Abstract
Landscape geneticists can take considerable advantage of differences in the action of evolutionary forces (mutation, migration, selection, and drift) on different loci within the genome. Appropriate comparisons among loci allow researchers to isolate and study the effects of these processes. For example, the organelles are typically inherited maternally (but occasionally paternally), and so will experience migration only when females or seeds disperse (males or pollen in the paternally inherited organelles). Thus, the comparison with biparentally inherited loci allows inferences about the differential migration rates of male vs. female animals or of seeds vs. pollen in plants. Conversely, all biparentally inherited nuclear loci should experience the same levels of migration and drift. Thus, loci that show unusually large levels of variation across the landscape (as compared with the bulk of loci) may be reflecting the action of spatially varying natural selection (local adaptation). Such comparisons are conceptually straightforward, but are complicated by the high intrinsic variability of stochastic neutral processes. Careful statistical analysis is needed to avoid over-interpreting differences among loci. Inferences will be most robust when both genetic and non-genetic data can be integrated, and the collaboration of landscape ecologists with geneticists promises to be particularly fruitful.
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F.W. Allendorf L.W. Seeb (2000) ArticleTitleConcordance of genetic divergence among sockeye salmon populations at allozymenuclear DNA and mitochondrial DNA markers Evolution 54 640–651 Occurrence Handle10937239 Occurrence Handle1:CAS:528:DC%2BD3cXjsFGjsL8%3D Occurrence Handle10.1554/0014-3820(2000)054[0640:COGDAS]2.0.CO;2
F. Austerlitz C.W. Dick C. Dutech E.K. Klein S. Oddou-Muratorio P.E. Smouse V.L. Sork (2004) ArticleTitleUsing genetic markers to estimate the pollen dispersal curve Molecular Ecology 13 937–954 Occurrence Handle15012767 Occurrence Handle10.1111/j.1365-294X.2004.02100.x
M.A. Beaumont D.J. Balding (2004) ArticleTitleIdentifying adaptive genetic divergence among populations from genome scans Molecular Ecology 13 969–980 Occurrence Handle15012769 Occurrence Handle1:CAS:528:DC%2BD2cXjtFKnsLw%3D Occurrence Handle10.1111/j.1365-294X.2004.02125.x
M.A. Beaumont R.A. Nichols (1996) ArticleTitleEvaluating loci for use in the genetic analysis of population structure Proceedings of the Royal Society of London Series B 263 1619–1626
W.C. Black SuffixIV C.F. Baer M.F. Antolin N.M. DuTeau (2001) ArticleTitlePopulation genomics: Genome-wide sampling of insect populations Annual Review of Entomology 46 441–469 Occurrence Handle11112176 Occurrence Handle1:CAS:528:DC%2BD3MXitlSmt78%3D Occurrence Handle10.1146/annurev.ento.46.1.441
M.T. Conkle W.B. Critchfield (1988) Genetic variation and hybridization of ponderosa pine D.M. Baumgartner J.E. Lotan (Eds) Ponderosa Pine: the Species and its Management Washington State Univ. Press Pullman, Washington, USA 27–43
K.A. Crandall O.R.P. Bininda-Emonds G.M. Mace R.K. Wayne (2000) ArticleTitleConsidering evolutionary processes in conservation biology Trends in Ecology and Evolution 15 290–295 Occurrence Handle10856956 Occurrence Handle10.1016/S0169-5347(00)01876-0
S. Innocentis ParticleDe L. Sola S. Cataudella P. Bentzen (2001) ArticleTitleAllozyme and microsatellite loci provide discordant estimates of population differentiation in the endangered dusky grouper (Epinephelus marginatus) within the Mediterranean Sea Molecular Ecology 10 2163–2175 Occurrence Handle10.1046/j.1365-294X.2001.01371.x
H. Dhuyvetter E. Gaublomme K. Desender (2004) ArticleTitleGenetic differentiation and local adaptation in the salt-marsh beetle Pogonus chalceus: a comparison between allozyme and microsatellite loci Molecular Ecology 13 1065–1074 Occurrence Handle15078445 Occurrence Handle1:CAS:528:DC%2BD2cXktl2rs74%3D Occurrence Handle10.1111/j.1365-294X.2004.02134.x
J. Dong D.B. Wagner (1994) ArticleTitlePaternally inherited chloroplast polymorphism in Pinus: estimation of diversity and population subdivision and tests of disequilibrium with a maternally inherited mitochondrial polymorphism Genetics 136 1187–1194 Occurrence Handle8005423 Occurrence Handle1:STN:280:ByuB2svgtF0%3D
J.W. Drake B. Charlesworth D. Charlesworth J.F. Crow (1998) ArticleTitleRates of spontaneous mutation Genetics 148 1667–1686 Occurrence Handle9560386 Occurrence Handle1:CAS:528:DyaK1cXks1eiurg%3D
W. Eanes (1999) ArticleTitleAnalysis of selection on enzyme polymorphisms Annual Review of Ecology and Systematics 30 301–326 Occurrence Handle10.1146/annurev.ecolsys.30.1.301
R.A. Ennos (1994) ArticleTitleEstimating the relative rates of pollen and seed migration among plant populations Heredity 72 250–259
R.A. Ennos W.T. Sinclair X.-S. Hu A. Langdon (1999) Using organelle markers to elucidate the history, ecology and evolution of plant populations P.M. Hollingsworth R.M. Bateman R.J. Gornall (Eds) Molecular Systematics and Plant Evolution Taylor and Francis London UK 1–19
A. Estoup I.J. Wilson C. Sullivan J.M. Cornuet C. Moritz (2001) ArticleTitleInferring population history from microsatellite and enzyme data in serially introduced cane toads, Bufo marinus Genetics 159 1671–1687 Occurrence Handle11779806 Occurrence Handle1:CAS:528:DC%2BD38XntFKqsA%3D%3D
L. Excoffier J. Novembre S. Schneider (2000) ArticleTitleSIMCOAL: A general coalescent program for the simulation of molecular data in interconnected populations with arbitrary demography Journal of Heredity 91 506–510 Occurrence Handle11218093 Occurrence Handle1:CAS:528:DC%2BD3MXht1SrtLY%3D Occurrence Handle10.1093/jhered/91.6.506
D.S. Falconer T.F.C. MacKay (1996) Introduction to Quantitative Genetics Longman New York, New York, USA
J.L. Hamrick M.J. Godt S.L. Sherman-Broyles (1992) Factors influencing levels of genetic diversity in woody plant species W.T. Adams S.H. Strauss D.L. Copes A.R. Griffen (Eds) Population Genetics of Forest Trees Kluwer Boston, Massachusetts, USA 95–124
P.W. Hedrick (1999) ArticleTitleHighly variable loci and their interpretation in evolution and conservation Evolution 53 313–318 Occurrence Handle10.2307/2640768
R. Holderegger (2006) ArticleTitleThe meaning of genetic diversity Landscape Ecol. 21 797–807
Y.P. Hong V.D. Hipkins S.H. Strauss (1994) ArticleTitleChloroplast DNA diversity among trees, populations and species in the California closed cone pines (Pinus radiata, P.muricata and P. attenuata) Genetics 135 1187–1196
R.R. Hudson (1990) ArticleTitleGene genealogies and the coalescent process Oxford Reviews in Evolutionary Biology 7 1–44
J.P. Jaramillo-Correa J. Beaulieu J. Bousquet (2001) ArticleTitleContrasting evolutionary forces driving population structure at expressed sequence tag polymorphisms, allozymes and quantitative traits in white spruce Molecular Ecology 10 2729–2740 Occurrence Handle11883886 Occurrence Handle1:CAS:528:DC%2BD3MXpt12lsLo%3D Occurrence Handle10.1046/j.0962-1083.2001.01386.x
A.D. Johansen R.G. Latta (2003) ArticleTitleMitochondrial haplotype distribution, seed dispersal and patterns of post glacial expansion of ponderosa pine Molecular Ecology 12 293–298 Occurrence Handle12492897 Occurrence Handle1:CAS:528:DC%2BD3sXht1Sjurk%3D Occurrence Handle10.1046/j.1365-294X.2003.01723.x
S.A. Karl J.C. Avise (1992) ArticleTitleBalancing selection at allozyme loci in oysters: implications from nuclear RFLP's Science 256 100–102 Occurrence Handle1348870 Occurrence Handle1:CAS:528:DyaK38Xitlagsbg%3D
M.H. Kohn H.-J. Pelz R.K. Wayne (2000) ArticleTitleNatural selection mapping of the warfarin resistance gene Proceedings of the National Academy of Sciences USA 97 7911–7915 Occurrence Handle1:CAS:528:DC%2BD3cXkvFCnurs%3D Occurrence Handle10.1073/pnas.97.14.7911
M. Lascoux A.E. Palme R. Cheddadi R.G. Latta (2004) ArticleTitleImpact of the Ice Ages on the genetic structure of trees and shrubs Philosophical Transactions of the Royal Society 359 197–207 Occurrence Handle10.1098/rstb.2003.1390
R.G. Latta (2004) ArticleTitleGene flow and adaptive population divergence New Phytologist 151 63–68
R.G. Latta J.B. Mitton (1997) ArticleTitleA comparison of population structure across four classes of gene marker in limber pine Genetics 146 1153–1163 Occurrence Handle9215916 Occurrence Handle1:CAS:528:DyaK2sXmsVarurk%3D
R.G. Latta J.B. Mitton (1999) ArticleTitleHistorical separation and present gene flow through a zone of secondary contact in ponderosa pine Evolution 53 769–776 Occurrence Handle10.2307/2640717
R.G. Latta Y.B. Linhart D. Fleck M. Elliot (1998) ArticleTitleDirect and indirect estimates of seed versus pollen movement in ponderosa pine Evolution 52 61–67 Occurrence Handle10.2307/2410920
T. Normand ParticleLe D. Bourguet T. Guillemaud M. Raymond (1999) ArticleTitleTracking the evolution of insecticide resistance in the mosquito Culex pipiens Nature 400 861–864 Occurrence Handle10.1038/23685 Occurrence Handle1:CAS:528:DyaK1MXlslGlsL4%3D
R.C. Lewontin (1991) ArticleTitleTwenty-five years ago in Genetics. Electrophoresis in the development of evolutionary genetics: Milestone or millstone? Genetics 128 657–662 Occurrence Handle1916239 Occurrence Handle1:STN:280:By2D3cbhtlc%3D
R.C. Lewontin J. Krakauer (1973) ArticleTitleDistribution of gene frequency as a test of the theory of the selective neutrality of polymorphisms Genetics 74 175–195 Occurrence Handle4711903 Occurrence Handle1:STN:280:CSyB3c%2FivFc%3D
M. Lynch M. Pfrender K. Spitze N. Lehman J. Hicks D. Allen L. Latta M. Ottene F. Bogue J. Colbourn (1999) ArticleTitleThe quantitative and molecular genetic architecture of a subdivided species Evolution 53 100–110 Occurrence Handle10.2307/2640923
S. Manel M.K. Schwartz G. Luikhart P. Taberlet (2003) ArticleTitleLandscape genetics: combining landscape ecology and population genetics Trends in Ecology and Evolution 18 189–197 Occurrence Handle10.1016/S0169-5347(03)00008-9
D.E. McCauley (1994) ArticleTitleContrasting the distribution of chloroplast DNA and allozyme polymorphism among local populations of Silene alba: implications for studies of gene flow in plants Proceedings of the National Academy of Sciences USA 91 8127–8131 Occurrence Handle1:CAS:528:DyaK2cXlslGgtLw%3D Occurrence Handle10.1073/pnas.91.17.8127
D.E. McCauley J.E. Stevens P.A. Peroni J.A. Raveill (1996) ArticleTitleThe spatial distribution of chloroplast DNA and allozyme polymorphisms within a population of Silene alba (Caryophyllaceae) American Journal of Botany 83 727–731 Occurrence Handle1:CAS:528:DyaK28XksFSjsrs%3D Occurrence Handle10.2307/2445849
J.K. McKay R.G. Latta (2002) ArticleTitleAdaptive population divergence: Markers, QTL and traits Trends in Ecology and Evolution 17 285–291 Occurrence Handle10.1016/S0169-5347(02)02478-3
J. Merilä P. Crnokrak (2001) ArticleTitleComparison of genetic differentiation at marker loci and quantitative traits Journal of Evolutionary Biology 14 892–903 Occurrence Handle10.1046/j.1420-9101.2001.00348.x
B.G. Milligan (1991) ArticleTitleChloroplast DNA diversity within and among populations of Trifolium pratense Current Genetics 19 411–416 Occurrence Handle1:CAS:528:DyaK3MXks1ymsr8%3D Occurrence Handle10.1007/BF00309604
J.B. Mitton K.L. Duran (2004) ArticleTitleGenetic variation in piñon pinePinus edulisassociated with summer precipitation Molecular Ecology 13 1259–1264 Occurrence Handle15078461 Occurrence Handle1:CAS:528:DC%2BD2cXktl2rsbc%3D Occurrence Handle10.1111/j.1365-294X.2004.02122.x
J.B. Mitton B.R. Kreiser R.G. Latta (2000) ArticleTitleGlacial refugia of limber pine (Pinus flexilis James) inferred from the population structure of mitochondrial DNA Molecular Ecology 9 91–97 Occurrence Handle10652078 Occurrence Handle1:CAS:528:DC%2BD3cXhs1alt70%3D Occurrence Handle10.1046/j.1365-294x.2000.00840.x
J.E. Neigel (1997) ArticleTitleA comparison of alternative strategies for estimating gene flow from genetic markers Annual Review of Ecology and Systematics 28 105–128 Occurrence Handle10.1146/annurev.ecolsys.28.1.105
C.R. Niebling M.T. Conkle (1990) ArticleTitleDiversity of Washoe pine and comparisons with allozymes of ponderosa pine races Canadian Journal of Forest Research 20 298–308 Occurrence Handle10.1139/x90-044
M. Nordborg (2001) Coalescent theory D.J. Balding M. Bishop C. Cannings (Eds) Handbook of Statistical Genetics John Wiley New York, New York, USA 179–238
J.G. Oakshott J.B. Gibson P.R. Anderson W.R. Knibb D.G. Anderson G.K. Chambers (1982) ArticleTitleAlcohol dehydrogenase and glycerol-3-phosphate dehydrogenase clines in Drosopholia melanogaster on different continents Evolution 36 86–96 Occurrence Handle10.2307/2407970
S. Oddou-Muratorio R.J. Petit B. Le Guerroue D. Guesnet B. Demesure (2001) ArticleTitlePollen- versus seed-mediated gene flow in a scattered forest tree species Evolution 55 1123–1135 Occurrence Handle11475048 Occurrence Handle1:CAS:528:DC%2BD3MXlvVGrtbc%3D Occurrence Handle10.1554/0014-3820(2001)055[1123:PVSMGF]2.0.CO;2
J.R. Pannell M.E. Dorken (2006) ArticleTitleColonization as a common denominator in plant metapopulations: effects on genetic diversity and sexual systems Landsc. Ecol. 21 837–847
R.J. Petit A. Kremer D.B. Wagner (1993) ArticleTitleFinite island model for organelle and nuclear genes in plants Heredity 71 630–641
E. Petit F. Balloux L. Excoffier (2002) ArticleTitleMammalian population genetics: why not Y? Trends in Ecology and Evolution 17 28–33 Occurrence Handle10.1016/S0169-5347(01)02356-4
R.H. Podolsky T.P. Holtsford (1995) ArticleTitlePopulation structure of morphological traits in Clarkia dudleyana I. Comparison of F st between allozymes and morphological traits Genetics 140 733–744 Occurrence Handle7498750 Occurrence Handle1:STN:280:BymC38%2FisV0%3D
G.H. Pogson K.A. Mesa R.G. Boutilier (1995) ArticleTitleGenetic population structure and gene flow in the Atlantic cod Gadus morhua: A comparison of allozyme and nuclear RFLP loci Genetics 139 375–385 Occurrence Handle7705638 Occurrence Handle1:CAS:528:DyaK28Xht1ajsrg%3D
D.A. Powers M. Smith I. Gonzalez-Villasenor L. DiMichele D. Crawford G. Bernardi T. Lauerman (1993) A multidisciplinary approach to the selectionist/neutralist controversy using the model teleostFundulus heteroclitus D. Futuyma J. Antonovics (Eds) Oxford Surveys in Evolutionary Biology NumberInSeriesVol. 9. Oxford University Press Oxford, UK 49–109
G.E. Rehfeldt C.C. Ying D.L. Spittlehouse D.A. Hamilton SuffixJr. (1999) ArticleTitleGenetic responses to climate in Pinus contorta: niche breadthclimate change and reforestation Ecological Monographs 69 375–407 Occurrence Handle10.2307/2657162
S.H. Rice (2004) Evolutionary Theory: Mathematical and Conceptual Foundations Sinauer Sunderland, Massachusetts, USA
B.A. Richardson S.J. Brunsfeld N.B. Klopfenstein (2002) ArticleTitleDNA from bird-dispersed seed and wind-disseminated pollen provides insights into postglacial colonization and population genetic structure of whitebark pine (Pinus albicaulis) Molecular Ecology 11 215–227 Occurrence Handle11856423 Occurrence Handle1:CAS:528:DC%2BD38XhvF2qsbs%3D Occurrence Handle10.1046/j.1365-294X.2002.01435.x
D.M. Richardson (1998) Ecology and Biogeography of Pinus Cambridge University Press Cambridge, UK
N.A. Rosenberg M. Nordborg (2002) ArticleTitleGenealogical trees, coalescent theory, and the analysis of genetic polymorphisms Nature Reviews Genetics 3 380–390 Occurrence Handle11988763 Occurrence Handle1:CAS:528:DC%2BD38Xjs1yhtLY%3D Occurrence Handle10.1038/nrg795
K.G. Ross (2001) How to measure dispersal: the genetic approach. The example of fire ants J. Clobert E. Danchin A.A. Dhondt J.D. Nichols (Eds) Dispersal Oxford University Press New York, New York, USA 29–42
K.T. Scribner J.W. Arntzen T. Burke (1994) ArticleTitleComparative analysis of intra- and interpopulation genetic diversity in Bufo bufousing allozymesingle-locus microsatelliteminisatellite and multilocus minisatellite data Molecular Biology and Evolution 11 737–748 Occurrence Handle7968487 Occurrence Handle1:CAS:528:DyaK2cXmt1ensrs%3D
M. Slatkin (1995) ArticleTitleA measure of population subdivision based on microsatellite allele frequencies Genetics 139 457–462 Occurrence Handle7705646 Occurrence Handle1:STN:280:ByqB38%2FmvVE%3D
M. Slatkin (2001) A coalescent view of population structure R.S Sing K.B. Krimbas (Eds) Evolutionary Genetics: From Molecules to Morphology Cambridge University Press Cambridge, UK 418–429
V.L. Sork P.E. Smouse (2006) ArticleTitleGenetic analysis of landscape connectivity in tree populations Landsc. Ecol. 21 821–836
K. Spitze (1993) ArticleTitlePopulation structure in Daphnia obtusa: quantitative genetic and allozyme variation Genetics 135 367–374 Occurrence Handle8244001 Occurrence Handle1:CAS:528:DyaK2cXitFejtbw%3D
J. Squirrell P.M. Hollingsworth R.M. Bateman J.H. Dickson M.H.S. Light M. MacConaill M.C. Tebbitt (2001) ArticleTitlePartitioning and diversity of nuclear and organelle markers in native and introduced populations of Epipactis helleborine (Orchidaceae) American Journal of Botany 88 1409–1418 Occurrence Handle1:CAS:528:DC%2BD3MXmsVyhtbw%3D
J.F. Storz (2005) ArticleTitleUsing genome scans of DNA variability to infer the genetic basis of adaptive population divergence Molecular Ecology 14 671–688 Occurrence Handle15723660 Occurrence Handle1:CAS:528:DC%2BD2MXjtVGitr8%3D Occurrence Handle10.1111/j.1365-294X.2005.02437.x
R. Vitalis K. Dawson P. Boursot (2001) ArticleTitleInterpretation of variation across marker loci as evidence of selection Genetics 158 1811–1823 Occurrence Handle11514464 Occurrence Handle1:STN:280:DC%2BD3MvmvFertQ%3D%3D
D.B. Wagner (1992) Nuclearchloroplast and mitochondrial DNA polymorphisms as biochemical markers in population genetic analyses of forest trees W.T. Adams S.H. Strauss D.L. Copes A.R. Griffen (Eds) Population Genetics of Forest Trees Kluwer Boston, Massachusetts, USA 373–390
W.B. Watt C.W. Wheat E.H. Meyer J.-F. Martin (2003) ArticleTitleAdaptation at specific loci. VII. Natural selection, dispersal and the diversity of molecular – functional variation patterns among butterfly species complexes (Colias: LepidopteraPieridae) Molecular Ecology 12 1265–1275 Occurrence Handle12694289 Occurrence Handle1:CAS:528:DC%2BD3sXktlSqsL0%3D Occurrence Handle10.1046/j.1365-294X.2003.01804.x
B.S. Weir (1991) Genetic Data Analysis Sinauer Sunderland, Massachusetts, USA
M.C. Whitlock D.E. McCauley (1999) ArticleTitleIndirect measures of gene flow and migration F st≠ 1/(4Nm+1) Heredity 82 117–125 Occurrence Handle10098262 Occurrence Handle10.1038/sj.hdy.6884960
S. Wright (1951) ArticleTitleThe genetical structure of populations Annals of Eugenics 15 323–354
S. Wright (1952) ArticleTitleThe theoretical variance within and among subdivisions of a population that is in a steady state Genetics 37 312–321 Occurrence Handle17247394 Occurrence Handle1:STN:280:DC%2BD2s%2FmsFeksg%3D%3D
E. Zouros (2000) ArticleTitleThe exceptional mitochondrial DNA system of the mussel family Mytilidae Genes and Genetic Systems 75 313–318 Occurrence Handle11280005 Occurrence Handle1:CAS:528:DC%2BD3MXislyntL8%3D Occurrence Handle10.1266/ggs.75.313
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Latta, R.G. Integrating patterns across multiple genetic markers to infer spatial processes. Landscape Ecol 21, 809–820 (2006). https://doi.org/10.1007/s10980-005-7756-9
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DOI: https://doi.org/10.1007/s10980-005-7756-9