Society Interface</i>, vol. 14, no. 126. Royal Society of London, 2017."},"article_number":"20160139","publication_identifier":{"issn":["1742-5689"]},"type":"journal_article","status":"public","related_material":{"record":[{"status":"public","relation":"research_data","id":"9864"}]},"date_created":"2018-12-11T11:50:01Z","year":"2017","doi":"10.1098/rsif.2016.0139","project":[{"_id":"25B07788-B435-11E9-9278-68D0E5697425","grant_number":"250152","call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation"},{"call_identifier":"H2020","name":"Selective Barriers to Horizontal Gene Transfer","grant_number":"648440","_id":"2578D616-B435-11E9-9278-68D0E5697425"}],"file":[{"file_size":1092015,"relation":"main_file","date_updated":"2019-01-18T09:14:02Z","content_type":"application/pdf","date_created":"2019-01-18T09:14:02Z","file_id":"5843","success":1,"creator":"dernst","access_level":"open_access","file_name":"2017_JRSI_Redondo.pdf"}],"publication_status":"published","oa":1,"intvolume":"        14","file_date_updated":"2019-01-18T09:14:02Z","author":[{"full_name":"Fernandes Redondo, Rodrigo A","id":"409D5C96-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5837-2793","first_name":"Rodrigo A","last_name":"Fernandes Redondo"},{"orcid":"0000-0002-5985-7653","first_name":"Harold","last_name":"Vladar","full_name":"Vladar, Harold","id":"2A181218-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Włodarski, Tomasz","last_name":"Włodarski","first_name":"Tomasz"},{"full_name":"Bollback, Jonathan P","id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4624-4612","last_name":"Bollback","first_name":"Jonathan P"}],"ddc":["570"],"language":[{"iso":"eng"}],"has_accepted_license":"1","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ec_funded":1,"department":[{"_id":"NiBa"},{"_id":"JoBo"}],"issue":"126","_id":"1077","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Journal of the Royal Society Interface","day":"04"},{"status":"public","type":"journal_article","citation":{"mla":"Novak, Sebastian, and Nicholas H. Barton. “When Does Frequency-Independent Selection Maintain Genetic Variation?” <i>Genetics</i>, vol. 207, no. 2, Genetics Society of America, 2017, pp. 653–68, doi:<a href=\"https://doi.org/10.1534/genetics.117.300129\">10.1534/genetics.117.300129</a>.","short":"S. Novak, N.H. Barton, Genetics 207 (2017) 653–668.","ista":"Novak S, Barton NH. 2017. When does frequency-independent selection maintain genetic variation? Genetics. 207(2), 653–668.","apa":"Novak, S., &#38; Barton, N. H. (2017). When does frequency-independent selection maintain genetic variation? <i>Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/genetics.117.300129\">https://doi.org/10.1534/genetics.117.300129</a>","chicago":"Novak, Sebastian, and Nicholas H Barton. “When Does Frequency-Independent Selection Maintain Genetic Variation?” <i>Genetics</i>. Genetics Society of America, 2017. <a href=\"https://doi.org/10.1534/genetics.117.300129\">https://doi.org/10.1534/genetics.117.300129</a>.","ama":"Novak S, Barton NH. When does frequency-independent selection maintain genetic variation? <i>Genetics</i>. 2017;207(2):653-668. doi:<a href=\"https://doi.org/10.1534/genetics.117.300129\">10.1534/genetics.117.300129</a>","ieee":"S. Novak and N. H. Barton, “When does frequency-independent selection maintain genetic variation?,” <i>Genetics</i>, vol. 207, no. 2. Genetics Society of America, pp. 653–668, 2017."},"abstract":[{"text":"Frequency-independent selection is generally considered as a force that acts to reduce the genetic variation in evolving populations, yet rigorous arguments for this idea are scarce. When selection fluctuates in time, it is unclear whether frequency-independent selection may maintain genetic polymorphism without invoking additional mechanisms. We show that constant frequency-independent selection with arbitrary epistasis on a well-mixed haploid population eliminates genetic variation if we assume linkage equilibrium between alleles. To this end, we introduce the notion of frequency-independent selection at the level of alleles, which is sufficient to prove our claim and contains the notion of frequency-independent selection on haploids. When selection and recombination are weak but of the same order, there may be strong linkage disequilibrium; numerical calculations show that stable equilibria are highly unlikely. Using the example of a diallelic two-locus model, we then demonstrate that frequency-independent selection that fluctuates in time can maintain stable polymorphism if linkage disequilibrium changes its sign periodically. We put our findings in the context of results from the existing literature and point out those scenarios in which the possible role of frequency-independent selection in maintaining genetic variation remains unclear.\r\n","lang":"eng"}],"scopus_import":"1","oa_version":"Submitted Version","publisher":"Genetics Society of America","quality_controlled":"1","date_updated":"2025-04-15T08:22:21Z","external_id":{"isi":["000412232600019"]},"month":"10","publist_id":"6533","volume":207,"date_published":"2017-10-01T00:00:00Z","article_processing_charge":"No","isi":1,"title":"When does frequency-independent selection maintain genetic variation?","day":"01","publication":"Genetics","corr_author":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"910","ec_funded":1,"department":[{"_id":"NiBa"}],"issue":"2","has_accepted_license":"1","page":"653 - 668","ddc":["576"],"language":[{"iso":"eng"}],"author":[{"orcid":"0000-0002-2519-824X","last_name":"Novak","first_name":"Sebastian","full_name":"Novak, Sebastian","id":"461468AE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H"}],"file_date_updated":"2020-07-14T12:48:15Z","pubrep_id":"974","intvolume":"       207","oa":1,"publication_status":"published","file":[{"content_type":"application/pdf","relation":"main_file","date_updated":"2020-07-14T12:48:15Z","file_size":494268,"file_id":"5264","date_created":"2018-12-12T10:17:12Z","file_name":"IST-2018-974-v1+1_manuscript.pdf","access_level":"open_access","creator":"system","checksum":"f7c32dabf52e6d9e709d9203761e39fd"}],"doi":"10.1534/genetics.117.300129","project":[{"grant_number":"618091","_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation"}],"year":"2017","date_created":"2018-12-11T11:49:09Z"},{"month":"06","quality_controlled":"1","date_updated":"2025-07-10T12:01:49Z","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","external_id":{"pmid":["28411063"]},"date_published":"2017-06-01T00:00:00Z","article_processing_charge":"No","title":"Deploying dengue-suppressing Wolbachia: Robust models predict slow but effective spatial spread in Aedes aegypti","publist_id":"6463","volume":115,"status":"public","publication_identifier":{"issn":["0040-5809"]},"type":"journal_article","publisher":"Elsevier","oa_version":"Submitted Version","scopus_import":"1","citation":{"ieee":"M. Turelli and N. H. Barton, “Deploying dengue-suppressing Wolbachia: Robust models predict slow but effective spatial spread in Aedes aegypti,” <i>Theoretical Population Biology</i>, vol. 115. Elsevier, pp. 45–60, 2017.","ama":"Turelli M, Barton NH. Deploying dengue-suppressing Wolbachia: Robust models predict slow but effective spatial spread in Aedes aegypti. <i>Theoretical Population Biology</i>. 2017;115:45-60. doi:<a href=\"https://doi.org/10.1016/j.tpb.2017.03.003\">10.1016/j.tpb.2017.03.003</a>","chicago":"Turelli, Michael, and Nicholas H Barton. “Deploying Dengue-Suppressing Wolbachia: Robust Models Predict Slow but Effective Spatial Spread in Aedes Aegypti.” <i>Theoretical Population Biology</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.tpb.2017.03.003\">https://doi.org/10.1016/j.tpb.2017.03.003</a>.","apa":"Turelli, M., &#38; Barton, N. H. (2017). Deploying dengue-suppressing Wolbachia: Robust models predict slow but effective spatial spread in Aedes aegypti. <i>Theoretical Population Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tpb.2017.03.003\">https://doi.org/10.1016/j.tpb.2017.03.003</a>","ista":"Turelli M, Barton NH. 2017. Deploying dengue-suppressing Wolbachia: Robust models predict slow but effective spatial spread in Aedes aegypti. Theoretical Population Biology. 115, 45–60.","short":"M. Turelli, N.H. Barton, Theoretical Population Biology 115 (2017) 45–60.","mla":"Turelli, Michael, and Nicholas H. Barton. “Deploying Dengue-Suppressing Wolbachia: Robust Models Predict Slow but Effective Spatial Spread in Aedes Aegypti.” <i>Theoretical Population Biology</i>, vol. 115, Elsevier, 2017, pp. 45–60, doi:<a href=\"https://doi.org/10.1016/j.tpb.2017.03.003\">10.1016/j.tpb.2017.03.003</a>."},"abstract":[{"lang":"eng","text":"A novel strategy for controlling the spread of arboviral diseases such as dengue, Zika and chikungunya is to transform mosquito populations with virus-suppressing Wolbachia. In general, Wolbachia transinfected into mosquitoes induce fitness costs through lower viability or fecundity. These maternally inherited bacteria also produce a frequency-dependent advantage for infected females by inducing cytoplasmic incompatibility (CI), which kills the embryos produced by uninfected females mated to infected males. These competing effects, a frequency-dependent advantage and frequency-independent costs, produce bistable Wolbachia frequency dynamics. Above a threshold frequency, denoted pˆ, CI drives fitness-decreasing Wolbachia transinfections through local populations; but below pˆ, infection frequencies tend to decline to zero. If pˆ is not too high, CI also drives spatial spread once infections become established over sufficiently large areas. We illustrate how simple models provide testable predictions concerning the spatial and temporal dynamics of Wolbachia introductions, focusing on rate of spatial spread, the shape of spreading waves, and the conditions for initiating spread from local introductions. First, we consider the robustness of diffusion-based predictions to incorporating two important features of wMel-Aedes aegypti biology that may be inconsistent with the diffusion approximations, namely fast local dynamics induced by complete CI (i.e., all embryos produced from incompatible crosses die) and long-tailed, non-Gaussian dispersal. With complete CI, our numerical analyses show that long-tailed dispersal changes wave-width predictions only slightly; but it can significantly reduce wave speed relative to the diffusion prediction; it also allows smaller local introductions to initiate spatial spread. Second, we use approximations for pˆ and dispersal distances to predict the outcome of 2013 releases of wMel-infected Aedes aegypti in Cairns, Australia, Third, we describe new data from Ae. aegypti populations near Cairns, Australia that demonstrate long-distance dispersal and provide an approximate lower bound on pˆ for wMel in northeastern Australia. Finally, we apply our analyses to produce operational guidelines for efficient transformation of vector populations over large areas. We demonstrate that even very slow spatial spread, on the order of 10-20 m/month (as predicted), can produce area-wide population transformation within a few years following initial releases covering about 20-30% of the target area."}],"intvolume":"       115","doi":"10.1016/j.tpb.2017.03.003","file":[{"access_level":"open_access","file_name":"2017_TheoreticalPopulationBio_Turelli.pdf","checksum":"9aeff86fa7de69f7a15cf4fc60d57d01","creator":"dernst","file_id":"6327","date_created":"2019-04-17T06:39:45Z","content_type":"application/pdf","date_updated":"2020-07-14T12:48:16Z","relation":"main_file","file_size":2073856}],"oa":1,"publication_status":"published","author":[{"first_name":"Michael","last_name":"Turelli","full_name":"Turelli, Michael"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240"}],"ddc":["576"],"language":[{"iso":"eng"}],"pubrep_id":"972","file_date_updated":"2020-07-14T12:48:16Z","date_created":"2018-12-11T11:49:22Z","year":"2017","publication":"Theoretical Population Biology","day":"01","has_accepted_license":"1","tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"page":"45 - 60","pmid":1,"department":[{"_id":"NiBa"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"952"},{"intvolume":"       284","doi":"10.1098/rspb.2016.2864","publication_status":"published","oa":1,"author":[{"last_name":"Charlesworth","first_name":"Deborah","full_name":"Charlesworth, Deborah"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240"},{"last_name":"Charlesworth","first_name":"Brian","full_name":"Charlesworth, Brian"}],"language":[{"iso":"eng"}],"date_created":"2018-12-11T11:49:23Z","year":"2017","publication":"Proceedings of the Royal Society of London Series B Biological Sciences","day":"31","pmid":1,"department":[{"_id":"NiBa"}],"issue":"1855","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"953","month":"05","date_updated":"2023-09-22T10:01:48Z","quality_controlled":"1","external_id":{"isi":["000405148800021"],"pmid":["28566483"]},"isi":1,"article_processing_charge":"No","date_published":"2017-05-31T00:00:00Z","title":"The sources of adaptive evolution","publist_id":"6462","volume":284,"status":"public","type":"journal_article","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5454256/","open_access":"1"}],"publisher":"Royal Society, The","oa_version":"Submitted Version","scopus_import":"1","article_number":"20162864","abstract":[{"lang":"eng","text":"The role of natural selection in the evolution of adaptive phenotypes has undergone constant probing by evolutionary biologists, employing both theoretical and empirical approaches. As Darwin noted, natural selection can act together with other processes, including random changes in the frequencies of phenotypic differences that are not under strong selection, and changes in the environment, which may reflect evolutionary changes in the organisms themselves. As understanding of genetics developed after 1900, the new genetic discoveries were incorporated into evolutionary biology. The resulting general principles were summarized by Julian Huxley in his 1942 book Evolution: the modern synthesis. Here, we examine how recent advances in genetics, developmental biology and molecular biology, including epigenetics, relate to today's understanding of the evolution of adaptations. We illustrate how careful genetic studies have repeatedly shown that apparently puzzling results in a wide diversity of organisms involve processes that are consistent with neo-Darwinism. They do not support important roles in adaptation for processes such as directed mutation or the inheritance of acquired characters, and therefore no radical revision of our understanding of the mechanism of adaptive evolution is needed."}],"citation":{"ieee":"D. Charlesworth, N. H. Barton, and B. Charlesworth, “The sources of adaptive evolution,” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 284, no. 1855. Royal Society, The, 2017.","ama":"Charlesworth D, Barton NH, Charlesworth B. The sources of adaptive evolution. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. 2017;284(1855). doi:<a href=\"https://doi.org/10.1098/rspb.2016.2864\">10.1098/rspb.2016.2864</a>","chicago":"Charlesworth, Deborah, Nicholas H Barton, and Brian Charlesworth. “The Sources of Adaptive Evolution.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. Royal Society, The, 2017. <a href=\"https://doi.org/10.1098/rspb.2016.2864\">https://doi.org/10.1098/rspb.2016.2864</a>.","apa":"Charlesworth, D., Barton, N. H., &#38; Charlesworth, B. (2017). The sources of adaptive evolution. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. Royal Society, The. <a href=\"https://doi.org/10.1098/rspb.2016.2864\">https://doi.org/10.1098/rspb.2016.2864</a>","short":"D. Charlesworth, N.H. Barton, B. Charlesworth, Proceedings of the Royal Society of London Series B Biological Sciences 284 (2017).","ista":"Charlesworth D, Barton NH, Charlesworth B. 2017. The sources of adaptive evolution. Proceedings of the Royal Society of London Series B Biological Sciences. 284(1855), 20162864.","mla":"Charlesworth, Deborah, et al. “The Sources of Adaptive Evolution.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 284, no. 1855, 20162864, Royal Society, The, 2017, doi:<a href=\"https://doi.org/10.1098/rspb.2016.2864\">10.1098/rspb.2016.2864</a>."}},{"title":"On the mechanistic nature of epistasis in a canonical cis-regulatory element","isi":1,"article_processing_charge":"Yes","date_published":"2017-05-18T00:00:00Z","volume":6,"publist_id":"6460","month":"05","external_id":{"isi":["000404024800001"]},"quality_controlled":"1","date_updated":"2025-07-10T12:01:50Z","publisher":"eLife Sciences Publications","oa_version":"Published Version","abstract":[{"text":"Understanding the relation between genotype and phenotype remains a major challenge. The difficulty of predicting individual mutation effects, and particularly the interactions between them, has prevented the development of a comprehensive theory that links genotypic changes to their phenotypic effects. We show that a general thermodynamic framework for gene regulation, based on a biophysical understanding of protein-DNA binding, accurately predicts the sign of epistasis in a canonical cis-regulatory element consisting of overlapping RNA polymerase and repressor binding sites. Sign and magnitude of individual mutation effects are sufficient to predict the sign of epistasis and its environmental dependence. Thus, the thermodynamic model offers the correct null prediction for epistasis between mutations across DNA-binding sites. Our results indicate that a predictive theory for the effects of cis-regulatory mutations is possible from first principles, as long as the essential molecular mechanisms and the constraints these impose on a biological system are accounted for.","lang":"eng"}],"article_number":"e25192","scopus_import":"1","citation":{"short":"M. Lagator, T. Paixao, N.H. Barton, J.P. Bollback, C.C. Guet, ELife 6 (2017).","ista":"Lagator M, Paixao T, Barton NH, Bollback JP, Guet CC. 2017. On the mechanistic nature of epistasis in a canonical cis-regulatory element. eLife. 6, e25192.","mla":"Lagator, Mato, et al. “On the Mechanistic Nature of Epistasis in a Canonical Cis-Regulatory Element.” <i>ELife</i>, vol. 6, e25192, eLife Sciences Publications, 2017, doi:<a href=\"https://doi.org/10.7554/eLife.25192\">10.7554/eLife.25192</a>.","chicago":"Lagator, Mato, Tiago Paixao, Nicholas H Barton, Jonathan P Bollback, and Calin C Guet. “On the Mechanistic Nature of Epistasis in a Canonical Cis-Regulatory Element.” <i>ELife</i>. eLife Sciences Publications, 2017. <a href=\"https://doi.org/10.7554/eLife.25192\">https://doi.org/10.7554/eLife.25192</a>.","apa":"Lagator, M., Paixao, T., Barton, N. H., Bollback, J. P., &#38; Guet, C. C. (2017). On the mechanistic nature of epistasis in a canonical cis-regulatory element. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.25192\">https://doi.org/10.7554/eLife.25192</a>","ama":"Lagator M, Paixao T, Barton NH, Bollback JP, Guet CC. On the mechanistic nature of epistasis in a canonical cis-regulatory element. <i>eLife</i>. 2017;6. doi:<a href=\"https://doi.org/10.7554/eLife.25192\">10.7554/eLife.25192</a>","ieee":"M. Lagator, T. Paixao, N. H. Barton, J. P. Bollback, and C. C. Guet, “On the mechanistic nature of epistasis in a canonical cis-regulatory element,” <i>eLife</i>, vol. 6. eLife Sciences Publications, 2017."},"publication_identifier":{"issn":["2050-084X"]},"type":"journal_article","status":"public","date_created":"2018-12-11T11:49:23Z","year":"2017","file":[{"relation":"main_file","date_updated":"2020-07-14T12:48:16Z","content_type":"application/pdf","file_size":2441529,"file_id":"5306","date_created":"2018-12-12T10:17:49Z","file_name":"IST-2017-841-v1+1_elife-25192-v2.pdf","access_level":"open_access","checksum":"59cdd4400fb41280122d414fea971546","creator":"system"},{"file_id":"5307","date_created":"2018-12-12T10:17:50Z","file_name":"IST-2017-841-v1+2_elife-25192-figures-v2.pdf","access_level":"open_access","creator":"system","checksum":"b69024880558b858eb8c5d47a92b6377","relation":"main_file","content_type":"application/pdf","date_updated":"2020-07-14T12:48:16Z","file_size":3752660}],"doi":"10.7554/eLife.25192","project":[{"call_identifier":"FP7","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation","_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","grant_number":"618091"},{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"},{"call_identifier":"H2020","name":"Selective Barriers to Horizontal Gene Transfer","_id":"2578D616-B435-11E9-9278-68D0E5697425","grant_number":"648440"}],"oa":1,"publication_status":"published","intvolume":"         6","pubrep_id":"841","file_date_updated":"2020-07-14T12:48:16Z","author":[{"full_name":"Lagator, Mato","id":"345D25EC-F248-11E8-B48F-1D18A9856A87","first_name":"Mato","last_name":"Lagator"},{"last_name":"Paixao","first_name":"Tiago","orcid":"0000-0003-2361-3953","id":"2C5658E6-F248-11E8-B48F-1D18A9856A87","full_name":"Paixao, Tiago"},{"orcid":"0000-0002-8548-5240","last_name":"Barton","first_name":"Nicholas H","full_name":"Barton, Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Bollback, Jonathan P","id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4624-4612","last_name":"Bollback","first_name":"Jonathan P"},{"id":"47F8433E-F248-11E8-B48F-1D18A9856A87","full_name":"Guet, Calin C","last_name":"Guet","first_name":"Calin C","orcid":"0000-0001-6220-2052"}],"language":[{"iso":"eng"}],"ddc":["576"],"has_accepted_license":"1","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"department":[{"_id":"CaGu"},{"_id":"NiBa"},{"_id":"JoBo"}],"ec_funded":1,"_id":"954","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"eLife","day":"18"},{"month":"08","quality_controlled":"1","date_updated":"2026-04-08T13:54:24Z","external_id":{"isi":["000407198800005"]},"isi":1,"article_processing_charge":"Yes (in subscription journal)","date_published":"2017-08-09T00:00:00Z","title":"Evolution of new regulatory functions on biophysically realistic fitness landscapes","publist_id":"6459","volume":8,"status":"public","publication_identifier":{"issn":["2041-1723"]},"type":"journal_article","related_material":{"record":[{"status":"public","id":"6071","relation":"dissertation_contains"}]},"publisher":"Nature Publishing Group","oa_version":"Published Version","citation":{"ieee":"T. Friedlander, R. Prizak, N. H. Barton, and G. Tkačik, “Evolution of new regulatory functions on biophysically realistic fitness landscapes,” <i>Nature Communications</i>, vol. 8, no. 1. Nature Publishing Group, 2017.","ama":"Friedlander T, Prizak R, Barton NH, Tkačik G. Evolution of new regulatory functions on biophysically realistic fitness landscapes. <i>Nature Communications</i>. 2017;8(1). doi:<a href=\"https://doi.org/10.1038/s41467-017-00238-8\">10.1038/s41467-017-00238-8</a>","apa":"Friedlander, T., Prizak, R., Barton, N. H., &#38; Tkačik, G. (2017). Evolution of new regulatory functions on biophysically realistic fitness landscapes. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41467-017-00238-8\">https://doi.org/10.1038/s41467-017-00238-8</a>","chicago":"Friedlander, Tamar, Roshan Prizak, Nicholas H Barton, and Gašper Tkačik. “Evolution of New Regulatory Functions on Biophysically Realistic Fitness Landscapes.” <i>Nature Communications</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/s41467-017-00238-8\">https://doi.org/10.1038/s41467-017-00238-8</a>.","mla":"Friedlander, Tamar, et al. “Evolution of New Regulatory Functions on Biophysically Realistic Fitness Landscapes.” <i>Nature Communications</i>, vol. 8, no. 1, 216, Nature Publishing Group, 2017, doi:<a href=\"https://doi.org/10.1038/s41467-017-00238-8\">10.1038/s41467-017-00238-8</a>.","ista":"Friedlander T, Prizak R, Barton NH, Tkačik G. 2017. Evolution of new regulatory functions on biophysically realistic fitness landscapes. Nature Communications. 8(1), 216.","short":"T. Friedlander, R. Prizak, N.H. Barton, G. Tkačik, Nature Communications 8 (2017)."},"scopus_import":"1","abstract":[{"lang":"eng","text":"Gene expression is controlled by networks of regulatory proteins that interact specifically with external signals and DNA regulatory sequences. These interactions force the network components to co-evolve so as to continually maintain function. Yet, existing models of evolution mostly focus on isolated genetic elements. In contrast, we study the essential process by which regulatory networks grow: the duplication and subsequent specialization of network components. We synthesize a biophysical model of molecular interactions with the evolutionary framework to find the conditions and pathways by which new regulatory functions emerge. We show that specialization of new network components is usually slow, but can be drastically accelerated in the presence of regulatory crosstalk and mutations that promote promiscuous interactions between network components."}],"article_number":"216","intvolume":"         8","doi":"10.1038/s41467-017-00238-8","project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation"},{"_id":"254E9036-B435-11E9-9278-68D0E5697425","grant_number":"P28844-B27","call_identifier":"FWF","name":"Biophysics of information processing in gene regulation"}],"file":[{"relation":"main_file","date_updated":"2020-07-14T12:48:16Z","content_type":"application/pdf","file_size":998157,"file_name":"IST-2017-864-v1+1_s41467-017-00238-8.pdf","access_level":"open_access","checksum":"29a1b5db458048d3bd5c67e0e2a56818","creator":"system","file_id":"5064","date_created":"2018-12-12T10:14:14Z"},{"file_size":9715993,"relation":"main_file","content_type":"application/pdf","date_updated":"2020-07-14T12:48:16Z","date_created":"2018-12-12T10:14:15Z","file_id":"5065","checksum":"7b78401e52a576cf3e6bbf8d0abadc17","creator":"system","file_name":"IST-2017-864-v1+2_41467_2017_238_MOESM1_ESM.pdf","access_level":"open_access"}],"publication_status":"published","oa":1,"author":[{"first_name":"Tamar","last_name":"Friedlander","full_name":"Friedlander, Tamar","id":"36A5845C-F248-11E8-B48F-1D18A9856A87"},{"id":"4456104E-F248-11E8-B48F-1D18A9856A87","full_name":"Prizak, Roshan","last_name":"Prizak","first_name":"Roshan"},{"last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H"},{"full_name":"Tkacik, Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6699-1455","last_name":"Tkacik","first_name":"Gasper"}],"language":[{"iso":"eng"}],"ddc":["539","576"],"pubrep_id":"864","file_date_updated":"2020-07-14T12:48:16Z","date_created":"2018-12-11T11:49:23Z","year":"2017","publication":"Nature Communications","corr_author":"1","day":"09","has_accepted_license":"1","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"department":[{"_id":"GaTk"},{"_id":"NiBa"}],"issue":"1","ec_funded":1,"_id":"955","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"oa":1,"month":"12","doi":"10.17632/nw68fxzjpm.1","author":[{"full_name":"Etheridge, Alison","last_name":"Etheridge","first_name":"Alison"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240"}],"date_updated":"2025-04-15T07:11:04Z","article_processing_charge":"No","date_published":"2017-12-29T00:00:00Z","title":"Data for: Establishment in a new habitat by polygenic adaptation","date_created":"2021-08-09T13:18:55Z","year":"2017","status":"public","type":"research_data_reference","day":"29","related_material":{"record":[{"relation":"used_in_publication","id":"564","status":"public"}]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.17632/nw68fxzjpm.1"}],"publisher":"Mendeley Data","citation":{"ista":"Etheridge A, Barton NH. 2017. Data for: Establishment in a new habitat by polygenic adaptation, Mendeley Data, <a href=\"https://doi.org/10.17632/nw68fxzjpm.1\">10.17632/nw68fxzjpm.1</a>.","short":"A. Etheridge, N.H. Barton, (2017).","mla":"Etheridge, Alison, and Nicholas H. Barton. <i>Data for: Establishment in a New Habitat by Polygenic Adaptation</i>. Mendeley Data, 2017, doi:<a href=\"https://doi.org/10.17632/nw68fxzjpm.1\">10.17632/nw68fxzjpm.1</a>.","chicago":"Etheridge, Alison, and Nicholas H Barton. “Data for: Establishment in a New Habitat by Polygenic Adaptation.” Mendeley Data, 2017. <a href=\"https://doi.org/10.17632/nw68fxzjpm.1\">https://doi.org/10.17632/nw68fxzjpm.1</a>.","apa":"Etheridge, A., &#38; Barton, N. H. (2017). Data for: Establishment in a new habitat by polygenic adaptation. Mendeley Data. <a href=\"https://doi.org/10.17632/nw68fxzjpm.1\">https://doi.org/10.17632/nw68fxzjpm.1</a>","ama":"Etheridge A, Barton NH. Data for: Establishment in a new habitat by polygenic adaptation. 2017. doi:<a href=\"https://doi.org/10.17632/nw68fxzjpm.1\">10.17632/nw68fxzjpm.1</a>","ieee":"A. Etheridge and N. H. Barton, “Data for: Establishment in a new habitat by polygenic adaptation.” Mendeley Data, 2017."},"abstract":[{"text":"Mathematica notebooks used to generate figures.","lang":"eng"}],"oa_version":"Published Version","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","_id":"9842","department":[{"_id":"NiBa"}]},{"ddc":["576"],"date_updated":"2025-09-11T07:33:33Z","author":[{"first_name":"Christelle","last_name":"Fraisse","orcid":"0000-0001-8441-5075","id":"32DF5794-F248-11E8-B48F-1D18A9856A87","full_name":"Fraisse, Christelle"}],"file_date_updated":"2020-07-14T12:47:50Z","oa":1,"file":[{"date_created":"2019-12-10T08:46:46Z","file_id":"7164","checksum":"3cae8a2e3cbf8703399b9c483aaba7f3","creator":"cfraisse","file_name":"Vicoso_Cohridella_Ndegeerella_Tsylvina_genome_assemblies.zip","access_level":"open_access","file_size":841375478,"content_type":"application/zip","relation":"main_file","date_updated":"2020-07-14T12:47:50Z"}],"month":"12","doi":"10.15479/AT:ISTA:7163","project":[{"name":"Sex chromosome evolution under male- and female- heterogamety","call_identifier":"FWF","_id":"250ED89C-B435-11E9-9278-68D0E5697425","grant_number":"P28842-B22"}],"year":"2017","article_processing_charge":"No","date_published":"2017-12-01T00:00:00Z","title":"Supplementary Files for \"The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W\"","date_created":"2019-12-09T23:03:03Z","day":"01","related_material":{"record":[{"status":"public","id":"614","relation":"research_paper"}]},"contributor":[{"id":"32DF5794-F248-11E8-B48F-1D18A9856A87","last_name":"Fraisse","first_name":"Christelle","orcid":"0000-0001-8441-5075"},{"id":"2C921A7A-F248-11E8-B48F-1D18A9856A87","first_name":"Marion A L","last_name":"Picard","orcid":"0000-0002-8101-2518"},{"first_name":"Beatriz","last_name":"Vicoso","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"status":"public","type":"research_data","abstract":[{"lang":"eng","text":"The de novo genome assemblies generated for this study, and the associated metadata."}],"citation":{"apa":"Fraisse, C. (2017). Supplementary Files for “The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7163\">https://doi.org/10.15479/AT:ISTA:7163</a>","chicago":"Fraisse, Christelle. “Supplementary Files for ‘The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.’” Institute of Science and Technology Austria, 2017. <a href=\"https://doi.org/10.15479/AT:ISTA:7163\">https://doi.org/10.15479/AT:ISTA:7163</a>.","mla":"Fraisse, Christelle. <i>Supplementary Files for “The Deep Conservation of the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.”</i> Institute of Science and Technology Austria, 2017, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7163\">10.15479/AT:ISTA:7163</a>.","short":"C. Fraisse, (2017).","ista":"Fraisse C. 2017. Supplementary Files for ‘The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:7163\">10.15479/AT:ISTA:7163</a>.","ieee":"C. Fraisse, “Supplementary Files for ‘The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.’” Institute of Science and Technology Austria, 2017.","ama":"Fraisse C. Supplementary Files for “The deep conservation of the Lepidoptera Z chromosome suggests a non canonical origin of the W.” 2017. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7163\">10.15479/AT:ISTA:7163</a>"},"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"7163","department":[{"_id":"BeVi"},{"_id":"NiBa"}],"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","publisher":"Institute of Science and Technology Austria"}]