THE DISTRIBUTION OF GENETIC VARIANCE ACROSS PHENOTYPIC SPACE AND THE RESPONSE TO SELECTION
Mark W. Blows
School of Biological Sciences, University of Queensland, St Lucia, QLD, 4072 Australia
Search for more papers by this authorKatrina McGuigan
School of Biological Sciences, University of Queensland, St Lucia, QLD, 4072 Australia
Search for more papers by this authorMark W. Blows
School of Biological Sciences, University of Queensland, St Lucia, QLD, 4072 Australia
Search for more papers by this authorKatrina McGuigan
School of Biological Sciences, University of Queensland, St Lucia, QLD, 4072 Australia
Search for more papers by this authorSpencer C. H. Barrett
Department of Ecology and Evolutionary Biology, University of Toronto, 25 Willcocks Street, Toronto, ON, M5S 3B2 Canada
Search for more papers by this authorRobert I. Colautti
Department of Biology, Queen's University, Kingston, ON, K7L 3N6 Canada
Search for more papers by this authorKatrina M. Dlugosch
Department of Ecology and Evolutionary Biology, University of Arizona, PO Box 210088, Tucson, AZ, 85721 USA
Search for more papers by this authorLoren H. Rieseberg
Department of Botany, University of British Columbia, 1316–6270 University Blvd., Vancouver, BC, V6T 1Z4 Canada
Department of Biology, Indiana University, Bloomington, IN, 47405 USA
Search for more papers by this authorSummary
The role of adaptation in biological invasions will depend on the availability of genetic variation for traits under selection in the new environment. Although genetic variation is present for most traits in most populations, selection is expected to act on combinations of traits, not individual traits in isolation. The distribution of genetic variance across trait combinations can be characterized by the empirical spectral distribution of the genetic variance–covariance (G) matrix. Empirical spectral distributions of G from a range of trait types and taxa all exhibit a characteristic shape; some trait combinations have large levels of genetic variance, while others have very little genetic variance. In this study, we review what is known about the empirical spectral distribution of G and show how it predicts the response to selection across phenotypic space. In particular, trait combinations that form a nearly null genetic subspace with little genetic variance respond only inconsistently to selection. We go on to set out a framework for understanding how the empirical spectral distribution of G may differ from the random expectations that have been developed under random matrix theory (RMT). Using a data set containing a large number of gene expression traits, we illustrate how hypotheses concerning the distribution of multivariate genetic variance can be tested using RMT methods. We suggest that the relative alignment between novel selection pressures during invasion and the nearly null genetic subspace is likely to be an important component of the success or failure of invasion, and for the likelihood of rapid adaptation in small populations in general.
REFERENCES
- Agrawal AF, Stinchcombe JR (2009) How much do genetic covariances alter the rate of adaptation? Proceedings of the Royal Society B-Biological Sciences, 276, 1183–1191.
- Aguirre JD, Hine E, McGuigan K, Blows MW (2014) Comparing G: multivariate analysis of genetic variation in multiple populations. Heredity, 112, 21–29.
- Albert AYK, Sawaya S, Vines TH et al. (2008) The genetics of adaptive shape shift in stickleback: pleiotropy and effect size. Evolution, 62, 76–85.
- Allen SL, Bonduriansky R, Chenoweth SF (2013) The genomic distribution of sex-biased genes in Drosophila serrata: X-chromosome demasculinization, feminization, and hyperexpression in both sexes. Genome Biology and Evolution, 5, 1986–1994.
- Bai Z, Silverstein JW (2010) Spectral Analysis of Large Dimensional Random Matrices, 2nd edn. Springer, New York.
- Baquero F, Blazquez J (1997) Evolution of antibiotic resistance. Trends in Ecology & Evolution, 12, 482–487.
- Barrett RDH, Schluter D (2008) Adaptation from standing genetic variation. Trends in Ecology & Evolution, 23, 38–44.
- Beldade P, Koops K, Brakefield PM (2002) Developmental constraints versus flexibility in morphological evolution. Nature, 416, 844–847.
- Blossey B, Notzold R (1995) Evolution of increased competitive ability in invasive nonindigenous plants: a hypothesis. Journal of Ecology, 83, 887–889.
- Blows MW (2007) A tale of two matrices: multivariate approaches in evolutionary biology. Journal of Evolutionary Biology, 20, 1–8.
- Blows MW, Allan RA (1998) Levels of mate recognition within and between two Drosophila species and their hybrids. American Naturalist, 152, 826–837.
- Blows MW, Hoffmann AA (2005) A reassessment of genetic limits to evolutionary change. Ecology, 86, 1371–1384.
- Bohren BB, Hill WG, Robertson A (1966) Some observations on asymmetrical correlated responses to selection. Genetical Research, 7, 44–57.
- Chenoweth SF, Rundle HD, Blows MW (2010) The contribution of selection and genetic constraints to phenotypic divergence. American Naturalist, 175, 186–196.
- Chiani M (2014) Distribution of the largest eigenvalue for real Wishart and Gaussian random matrices and a simple approximation for the Tracy-Widom distribution. Journal of Multivariate Analysis, 129, 69–81.
- Chown SL, Sorensen JG, Terblanche JS (2011) Water loss in insects: an environmental change perspective. Journal of Insect Physiology, 57, 1070–1084.
- Colosimo PF, Hosemann KE, Balabhadra S et al. (2005) Widespread parallel evolution in sticklebacks by repeated fixation of ectodysplasin alleles. Science, 307, 1928–1933.
- Conner JK (2003) Artificial selection: a powerful tool for ecologists. Ecology, 84, 1650–1660.
- Dickerson GE (1955) Genetic slippage in response to selection for multiple objectives. Cold Spring Harbor Symposia on Quantitative Biology, 20, 213–224.
- Dlugosch KM, Parker IM (2008) Founding events in species invasions: genetic variation, adaptive evolution, and the role of multiple introductions. Molecular Ecology, 17, 431–449.
- Duputie A, Massol F, Chuine I, Kirkpatrick M, Ronce O (2012) How do genetic correlations affect species range shifts in a changing environment? Ecology Letters, 15, 251–259.
- Facon B, Pointier JP, Jarne P, Sarda V, David P (2008) High genetic variance in life-history strategies within invasive populations by way of multiple introductions. Current Biology, 18, 363–367.
- Falconer DS (1981) Introduction to Quantitative Genetics, 2nd edn. Longmans Green, London/New York.
- Feldheim ON, Sodin S (2010) A universality result for the smallest eigenvalues of certain sample covariance matrices. Geometric and Functional Analysis, 20, 88–123.
- Felker-Quinn E, Schweitzer JA, Bailey JK (2013) Meta-analysis reveals evolution in invasive plant species but little support for Evolution of Increased Competitive Ability (EICA). Ecology and Evolution, 3, 739–751.
- Ffrench-Constant RH, Daborn PJ, Le Goff G (2004) The genetics and genomics of insecticide resistance. Trends in Genetics, 20, 163–170.
- Foley BR, Telonis-Scott M (2011) Quantitative genetic analysis suggests causal association between cuticular hydrocarbon composition and desiccation survival in Drosophila melanogaster . Heredity, 106, 68–77.
-
Fristrup KM (2001) A history of character concepts in evolutionary biology. In: The Character Concept in Evolutionary Biology (ed. GP Wagner), pp. 13–35. Academic Press, San Diego, California, USA.
10.1016/B978-012730055-9/50010-0 Google Scholar
- Gibbs AG (1998) Water-proofing properties of cuticular lipids. American Zoologist, 38, 471–482.
- Gomulkiewicz R, Houle D (2009) Demographic and genetic constraints on evolution. American Naturalist, 174, E218–E229.
- Gomulkiewicz R, Holt RD, Barfield M, Nuismer SL (2010) Genetics, adaptation, and invasion in harsh environments. Evolutionary Applications, 3, 97–108.
- Hansen TF, Houle D (2008) Measuring and comparing evolvability and constraint in multivariate characters. Journal of Evolutionary Biology, 21, 1201–1219.
- Higgie M, Chenoweth S, Blows MW (2000) Natural selection and the reinforcement of mate recognition. Science, 290, 519–521.
- Hill WG, Thompson R (1978) Probabilities of non-positive definite between-group or genetic covariance matrices. Biometrics, 34, 429–439.
- Hill WG, Zhang XS (2012) On the pleiotropic structure of the genotype-phenotype map and the evolvability of complex organisms. Genetics, 190, 1131–1137.
- Hine E, Blows MW (2006) Determining the effective dimensionality of the genetic variance–covariance matrix. Genetics, 173, 1135–1144.
- Hine E, McGuigan K, Blows MW (2011) Natural selection stops the evolution of male attractiveness. Proceedings of the National Academy of Sciences of the United States of America, 108, 3659–3664.
- Hine E, McGuigan K, Blows MW (2014) Evolutionary constraints in high-dimensional trait sets. American Naturalist, 184, 119–131.
- Houle D (2010) Numbering the hairs on our heads: the shared challenge and promise of phenomics. Proceedings of the National Academy of Sciences of the United States of America, 107, 1793–1799.
- Houle D, Fierst J (2013) Properties of spontaneous mutational variance and covariance for wing size and shape in Drosophila melanogaster . Evolution, 67, 1116–1130.
- Johnson T, Barton N (2005) Theoretical models of selection and mutation on quantitative traits. Philosophical Transactions of the Royal Society B-Biological Sciences, 360, 1411–1425.
- Johnstone IM (2001) On the distribution of the largest eigenvalue in principal components analysis. Annals of Statistics, 29, 295–327.
- Johnstone IM (2007) High dimensional statistical inference and random matrices. Proceedings of the International Congress of Mathematics, 00, 307–333.
- Johnstone IM (2009) Approximate null distribution of the largest root in multivariate analysis. Annals of Applied Statistics, 3, 1616–1633.
- Kanuch P, Berggren A, Cassel-Lundhagen A (2014) Genetic diversity of a successful colonizer: isolated populations of Metrioptera roeselii regain variation at an unusually rapid rate. Ecology and Evolution, 4, 1117–1126.
- Kingsolver JG, Diamond SE, Siepielski AM, Carlson SM (2012) Synthetic analyses of phenotypic selection in natural populations: lessons, limitations and future directions. Evolutionary Ecology, 26, 1101–1118.
- Kirkpatrick M (2009) Patterns of quantitative genetic variation in multiple dimensions. Genetica, 136, 271–284.
- Kopp M, Matuszewski S (2014) Rapid evolution of quantitative traits: theoretical perspectives. Evolutionary Applications, 7, 169–191.
- Lande R (1979) Quantitative genetic analysis of multivariate evolution, applied to brain:body size allometry. Evolution, 33, 402–416.
- Lee CE (2002) Evolutionary genetics of invasive species. Trends in Ecology & Evolution, 17, 386–391.
- Lewontin RC (1978) Adaptation. Scientific American, 239, 157–169.
- Luo F, Zhong JX, Yang YF, Scheuermann RH, Zhou JZ (2006) Application of random matrix theory to biological networks. Physics Letters A, 357, 420–423.
- Luo F, Yang Y, Zhong J et al. (2007) Constructing gene co-expression networks and predicting functions of unknown genes by random matrix theory. BMC Bioinformatics, 8, 299.
- McGuigan K, Blows MW (2007) The phenotypic and genetic covariance structure of Drosophilid wings. Evolution, 61, 902–911.
- McGuigan K, Blows MW (2009) Asymmetry of genetic variation in fitness-related traits: apparent stabilizing selection on g max . Evolution, 63, 2838–2847.
- McGuigan K, Blows MW (2010) Evolvability of individual traits in a multivariate context: partitioning the additive genetic variance into common and specific components. Evolution, 64, 1899–1911.
- McGuigan K, Rowe L, Blows MW (2011) Pleiotropy, apparent stabilizing selection and uncovering fitness optima. Trends in Ecology & Evolution, 26, 22–29.
- McGuigan K, Collet JM, Allen SL, Chenoweth SF, Blows MW (2014a) Pleiotropic mutations are subject to strong stabilizing selection. Genetics, 197, 1051–1062.
- McGuigan K, Collet JM, McGraw EA et al. (2014b) The nature and extent of mutational pleiotropy in gene expression of male Drosophila serrata . Genetics, 196, 911–921.
- Meyer K (2007) Multivariate analyses of carcass traits for Angus cattle fitting reduced rank and factor analytic models. Journal of Animal Breeding and Genetics, 124, 50–64.
- Meyer K (2009) Factor-analytic models for genotype x environment type problems and structured covariance matrices. Genetics Selection Evolution, 41, 21.
- Meyer K, Kirkpatrick M (2008) Perils of parsimony: properties of reduced rank estimates of genetic covariance matrices. Genetics, 180, 1153–1166.
- Mezey JG, Houle D (2005) The dimensionality of genetic variation for wing shape in Drosophila melanogaster . Evolution, 59, 1027–1038.
- Morrissey MB, Kruuk LEB, Wilson AJ (2010) The danger of applying the breeder's equation in observational studies of natural populations. Journal of Evolutionary Biology, 23, 2277–2288.
- Morrissey MB, Parker DJ, Korsten P et al. (2012) The prediction of adaptive evolution: empirical applications of the secondary theorem of selection and comparison to the breeder's equation. Evolution, 66, 2399–2410.
- Orr HA, Unckless RL (2008) Population extinction and the genetics of adaptation. American Naturalist, 172, 160–169.
- Paaby AB, Rockman MV (2013) The many faces of pleiotropy. Trends in Genetics, 29, 66–73.
- Palmer AC, Kishony R (2013) Understanding, predicting and manipulating the genotypic evolution of antibiotic resistance. Nature Reviews Genetics, 14, 243–248.
- Patterson N, Price AL, Reich D (2006) Population structure and eigenanalysis. PLoS Genetics, 2, e190.
- Pavlicev M, Cheverud JM, Wagner GP (2009) Measuring morphological integration using eigenvalue variance. Evolutionary Biology, 36, 157–170.
- Pemberton JM (2010) Evolution of quantitative traits in the wild: mind the ecology. Philosophical Transactions of the Royal Society B-Biological Sciences, 365, 2431–2438.
- Pitchers W, Wolf J, Tregenza T, Hunt J, Dworkin I (2014a) Data from: Evolutionary rates for multivariate traits: the role of selection and genetic variation, Dryad Digital Repository, doi: 10.5061/dryad.g4t8c.
- Pitchers W, Wolf JB, Tregenza T, Hunt J, Dworkin I (2014b) Evolutionary rates for multivariate traits: the role of selection and genetic variation. Philosophical Transactions of the Royal Society B-Biological Sciences, 369, 20130252 doi: 10.1098/rstb.2013.0252.
- Rausher MD (1992) The measurement of selection on quantitative traits: biases due to environmental covariances between traits and fitness. Evolution, 46, 616–626.
- Rius M, Darling JA (2014) How important is intraspecific genetic admixture to the success of colonising populations? Trends in Ecology & Evolution, 29, 233–242.
- Roff DA (1996) The evolution of genetic correlations: an analysis of patterns. Evolution, 50, 1392–1403.
- Rollins LA, Moles AT, Lam S et al. (2013) High genetic diversity is not essential for successful introduction. Ecology and Evolution, 3, 4501–4517.
- Roman J, Darling JA (2007) Paradox lost: genetic diversity and the success of aquatic invasions. Trends in Ecology & Evolution, 22, 454–464.
- Saccenti E, Smilde AK, Westerhuis JA, Hendriks M (2011) Tracy-Widom statistic for the largest eigenvalue of autoscaled real matrices. Journal of Chemometrics, 25, 644–652.
- Schluter D (1996) Adaptive radiation along genetic lines of least resistance. Evolution, 50, 1766–1774.
- Scott M, Diwell K, McKenzie JA (2000) Dieldrin resistance in Lucilia cuprina (the Australian sheep blowfly): chance, selection and response. Heredity, 84, 599–604.
- Selz OM, Lucek K, Young KA, Seehausen O (2014) Relaxed trait covariance in interspecific cichlid hybrids predicts morphological diversity in adaptive radiations. Journal of Evolutionary Biology, 27, 11–24.
- Solovieff N, Cotsapas C, Lee PH, Purcell SM, Smoller JW (2013) Pleiotropy in complex traits: challenges and strategies. Nature Reviews Genetics, 14, 483–495.
- Stinchcombe JR, Rutter MT, Burdick DS et al. (2002) Testing for environmentally induced bias in phenotypic estimates of natural selection: theory and practice. American Naturalist, 160, 511–523.
- Tracy CA, Widom H (1996) On orthogonal and symplectic matrix ensembles. Communications in Mathematical Physics, 177, 727–754.
- Tracy CA, Widom H (2009) The distributions of random matrix theory and their applications. In: New trends in Mathe-matical Physics (ed. V Sidoravicius), pp. 753–765. Springer, the Netherlands.
- Turner KG, Hufbauer RA, Rieseberg LH (2014) Rapid evolution of an invasive weed. New Phytologist, 202, 309–321.
- Vandepitte K, De Meyer T, Helsen K et al. (2014) Rapid genetic adaptation precedes the spread of an exotic plant species. Molecular Ecology, 23, 2157–2164.
- Villmoare B (2013) Morphological integration, evolutionary constraints, and extinction: a computer simulation-based study. Evolutionary Biology, 40, 76–83.
- Wagner GP, Zhang JZ (2011) The pleiotropic structure of the genotype-phenotype map: the evolvability of complex organisms. Nature Reviews Genetics, 12, 204–213.
- Wagner GP, Kenney-Hunt JP, Pavlicev M et al. (2008) Pleiotropic scaling of gene effects and the ‘cost of complexity’. Nature, 452, 470–473.
- Walsh B, Blows MW (2009) Abundant genetic variation + strong selection = multivariate genetic constraints: a geometric view of adaptation. Annual Review of Ecology Evolution and Systematics, 40, 41–59.
- Wang Z, Liao BY, Zhang JZ (2010) Genomic patterns of pleiotropy and the evolution of complexity. Proceedings of the National Academy of Sciences of the United States of America, 107, 18034–18039.
- Weber KE (1992) How small are the smallest selectable domains of form. Genetics, 130, 345–353.
- Wigner EP (1955) Characteristic vectors of bordered matrices with infinite dimensions. Annals of Mathematics, 62, 548–564.
- Willi Y, Van Buskirk J, Hoffmann AA (2006) Limits to the adaptive potential of small populations. Annual Review of Ecology Evolution and Systematics, 37, 433–458.
- Yang JA, Benyamin B, McEvoy BP et al. (2010) Common SNPs explain a large proportion of the heritability for human height. Nature Genetics, 42, 565–569.