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Is F ST obsolete?

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Abstract

Since the introduction of allozyme methods inthe mid 1960s it has been a standard practiceto report Wright's measure of populationsubdivision, F ST, for surveys ofgenetic variation. Its widespread use hasprovided us with a sense of what values can beexpected in particular situations and how theycan be interpreted. With some theoreticaljustification, F ST has also beenused to estimate rates of gene flow. Howeverthere are conditions under which F STis inappropriate for gene flow estimation andcan lead to incorrect or even absurdconclusions. These pitfalls have promptedcritics to suggest that F ST hasfailed to deliver what its proponents havepromised and should be abandoned. A furtherchallenge has been the development of newmethods that offer even greater promise. Thusit is reasonable to ask if perhaps it is timeto retire F ST and turn to new andmore powerful methods for the inference of geneflow from genetic markers. Here I will arguethat although gene flow should be estimated bymore powerful approaches whenever practical,F ST remains a useful measure of theaverage effects of gene flow and will continueto be used for comparative purposes.

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References

  • Avise JC (2000) Phylogeography: The History and Formation of Species. Harvard University Press, Cambridge MA.

    Google Scholar 

  • Avise JC, Arnold J et al. (1987) Intraspecific phylogeography: The mitochondrial DNA bridge between population genetics and systematics. Annual Review of Ecology and Systematics, 18, 489–522.

    Google Scholar 

  • Avise JC, Neigel JE, Arnold J (1984) Demographic influences on mitochondrial DNA lineage survivorship in animal populations. J. Mol. Evol., 20, 99–105.

    Google Scholar 

  • Ball RM, Neigel JE, Avise JC (1990) Gene genealogies within the organismal pedigrees of random mating populations. Evolution, 44, 360–370.

    Google Scholar 

  • Balloux F, Brunner H et al. (2000) Microsatellites can be misleading: An empirical and simulation study. Evolution, 54, 1414–1422.

    Google Scholar 

  • Barton NH, Halliday RB, Hewitt GM (1983) Rare electrophoretic variants in a hybrid zone. Heredity, 50, 139–146.

    Google Scholar 

  • Beerli P, Felsenstein J (1999) Maximum-likelihood estimation of migration rates and effective population nubmers in two populations using a coalescent approach. Genetics, 152, 763–773.

    Google Scholar 

  • Beerli P, Felsenstein J (2001) Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proceedings of the National Academy of Sciences, USA, 98, 4563–4568.

    Google Scholar 

  • Bohonak AJ (1999) Dispersal, gene flow, and population structure. Quarterly Review of Biology, 74, 21–45.

    Google Scholar 

  • Bohonak AJ, Davies N, Roderick GK, Villablanca FX (1998) Is population genetics mired in the past? Trends in Ecology and Evolution, 13, 360–360.

    Google Scholar 

  • Bossart JL, Prowell DP (1998) Genetic estimates of population structure and gene flow: limitations, lessons and new directions. Trends in Ecology and Evolution, 13, 202–206.

    Google Scholar 

  • Bossart JL, Scriber JM (1995) Maintenance of ecologically significant genetic variation in the tiger swallowtail butterfly through differential selection and gene flow. Evolution, 49, 1163–1171.

    Google Scholar 

  • Crow JF, Aoki K (1984) Group selection for a polygenic behavioral trait: Estimating the degree of population subdivision. PNAS USA, 81, 6073–6077.

    Google Scholar 

  • Davies N, Villablanca FX, Roderick GK (1999) Determining the source of individuals: Multilocus genotyping in nonequilibrium population genetics. Trends in Ecology and Evolution, 14, 17–21.

    Google Scholar 

  • Devlin B, Ellstrand NC (1990) The development and application of a refined method for estimating gene flow from angiosperm paternity analysis. Evolution, 44, 248.

    Google Scholar 

  • Edwards AWF (1992) Likelihood. The Johns Hopkins University Press, Baltimore.

    Google Scholar 

  • Excoffier L, Smouse PE, Quattro JM (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data. Genetics, 131, 479–491.

    Google Scholar 

  • Felsenstein J (1982) How can we infer geography and history from gene frequencies? J. Theor. Biol., 96, 9–20.

    Google Scholar 

  • Hedrick PW (1999) Perspective: Highly variable loci and their interpretation in evolution and conservation. Evolution, 53, 313–318.

    Google Scholar 

  • Leberg PL, Neigel JE (1999) Enhancing the retrievability of population genetic survey data? An assessment of animal mitochondrial DNA studies. Evolution, 53, 1961–1965.

    Google Scholar 

  • Lynch M, Crease TJ (1990) The analysis of population survey data on DNA sequence variation. Mol. Biol. Evol., 7, 377–394.

    Google Scholar 

  • Nei M (1973) Analysis of gene diversity in subdivided populations. Proc. Natl. Acad. Sci. USA, 70, 3321–3323.

    Google Scholar 

  • Neigel JE (1997) A comparison of alternative strategies for estimating gene flow from genetic markers. Annual Review of Ecology and Systematics, 28, 105–128.

    Google Scholar 

  • Nielsen R, Mountain JL, Huelsenbeck JP, Slatkin M (1998) Maximum-likelihood estimation of population divergence times and population phylogeny in models without mutation. Evolution, 52, 669–677.

    Google Scholar 

  • Nielsen R, Slatkin M (2000) Likelihood analysis of ongoing gene flow and historical association. Evolution 54, 44–50.

    Google Scholar 

  • O'Ryan CO, Harley EH et al. (1998) Microsatellite analysis of genetic diversity in fragmented South African buffalo populations. Animal Conservation, 1, 85–94.

    Google Scholar 

  • Richard M, Thorpe RS (2001) Can microsatellites be used to infer phylogenies? Evidence from Population Affinities of theWestern Canary Island Lizard (Gallotia galloti). Mol. Phylogenet. Evol., 20, 351–360.

    Google Scholar 

  • Slatkin M (1985) Gene flow in natural populations. Ann. Rev. Ecol. Syst., 16, 393–430.

    Google Scholar 

  • Slatkin M (1987) Gene flow and the geographic structure of natural populations. Science, 236, 787–792.

    Google Scholar 

  • Slatkin M (1991) Inbreeding coefficients and coalescence times. Genet. Res. Camb., 58, 167–175.

    Google Scholar 

  • Slatkin M (1993) Isolation by distance in equilibrium and nonequilibrium populations. Evolution, 47, 264–279.

    Google Scholar 

  • Slatkin M (1995) A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139, 457–462.

    Google Scholar 

  • Slatkin M, Barton NH (1989) A comparison of three indirect methods for estimating average levels of gene flow. Evolution, 43, 1349–1368.

    Google Scholar 

  • Slatkin M, Hudson RR (1991) Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics, 129, 555–562.

    Google Scholar 

  • Tavarae S (1984) Line-of-descent and genealogical processes, and their applications in population genetic models. Theor. Popul. Biol., 26, 119–164.

    Google Scholar 

  • Templeton AR (1998) Nested clade analyses of phylogeographic data: Testing hypotheses about gene flow and population history. Molecular Ecology, 7, 381–397.

    Google Scholar 

  • Waples RS (1998) Separating the wheat from the chaff: Patterns of genetic differentiation in high gene flow species. J. Heredity, 89, 438–450.

    Google Scholar 

  • Wehrhahn CF, Powell R (1987) Electrophoretic variation, regional differences, and gene flow in the coho salmon (Onchorhynchus kisutch) of southern British Columbia. Can. J. Fish. Aqaut. Sci., 44, 822–831.

    Google Scholar 

  • Weir BS, Cockerham CC (1984) Estimating F-Statistics for the analysis of population structure. Evolution, 38, 1358–1370.

    Google Scholar 

  • Whitlock MC, McCauley DE (1999) Indirect measures of gene flow and migration: F ST not equal 1/(4Nm + 1). Heredity, 82, 117–125.

    Google Scholar 

  • Wright S (1931) Evolution in Mendelian populations. Genetics, 16, 97–159.

    Google Scholar 

  • Wright S (1940) Breeding structure of populations in relation to speciation. Am. Nat., 74, 232–248.

    Google Scholar 

  • Wright S (1951) The genetical structure of populations. Ann. Eugen., 15, 323–353.

    Google Scholar 

  • Wright S (1965) The interpretation of population structure by Fstatistics with special regard to systems of mating. Evolution, 19, 395–420.

    Google Scholar 

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Neigel, J.E. Is F ST obsolete?. Conservation Genetics 3, 167–173 (2002). https://doi.org/10.1023/A:1015213626922

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