DOCSLIB.ORG

And Importance of Mating System Characteristics in Their Evolution

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
And Importance of Mating System Characteristics in Their Evolution Heredity 60 (1988) 91—100 The Genetica! Society of Great Britain Received 17 March 1987 Genetic structure of the European beech stands (Fagus sylvatica L.): F-statistics and importance of mating system characteristics in their evolution Joel Cuguen,* * Unitede Biologie des Populations et des Dominique Merzeaut and Peuplements, Centre Louis Emberger, CNRS, Route de Mende, BP 5051, 34033 Montpellier Cedex, Bernard Thiebaut*1 France. t Département de Physiologie des Végétaux Ligneux, Ecologie Génétique, Université de Bordeaux I, Av. des Facultés, 33045 Talence, France. Laboratoire de Systématique et d'Ecologie Méditerranéenne, Université des Sciences et Techniques du Languedoc, rue Auguste Broussonet, 34000 Montpellier, France. F-statistics are often used to study allozyme polymorphism in populations and the estimates provide a good basis to better understand selection and mating system effects. In this paper, computer simulation has been developed to determine the effects of the polymorphism level on F, estimates in finite samples. It is shown that finite samples present mostly negative F, estimates when allelic polymorphism is low. In these conditions, the high frequency of these apparent heterozygote excesses is not a consequence of frequency dependent selection acting on rare heterozygotes but only a statistical effect caused by the low probability of encountering rare homozygotes in the samples. The genetic structure of 250 European beech stands was studied using three electrophoretically detectable protein loci. F-statistics were estimated using the Weir and Cockerham method. The beech shows the highest interpopulation genetic differentiation estimates among the anemophilous pollinated forest trees. At the population level, an heterozygote deficit can be observed. Selfing estimates are not sufficiently high to explain these deficits. This suggests that limited gene flow exists in these populations and that forests of anemophilous pollinated trees are not panmictic and that these populations will be better understood using neighbourhood concepts. INTRODUCTION a function of the number of generations since their separation. Three parameters were proposed to Theknowledge of natural population genetic struc- describe the properties of hierarchically sub- ture contributes to a better understanding of the divided natural populations (Wright 1951, 1965). role selection and the mating system play in their These parameters were defined in terms of the total evolution. Since the theoretical works of Wright population (T), subdivisions (S) and individuals (1951,1965), Cockerham (1969, 1973), Kirby (I). (1975)and Nei (1977), genetic structures are often In a diploid individual, the two alleles of a analysed using F-statistics. gene may or may not be identical by descent Thedefinitions of these parameters are based (Malécot 1948). In a group of individuals, associ- on the following hypothesis: genetic drift is the ation between two identical alleles occurs with a main evolutionary force which acts on the evolu- given frequency. And this frequency varies from tion of the studied characters. Inter- and intragroup one group to another, according to the degree of genetic differentiation levels are a function of gene dependence between identical alleles in a group. flow intensity in and between groups, and are also Therefore, F,3 is the average over all subdivisions of the correlation between identical alleles that unite § Present address: Laboratoire de Genetique Ecologique et de Biologic des Populations Végétales, Université des Sciences et to produce the individuals, relative to the Techniques de LiUe, 59655 Villeneuve D'Ascq Cedex, France. gametes of their own subdivision, 92 J. CUGUEN, D. MERZEAU AND B. THIEBAUT F is the correlation between randomly empirically the various biases due to sampling and chosen identical gametes within subdivisions, the F1, estimation method. In order to do that, we relative to gametes of the total population, performed sampling simulations on theoretical "coancestry" in the sense of Cockerham (1969, populations, perfectly known, and estimated Fl, in 1973). each sample. F is the correlation between uniting iden- Furthermore, 250 beech stands have already tical gametes, relative to those of the total popu- been sampled in Europe in order to study the lation, "inbreeding" (Cockerham ibidem). alloenzymatic polymorphism of beech (Fagus syl- As pointed out by Wright, the list can be exten- vatica L.). So we dispose of an important number ded if there are further subdivisions. The above of observations in many different natural popula- three F-statistics are not independent and Wright tions. (1951) demonstrates that: Fl.variationswere examined in relation to (1 — = — — sample polymorphism, in theoretical and natural F)(1F)(1F') populations. Then the organisation of those vari- For example, when subdivisions are panmictic ations were compared between simulated and and isolated for a long time: F. =0in each group natural situations. So, in this paper, we will try to and F, is positive and increases with the number answer the following three questions: of generations. In this case, F =F',. (a) considering the simulation results, how are F1, However, when subdivisions are constituted of variations organised in relation to sample selfed individuals, the equilibrium values of F, polymorphism? F and F are one. (b) In European beechstands, does the organisa- The theoretical points of view of Wright and tion of F1, variations depend on the estimation Cockerham encounter difficulties in the study of method or do other mechanisms count, par- natural populations: firstly, without pedigrees it is ticularly mating system characteristics? not possible to recognise alleles identical by des- (c) In this case, what are the mating system cent. Secondly, these authors do not consider direct characteristics which are responsible for the selection effects which can strongly affects genetic observed differences between simulations and structures. natural populations: selfing and/or isolation In natural populations, identity between alleles by distance? is generally estimated according to the different allelic forms of a polymorphic gene. But the rela- tion between alleles identical by descent and alike MATERIALS AND METHODS in state ones is not simple. When two alleles are different, it is clear that they have no parental allele Simulations in common. But when they are alike, they can be We performed sampling simulations on theoretical identical by descent or only alike in state. The correctness of an estimate of identity in and populations using the Monte-Carlo method. between individuals may be increased by consider- ing many polymorphic loci. Creationof theoretical populations In a population and for a diallelic locus, the Intheoretical populations, the mating system fol- estimate of Fl, is often calculated according to the lows the mixed mating model. Populations are following formula: assumed to have reached the inbreeding equili- F,= 1 —H/2p(1 —p) brium and for a diallelic locus, the proportions of the various genotypes are a function of allelic where H is the observed heterozygote frequency frequencies and the fixation index: in the population and 2p(l —p) is the expected heterozygote frequency according to the Hardy- AA' =p'2+p'q'F, Weinberg law, calculated from allelic frequencies also estimated from the same sample. aa' =q'2+p'q'F, This estimation shows a great sampling vari- — Aa' =2p'q'(1F,) ance. Several authors have tried to estimate it (Ras- mussen, 1964; Brown eta!., 1975; Vasek and Hard- where AA' and aa' are respectively the homozygote ing, 1976). Based on different hypotheses, results frequencies for alleles A and a, Aa' the frequency differ and are therefore difficult to interpret. That of heterozygotes, p' and q' the frequencies of alleles is why we chose another method for analysing A and a, and F, the fixation index (=s/2—s, GENETIC DIFFERENTIATION IN BEECH 93 Haldane, 1924). Ten theoretical populations were where H1 is the observed heterozygote frequency created with the following allelic frequencies: in population i (i =1,2, .. , r), forlocus 1 (1 = p=O•5O, 045, 0•40, 0.35, 030, 025, 020, 0.15, 1,2 m) and for allele u (u =1,2,... , v); 0.10, 005. Two selfing rates were chosen: 0 per isthe estimated frequency of this allele and n,1 the cent for total panmixia and 13 per cent according sample size for locus 1 in population i. The average to the selfing estimates in the case of beech (Nielsen F, for a locus is a weighted average (Wright, 1965; and Schaffalitsky de Muckadell, 1954), which Kirby, 1975; Nei, 1977): means that 20 theoretical populations were created. u1 Pilji—p11jF11 — Samplingsimulation V p(i —p) Thesample size is 50, which corresponds to the u=1 average sample size for European beech stands. The genotype of each individual is randomly gen- Estimates of the three F-statistics were made for erated using the pseudo-random function of the the whole group of beech stands following the computer, from an infinite theoretical population. method of Weir and Cockerham (1984). One hundred samples of 50 individuals were con- In order to realise an estimation of the variance stituted from each theoretical population. of these estimates, a jacknife procedure was employed (Miller, 1974; Reynolds et a!., 1983; Weir and Cockerham, 1984). The estimates are beechstands European given thestandard error. Twohundred fifty beech stands were sampled in Europe out of the whole beech area in as different RESULTS as possible
Load more

Recommended publications
  • Pliocene Origin, Ice Ages and Postglacial Population Expansion Have Influenced a Panmictic Phylogeography of the European Bee-Eater Merops Apiaster
    diversity Article Pliocene Origin, Ice Ages and Postglacial Population Expansion Have Influenced a Panmictic Phylogeography of the European Bee-Eater Merops apiaster Carina Carneiro de Melo Moura 1,*, Hans-Valentin Bastian 2 , Anita Bastian 2, Erjia Wang 1, Xiaojuan Wang 1 and Michael Wink 1,* 1 Department of Biology, Institute of Pharmacy and Molecular Biotechnology, Heidelberg University, 69120 Heidelberg, Germany; [email protected] (E.W.); [email protected] (X.W.) 2 Bee-Eater Study Group of the DO-G, Geschwister-Scholl-Str. 15, 67304 Kerzenheim, Germany; [email protected] (H.V.B.); [email protected] (A.B.) * Correspondence: [email protected] (C.C.d.M.M.); [email protected] (M.W.) Received: 20 August 2018; Accepted: 26 December 2018; Published: 15 January 2019 Abstract: Oscillations of periods with low and high temperatures during the Quaternary in the northern hemisphere have influenced the genetic composition of birds of the Palearctic. During the last glaciation, ending about 12,000 years ago, a wide area of the northern Palearctic was under lasting ice and, consequently, breeding sites for most bird species were not available. At the same time, a high diversity of habitats was accessible in the subtropical and tropical zones providing breeding grounds and refugia for birds. As a result of long-term climatic oscillations, the migration systems of birds developed. When populations of birds concentrated in refugia during ice ages, genetic differentiation and gene flow between populations from distinct areas was favored. In the present study, we explored the current genetic status of populations of the migratory European bee-eater.
    [Show full text]
  • Panmixia of European Eel in the Sargasso Sea
    Molecular Ecology (2011) doi: 10.1111/j.1365-294X.2011.05011.x FROM THE COVER All roads lead to home: panmixia of European eel in the Sargasso Sea THOMAS D. ALS,*1 MICHAEL M. HANSEN,‡1 GREGORY E. MAES,§ MARTIN CASTONGUAY,– LASSE RIEMANN,**2 KIM AARESTRUP,* PETER MUNK,†† HENRIK SPARHOLT,§§ REINHOLD HANEL–– and LOUIS BERNATCHEZ*** *National Institute of Aquatic Resources, Technical University of Denmark, Vejlsøvej 39, DK-8600 Silkeborg, Denmark, ‡Department of Biological Sciences, Aarhus University, Ny Munkegade 114, DK-8000 Aarhus C, Denmark, §Laboratory of Animal Diversity and Systematics, Katholieke Universiteit Leuven, B-3000, Leuven, Belgium, –Institut Maurice-Lamontagne, Fisheries and Oceans Canada, PO Box 1000 Mont-Joli, QC G5H 3Z4, Canada, **Department of Natural Sciences, Linnaeus University, SE-39182 Kalmar, Sweden, ††National Institute of Aquatic Resources, Technical University of Denmark, DK-2920 Charlottenlund, Denmark, §§International Council for Exploration of the Sea, DK-1553 Copenhagen, Denmark, ––Institute of Fisheries Ecology, Johann Heinrich von Thu¨nen-Institut (vTI), Federal Research Institute for Rural Areas, Forestry and Fisheries, Palmaille 9, 22767 Hamburg, Germany, ***De´partement de Biologie, Institut de Biologie Inte´grative et des Syste`mes (IBIS), Pavillon Charles-Euge`ne-Marchand, 1030, Avenue de la Me´decine, Universite´ Laval, QC G1V 0A6, Canada Abstract European eels (Anguilla anguilla) spawn in the remote Sargasso Sea in partial sympatry with American eels (Anguilla rostrata), and juveniles are transported more than 5000 km back to the European and North African coasts. The two species have been regarded as classic textbook examples of panmixia, each comprising a single, randomly mating population. However, several recent studies based on continental samples have found subtle, but significant, genetic differentiation, interpreted as geographical or temporal heterogeneity between samples.
    [Show full text]
  • Testing Local-Scale Panmixia Provides Insights Into the Cryptic Ecology, Evolution, and Epidemiology of Metazoan Animal Parasites
    981 REVIEW ARTICLE Testing local-scale panmixia provides insights into the cryptic ecology, evolution, and epidemiology of metazoan animal parasites MARY J. GORTON†,EMILYL.KASL†, JILLIAN T. DETWILER† and CHARLES D. CRISCIONE* Department of Biology, Texas A&M University, 3258 TAMU, College Station, TX 77843, USA (Received 14 December 2011; revised 15 February 2012; accepted 16 February 2012; first published online 4 April 2012) SUMMARY When every individual has an equal chance of mating with other individuals, the population is classified as panmictic. Amongst metazoan parasites of animals, local-scale panmixia can be disrupted due to not only non-random mating, but also non-random transmission among individual hosts of a single host population or non-random transmission among sympatric host species. Population genetics theory and analyses can be used to test the null hypothesis of panmixia and thus, allow one to draw inferences about parasite population dynamics that are difficult to observe directly. We provide an outline that addresses 3 tiered questions when testing parasite panmixia on local scales: is there greater than 1 parasite population/ species, is there genetic subdivision amongst infrapopulations within a host population, and is there asexual reproduction or a non-random mating system? In this review, we highlight the evolutionary significance of non-panmixia on local scales and the genetic patterns that have been used to identify the different factors that may cause or explain deviations from panmixia on a local scale. We also discuss how tests of local-scale panmixia can provide a means to infer parasite population dynamics and epidemiology of medically relevant parasites.
    [Show full text]
  • Environmental Correlates of Genetic Variation in the Invasive and Largely Panmictic
    bioRxiv preprint doi: https://doi.org/10.1101/643858; this version posted August 13, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Hofmeister 1 1 Environmental correlates of genetic variation in the invasive and largely panmictic 2 European starling in North America 3 4 Running title: Starling genotype-environment associations 5 6 Natalie R. Hofmeister1,2*, Scott J. Werner3, and Irby J. Lovette1,2 7 8 1 Department of Ecology and Evolutionary Biology, Cornell University, 215 Tower Road, 9 Ithaca, NY 14853 10 2 Fuller Evolutionary Biology Program, Cornell Lab of Ornithology, Cornell University, 159 11 Sapsucker Woods Road, Ithaca, NY 14850 12 3 United States Department of Agriculture, Animal and Plant Health Inspection Service, 13 Wildlife Services, National Wildlife Research Center, 4101 LaPorte Avenue, Fort Collins, CO 14 80521 15 *corresponding author: [email protected] 16 17 ABSTRACT 18 Populations of invasive species that colonize and spread in novel environments may 19 differentiate both through demographic processes and local selection. European starlings 20 (Sturnus vulgaris) were introduced to New York in 1890 and subsequently spread 21 throughout North America, becoming one of the most widespread and numerous bird 22 species on the continent. Genome-wide comparisons across starling individuals and 23 populations can identify demographic and/or selective factors that facilitated this rapid bioRxiv preprint doi: https://doi.org/10.1101/643858; this version posted August 13, 2020.
    [Show full text]
  • What Is a Population? an Empirical Evaluation of Some Genetic Methods for Identifying the Number of Gene Pools and Their Degree of Connectivity
    University of Nebraska - Lincoln DigitalCommons@University of Nebraska - Lincoln Publications, Agencies and Staff of the U.S. Department of Commerce U.S. Department of Commerce 2006 What is a population? An empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity Robin Waples NOAA, [email protected] Oscar Gaggiotti Université Joseph Fourier, [email protected] Follow this and additional works at: https://digitalcommons.unl.edu/usdeptcommercepub Waples, Robin and Gaggiotti, Oscar, "What is a population? An empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity" (2006). Publications, Agencies and Staff of the U.S. Department of Commerce. 463. https://digitalcommons.unl.edu/usdeptcommercepub/463 This Article is brought to you for free and open access by the U.S. Department of Commerce at DigitalCommons@University of Nebraska - Lincoln. It has been accepted for inclusion in Publications, Agencies and Staff of the U.S. Department of Commerce by an authorized administrator of DigitalCommons@University of Nebraska - Lincoln. Molecular Ecology (2006) 15, 1419–1439 doi: 10.1111/j.1365-294X.2006.02890.x INVITEDBlackwell Publishing Ltd REVIEW What is a population? An empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity ROBIN S. WAPLES* and OSCAR GAGGIOTTI† *Northwest Fisheries Science Center, 2725 Montlake Blvd East, Seattle, WA 98112 USA, †Laboratoire d’Ecologie Alpine (LECA), Génomique des Populations et Biodiversité, Université Joseph Fourier, Grenoble, France Abstract We review commonly used population definitions under both the ecological paradigm (which emphasizes demographic cohesion) and the evolutionary paradigm (which emphasizes reproductive cohesion) and find that none are truly operational.
    [Show full text]
  • Strong Natural Selection on Juveniles Maintains a Narrow Adult Hybrid Zone in a Broadcast Spawner
    vol. 184, no. 6 the american naturalist december 2014 Strong Natural Selection on Juveniles Maintains a Narrow Adult Hybrid Zone in a Broadcast Spawner Carlos Prada* and Michael E. Hellberg Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803 Submitted April 28, 2014; Accepted July 8, 2014; Electronically published October 17, 2014 Online enhancement: appendix. Dryad data: http://dx.doi.org/10.5061/dryad.983b0. year, cumulative effects over many years before reproduc- abstract: Natural selection can maintain and help form species tion begins can generate a strong ecological filter against across different habitats, even when dispersal is high. Selection against inferior migrants (immigrant inviability) acts when locally adapted immigrants. Immigrant inviability can act across environ- populations suffer high mortality on dispersal to unsuitable habitats. mental gradients, generating clines or hybrid zones. If re- Habitat-specific populations undergoing divergent selection via im- productive isolation occurs as a by-product of immigrant migrant inviability should thus show (1) a change in the ratio of inviability, new species can arise by natural selection (Dar- adapted to nonadapted individuals among age/size classes and (2) a win 1859; Nosil et al. 2005; Rundle and Nosil 2005; Schlu- cline (defined by the environmental gradient) as selection counter- ter 2009), often occurring across environmental gradients, balances migration. Here we examine the frequencies of two depth- segregated lineages in juveniles and adults of a Caribbean octocoral, where they generate hybrid zones (Endler 1977). Eunicea flexuosa. Distributions of the two lineages in both shallow The segregation of adults of different species into dif- and deep environments were more distinct when inferred from adults ferent habitats is pronounced in many long-lived, sessile than juveniles.
    [Show full text]
  • Long‐Term Panmixia in a Cosmopolitan Indo‐Pacific Coral
    doi: 10.1111/jeb.12092 Long-term panmixia in a cosmopolitan Indo-Pacific coral reef fish and a nebulous genetic boundary with its broadly sympatric sister species J. B. HORNE*† &L.VAN Herwerden* *Molecular Ecology and Evolution Laboratory, School of Tropical and Marine Biology, James Cook University, Townsville, Qld, Australia †Centre of Marine Sciences, University of Algarve, Faro, Portugal Keywords: Abstract Acanthuridae; Phylogeographical studies have shown that some shallow-water marine dispersal; organisms, such as certain coral reef fishes, lack spatial population structure incomplete lineage sorting; at oceanic scales, despite vast distances of pelagic habitat between reefs and Indo-Pacific barrier; other dispersal barriers. However, whether these dispersive widespread taxa introgression; constitute long-term panmictic populations across their species ranges metapopulation; remains unknown. Conventional phylogeographical inferences frequently Naso. fail to distinguish between long-term panmixia and metapopulations con- nected by gene flow. Moreover, marine organisms have notoriously large effective population sizes that confound population structure detection. Therefore, at what spatial scale marine populations experience independent evolutionary trajectories and ultimately species divergence is still unclear. Here, we present a phylogeographical study of a cosmopolitan Indo-Pacific coral reef fish Naso hexacanthus and its sister species Naso caesius, using two mtDNA and two nDNA markers. The purpose of this study was two-fold: first, to test for broad-scale panmixia in N. hexacanthus by fitting the data to various phylogeographical models within a Bayesian statistical framework, and second, to explore patterns of genetic divergence between the two broadly sympatric species. We report that N. hexacanthus shows little popula- tion structure across the Indo-Pacific and a range-wide, long-term panmictic population model best fit the data.
    [Show full text]
  • Genetic Variation in Subdivided Populations and Conservation Genetics
    Heredity 57 (1986) 189—198 The Genetical Society of Great Britain Received 19 November 1985 Geneticvariation in subdivided populations and conservation genetics Sirkka-Liisa Varvio*, University of Texas Health Science Center at Ranajit Chakraborty and Masatoshi Nei Houston, Center for Demographic and Population Genetics, P.O. Box 20334, Houston, Texas 77225 The genetic differentiation of populations is usually studied by using the equilibrium theory of Wright's infinite island model. In practice, however, populations are not always in equilibrium, and the number of subpopulations is often very small. To get some insight into the dynamics of genetic differentiation of these populations, numerical computations are conducted about the expected gene diversities within and between subpopulations by using the finite island model. It is shown that the equilibrium values of gene diversities (H and H) and the coefficient of genetic differentiation (G) depend on the pattern of population subdivision as well as on migration and that the GST value is always smaller than that for the infinite island model. When the number of migrants per subpopulation per generation is greater than 1, the equilibrium values of H and HT are close to those for panmictic populations, as noted by previous authors. However, the values of H, HT, and GST in transient populations depend on the pattern of population subdivision, and it may take a long time for them to reach the 95 per cent range of the equilibrium values. The implications of the results obtained for the conservation of genetic variability in small populations are discussed. It is argued that any single principle should not be imposed as a general guideline for the management of small populations.
    [Show full text]
  • HIERFSTAT, a Package for R to Compute and Test Hierarchical F-Statistics
    Molecular Ecology Notes (2005) 5, 184–186 doi: 10.1111/j.1471-8278 .2004.00828.x PROGRAMBlackwell Publishing, Ltd. NOTE HIERFSTAT, a package for R to compute and test hierarchical F-statistics JÉRÔME GOUDET Department of Ecology and Evolution, BB, UNIL, CH-1015 Lausanne, Switzerland Abstract The package hierfstat for the statistical software r, created by the R Development Core Team, allows the estimate of hierarchical F-statistics from a hierarchy with any numbers of levels. In addition, it allows testing the statistical significance of population differentiation for these different levels, using a generalized likelihood-ratio test. The package hierfstat is available at http://www.unil.ch/popgen/softwares/hierfstat.htm. Keywords: Population structure, Randomisation tests, statistics Received 22 July 2004; revision accepted 23 September 2004 Population biologists have a long-standing interest in et al. 2000). More recently, Yang (1998) developed an algo- estimating population structure with the help of genetic rithm allowing the computation of the variance components markers. To this end, F-statistics (Wright 1951; Nei 1987; from a fully random hierarchical design with any number Weir 1996) are very commonly used and many computer of levels in the hierarchy. programs are available to estimate these quantities (see for The goal of this note is to announce hierfstat, a pack- instance an extensive list at http://www.bio.ulaval.ca/ age for the statistical software r (R Development Core louisbernatchez/links.htm#soft_pop_struct). F-statistics Team 2004) that implements Yang’s algorithm and com- are usually defined for a two-level hierarchy, where indi- putes moment estimators of hierarchical F-statistics from viduals (usually diploids) are located in subpopulations.
    [Show full text]
  • Natural Selection and Speciation
    Natural selection in action during speciation Sara Via1 Departments of Biology and Entomology, University of Maryland, College Park, MD 20742 The role of natural selection in speciation, first described by The Spyglass Darwin, has finally been widely accepted. Yet, the nature and time A course of the genetic changes that result in speciation remain mysterious. To date, genetic analyses of speciation have focused almost exclusively on retrospective analyses of reproductive iso- lation between species or subspecies and on hybrid sterility or Intrinsic barriers to Ancestral inviability rather than on ecologically based barriers to gene flow. gene flow evolve… Population Diverged “Good Species” However, if we are to fully understand the origin of species, we Populations must analyze the process from additional vantage points. By studying the genetic causes of partial reproductive isolation be- The Magnifying Glass tween specialized ecological races, early barriers to gene flow can B be identified before they become confounded with other species differences. This population-level approach can reveal patterns that become invisible over time, such as the mosaic nature of the genome early in speciation. Under divergent selection in sympatry, Ancestral Intrinsic barriers to the genomes of incipient species become temporary genetic mo- Population gene flow evolve… Diverged “Good Species” saics in which ecologically important genomic regions resist gene Populations exchange, even as gene flow continues over most of the genome. Analysis of such mosaic genomes suggests that surprisingly large Fig. 1. Two ways to study the process of speciation, which is visualized here genomic regions around divergently selected quantitative trait loci as a continuum of divergence from a variable population to a divergent pair of populations, and on through the evolution of intrinsic barriers to gene flow can be protected from interrace recombination by ‘‘divergence to the recognition of good species.
    [Show full text]
  • Simulating Natural Selection in Landscape Genetics
    Molecular Ecology Resources (2012) 12, 363–368 doi: 10.1111/j.1755-0998.2011.03075.x Simulating natural selection in landscape genetics E. L. LANDGUTH,* S. A. CUSHMAN† and N. A. JOHNSON‡ *Division of Biological Sciences, University of Montana, Missoula, MT 59812, USA, †Rocky Mountain Research Station, United States Forest Service, Flagstaff, AZ 86001, USA, USA, ‡Department of Plant, Soil, and Insect Sciences and Graduate Program in Organismic and Evolutionary Biology, University of Massachusetts, Amherst, MA 01003, USA Abstract Linking landscape effects to key evolutionary processes through individual organism movement and natural selection is essential to provide a foundation for evolutionary landscape genetics. Of particular importance is determining how spa- tially-explicit, individual-based models differ from classic population genetics and evolutionary ecology models based on ideal panmictic populations in an allopatric setting in their predictions of population structure and frequency of fixation of adaptive alleles. We explore initial applications of a spatially-explicit, individual-based evolutionary landscape genetics program that incorporates all factors – mutation, gene flow, genetic drift and selection – that affect the frequency of an allele in a population. We incorporate natural selection by imposing differential survival rates defined by local relative fitness values on a landscape. Selection coefficients thus can vary not only for genotypes, but also in space as functions of local environmental variability. This simulator enables coupling of gene flow (governed by resistance surfaces), with natural selection (governed by selection surfaces). We validate the individual-based simulations under Wright-Fisher assumptions. We show that under isolation-by-distance processes, there are deviations in the rate of change and equilibrium values of allele frequency.
    [Show full text]
  • Genomic Evidence of Rapid and Stable Adaptive Oscillations Over Seasonal Time Scales in Drosophila
    Title: Genomic evidence of rapid and stable adaptive oscillations over seasonal time scales in Drosophila Authors: Alan O. Bergland1*, Emily L. Behrman2, Katherine R. O’Brien2, Paul S. Schmidt2, Dmitri A. Petrov1 Affiliations: 1 Department of Biology, Stanford University, Stanford, CA 94305-5020 2 Department of Biology, University of Pennsylvania, Philadelphia, PA, 19104 * Correspondence to: [email protected] Running head: Seasonal adaptation in Drosophila Abstract: In many species, genomic data have revealed pervasive adaptive evolution indicated by the fixation of beneficial alleles. However, when selection pressures are highly variable along a species’ range or through time adaptive alleles may persist at intermediate frequencies for long periods. So called ‘balanced polymorphisms’ have long been understood to be an important component of standing genetic variation yet direct evidence of the strength of balancing selection and the stability and prevalence of balanced polymorphisms has remained elusive. We hypothesized that environmental fluctuations between seasons in a North American orchard would impose temporally variable selection on Drosophila melanogaster and consequently maintain allelic variation at polymorphisms adaptively evolving in response to climatic variation. We identified hundreds of polymorphisms whose frequency oscillates among seasons and argue that these loci are subject to strong, temporally variable selection. We show that these polymorphisms respond to acute and persistent changes in climate and are associated in predictable ways with seasonally variable phenotypes. In addition, we show that adaptively oscillating polymorphisms are likely millions of years old, with some likely predating the divergence between D. melanogaster and D. simulans. Taken together, our results demonstrate that rapid temporal fluctuations in climate over generational time promotes adaptive genetic diversity at loci affecting polygenic phenotypes.
    [Show full text]