MIGRATE-N
Citations
MIGRATE-N
Citations
[1]Z. A. I. D. Abdo, K. A. Crandall, and P. A. U. L. Joyce, Evaluating the performance of likelihood methods for detecting population structure and migration, Mol. Ecology, 13 (2004), pp. 837–851.
[2]A. M. Adams and R. R. Hudson, Maximum-likelihood estimation of demographic parameters using the frequency spectrum of unlinked single-nucleotide polymorphisms, Genetics, 168 (2004), pp. 1699–1712.
[3]C. E. Adams, D. Fraser, A. J. Wilson, G. Alexander, M. M. Ferguson, and S. Skulason, Patterns of phenotypic and genetic variability show hidden diversity in Scottish Arctic charr, Ecology Freshwater Fish, 16 (2007), pp. 78–86.
[4]C. E. Adams, D. J. Hamilton, I. Mccarthy, A. J. Wilson, A. Grant, G. Alexander, S. Waldron, S. S. Snorasson, M. M. Ferguson, and S. Skulason, Does breeding site fidelity drive phenotypic and genetic sub-structuring of a population of arctic charr? , Evolutionary Ecology, 20 (2006), pp. 11–26.
[5]J. A. Addison, Simultaneous cloning of multiple nuclear genes by pooling PCR products of variable size: a cost-effective method of improving efficiency in large-scale genetic analyses, Mol. Ecology Notes, 7 (2007), pp. 389–392.
[6]J. A. Addison and M. W. Hart, Colonization, dispersal, and hybridization influence phylogeography of North Atlantic sea urchins (Strongylocentrotus droebachiensis), Evolution, 59 (2005), pp. 532–543.
[7]J. M. Akey, K. Zhang, M. M. Xiong, and L. Jin, The effect of single nucleotide polymorphism identification strategies on estimates of linkage disequilibrium, Mol. Biol. Evolution, 20 (2003), pp. 232–242.
[8]I. Alvarez, L. J. Royo, I. Fernandez, J. P. Gutierrez, E. Gomez, and F. Goyache, Genetic relationships and admixture among sheep breeds from Northern Spain assessed using microsatellites, J. Animal Science, 82 (2004), pp. 2246–2252.
[9]S. T. Alvarez-Castaneda, Systematics of the antelope ground squirrel (Ammospermophilus) from islands adjacent to the Baja California peninsula, J. Mammalogy, 88 (2007), pp. 1160–1169.
[10]S. T. Alvarez-Castaneda and J. L. Patton, Geographic genetic architecture of pocket gopher (Thomomys bottae) populations in Baja California, mexico, Mol. Ecology, 13 (2004), pp. 2287–2301.
[11]E. C. Anderson, An efficient Monte Carlo method for estimating N-e from temporally spaced samples using a coalescent-based likelihood, Genetics, 170 (2005), pp. 955–967.
[12]B. S. Arbogast and G. J. Kenagy, Comparative phylogeography as an integrative approach to historical biogeography, J. Biogeography, 28 (2001), pp. 819–825.
[13]F. Austerlitz and P. E. Smouse, Two-generation analysis of pollen flow across a landscape. II. Relation between Phi(ft), pollen dispersal and interfemale distance, Genetics, 157 (2001), pp. 851–857.
[14]J. D. Austin, S. C. Lougheed, and P. T. Boag, Controlling for the effects of history and nonequilibrium conditions in gene flow estimates in northern bullfrog (Rana catesbeiana) populations, Genetics, 168 (2004), pp. 1491–1506.
[15]D. L. Aylor, E. W. Price, and I. Carbone, Snap: Combine and Map modules for multilocus population genetic analysis, Bioinformatics, 22 (2006), pp. 1399–1401.
[16]E. Azzurro, D. Golani, G. Bucciarelli, and G. Bernardi, Genetics of the early stages of invasion of the Lessepsian rabbitfish Siganus luridus, J. Experimental Marine Biol. Ecology, 333 (2006), pp. 190–201.
[17]M. Bahlo and R. C. Griffiths, Inference from gene trees in a subdivided population, Theoretical Population Biol., 57 (2000), pp. 79–95.
[18]N. W. Bailey, C. M. Garcia, and M. G. Ritchie, Beyond the point of no return? A comparison of genetic diversity in captive and wild populations of two nearly extinct species of Goodeid fish reveals that one is inbred in the wild, Heredity, 98 (2007), pp. 360–367.
[19]C. S. Baker and P. J. Clapham, Modelling the past and future of whales and whaling, Trends In Ecology & Evolution, 19 (2004), pp. 365–371.
[20]S. Banke and B. A. McDonald, Migration patterns among global populations of the pathogenic fungus Mycosphaerella graminicola, Mol. Ecology, 14 (2005), pp. 1881–1896.
[21]S. Banke, A. Peschon, and B. A. McDonald, Phylogenetic analysis of globally distributed Mycosphaerella graminicola populations based on three DNA sequence loci, Fungal Genetics Biol., 41 (2004), pp. 226–238.
[22]T. Barbara, G. Martinelli, M. F. Fay, S. J. Mayo, and C. Lexer, Population differentiation and species cohesion in two closely related plants adapted to neotropical high-altitude ’inselbergs’, Alcantarea imperialis and Alcantarea geniculata (bromeliaceae), Mol. Ecology, 16 (2007), pp. 1981–1992.
[23]G. F. Barrowclough, J. G. Groth, L. A. Mertz, and R. J. Gutierrez, Phylogeographic structure, gene flow and species status in blue grouse (Dendragapus obscurus), Mol. Ecology, 13 (2004), pp. 1911–1922.
[24]height 2pt depth -1.6pt width 23pt, Genetic structure, introgression, and a narrow hybrid zone between northern and California spotted owls (Strix occidentalis), Mol. Ecology, 14 (2005), pp. 1109–1120.
[25]height 2pt depth -1.6pt width 23pt, Genetic structure of Mexican Spotted Owl (Strix occidentalis lucida) populations in a fragmented landscape, Auk, 123 (2006), pp. 1090–1102.
[26]A. L. Bazinet, D. S. Myers, J. Fuetsch, and M. P. Cummings, Grid Services Base Library: A high-level, procedural application programming interface for writing Globus-based Grid services, Future Generation Computer Systems-the Int. J. Grid Computing Theory Methods Applications, 23 (2007), pp. 517–522.
[27]M. A. Beaumont, Estimation of population growth or decline in genetically monitored populations, Genetics, 164 (2003), pp. 1139–1160.
[28]height 2pt depth -1.6pt width 23pt, Recent developments in genetic data analysis: what can they tell us about human demographic history? , Heredity, 92 (2004), pp. 365–379.
[29]P. Beerli, Effect of unsampled populations on the estimation of population sizes and migration rates between sampled populations, Mol. Ecology, 13 (2004), pp. 827–836.
[30]height 2pt depth -1.6pt width 23pt, Comparison of Bayesian and maximum-likelihood inference of population genetic parameters, Bioinformatics, 22 (2006), pp. 341–345.
[31]height 2pt depth -1.6pt width 23pt, Estimation of the population scaled mutation rate from microsatellite data, Genetics, 177 (2007), pp. 1967–1968.
[32]P. Beerli and J. Felsenstein, Maximum-likelihood estimation of migration rates and effective population numbers in two populations using a coalescent approach, Genetics, 152 (1999), pp. 763–773.
[33]height 2pt depth -1.6pt width 23pt, Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach, Proc. National Acad. Sciences United States Am., 98 (2001), pp. 4563–4568.
[34]J. D. Bell, P. C. Rothlisberg, J. L. Munro, N. R. Loneragan, W. J. Nash, R. D. Ward, and N. L. Andrew, Restocking and stock enhancement of marine invertebrate fisheries, Restocking Stock Enhancement Marine Invertebrate Fisheries, 49 (2005), pp. 1–+.
[35]K. L. Bell, C. Moritz, A. Moussalli, and D. K. Yeates, Comparative phylogeography and speciation of dung beetles from the Australian Wet Tropics rainforest, Mol. Ecology, 16 (2007), pp. 4984–4998.
[36]G. Bernardi and J. Lape, Tempo and mode of speciation in the Baja California disjunct fish species Anisotremus davidsonii, Mol. Ecology, 14 (2005), pp. 4085–4096.
[37]D. Besaggio, S. Fuselli, M. Srikummool, J. Kampuansai, L. Castri, C. Tyler-Smith, M. Seielstad, D. Kangwanpong, and G. Bertorelle, Genetic variation in Northern Thailand Hill Tribes: origins and relationships with social structure and linguistic differences, Bmc Evolutionary Biol., 7 (2007).
[38]S. Bhattacharya, A. E. Gelfand, and K. E. Holsinger, Model fitting and inference under latent equilibrium processes, Statistics Computing, 17 (2007), pp. 193–208.
[39]A. L. Bilodeau, D. L. Felder, and J. E. Neigel, Population structure at two geographic scales in the burrowing crustacean Callichirus islagrande (Decapoda, Thalassinidea): Historical and contemporary barriers to planktonic dispersal, Evolution, 59 (2005), pp. 2125–2138.
[40]T. D. Bittner and R. B. King, Gene flow and melanism in garter snakes revisited: a comparison of molecular markers and island vs. coalescent models, Biological J. Linnean Soc., 79 (2003), pp. 389–399.
[41]W. C. Black, C. F. Baer, M. F. Antolin, and N. M. DuTeau, Population genomics: Genome-wide sampling of insect populations, Ann. Rev. Entomology, 46 (2001), pp. 441–469.
[42]M. G. B. Blum, C. Damerval, S. Manel, and O. Francois, Brownian models and coalescent structures, Theoretical Population Biol., 65 (2004), pp. 249–261.
[43]D. A. Bolnick, D. I. Bolnick, and D. G. Smith, Asymmetric male and female genetic histories among native Americans from eastern North america, Mol. Biol. Evolution, 23 (2006), pp. 2161–2174.
[44]D. A. Bolnick and D. G. Smith, Migration and social structure among the Hopewell: Evidence from ancient dna, Am. Antiquity, 72 (2007), pp. 627–644.
[45]K. E. Boul, W. C. Funk, C. R. Darst, D. C. Cannatella, and M. J. Ryan, Sexual selection drives speciation in an Amazonian frog, Proc. Royal Soc. B-biological Sciences, 274 (2007), pp. 399–406.
[46]M. Boulet, S. Couturier, S. D. Cote, R. D. Otto, and L. Bernatchez, Integrative use of spatial, genetic, and demographic analyses for investigating genetic connectivity between migratory, montane, and sedentary caribou herds, Mol. Ecology, 16 (2007), pp. 4223–4240.
[47]B. W. Bowen, A. L. Bass, L. Soares, and R. J. Toonen, Conservation implications of complex population structure: lessons from the loggerhead turtle (Caretta caretta), Mol. Ecology, 14 (2005), pp. 2389–2402.
[48]R. C. K. Bowie, J. Fjeldsa, S. J. Hackett, J. M. Bates, and T. M. Crowe, Coalescent models reveal the relative roles of ancestral polymorphism, vicariance, and dispersal in shaping phylogeographical structure of an African montane forest robin, Mol. Phylogenetics Evolution, 38 (2006), pp. 171–188.
[49]J. Boys, M. Cherry, and S. Dayanandan, Microsatellite analysis reveals genetically distinct populations of red pine (Pinus resinosa pinaceae), Am. J. Botany, 92 (2005), pp. 833–841.
[50]A. Brandstatter, B. Egyed, B. Zimmermann, N. Duftner, Z. Padar, and W. Parson, Migration rates and genetic structure of two Hungarian ethnic groups in Transylvania, romania, Annals Human Genetics, 71 (2007), pp. 791–803.
[51]P. H. Brito, The influence of Pleistocene glacial refugia on tawny owl genetic diversity and phylogeography in western europe, Mol. Ecology, 14 (2005), pp. 3077–3094.
[52]H. B. Britten and J. W. Glasford, Genetic population structure of the Dakota skipper (Lepidoptera : Hesperia dacotae): A North American native prairie obligate, Conservation Genetics, 3 (2002), pp. 363–374.
[53]J. W. Brown, P. J. V. de Groot, T. P. Birt, G. Seutin, P. T. Boag, and V. L. Friesen, Appraisal of the consequences of the DDT-induced bottleneck on the level and geographic distribution of neutral genetic variation in Canadian peregrine falcons, Falco peregrinus, Mol. Ecology, 16 (2007), pp. 327–343.
[54]R. P. Brown, P. A. Hoskisson, J. H. Welton, and M. Baez, Geological history and within-island diversity: a debris avalanche and the Tenerife lizard Gallotia galloti, Mol. Ecology, 15 (2006), pp. 3631–3640.
[55]R. T. Brumfield, Mitochondrial variation in Bolivian populations of the variable antshrike (Thamnophilus caerulescens), Auk, 122 (2005), pp. 414–432.
[56]P. C. Brunner, S. Schurch, and B. A. McDonald, The origin and colonization history of the barley scald pathogen Rhynchosporium secalis, J. Evolutionary Biol., 20 (2007), pp. 1311–1321.
[57]M. B. Bryan, D. Zalinski, K. B. Filcek, S. Libants, W. Li, and K. T. Scribner, Patterns of invasion and colonization of the sea lamprey (Petromyzon marinus) in North America as revealed by microsatellite genotypes, Mol. Ecology, 14 (2005), pp. 3757–3773.
[58]J. Buschbom, Migration between continents: geographical structure and long-distance gene flow in Porpidia flavicunda (lichen-forming ascomycota), Mol. Ecology, 16 (2007), pp. 1835–1846.
[59]P. R. Cabe, R. B. Page, T. J. Hanlon, M. E. Aldrich, L. Connors, and D. M. Marsh, Fine-scale population differentiation and gene flow in a terrestrial salamander (Plethodon cinereus) living in continuous habitat, Heredity, 98 (2007), pp. 53–60.
[60]M. L. Cain, B. G. Milligan, and A. E. Strand, Long-distance seed dispersal in plant populations, Am. J. Botany, 87 (2000), pp. 1217–1227.
[61]R. Calsbeek and T. B. Smith, Ocean currents mediate evolution in island lizards, Nature, 426 (2003), pp. 552–555.
[62]J. L. Campos, D. Posada, and P. Moran, Genetic variation at MHC, mitochondrial and microsatellite loci in isolated populations of Brown trout (Salmo trutta), Conservation Genetics, 7 (2006), pp. 515–530.
[63]I. Carbone and L. M. Kohn, A microbial population-species interface: nested cladistic and coalescent inference with multilocus data, Mol. Ecology, 10 (2001), pp. 947–964.
[64]I. Carbone, Y. C. Liu, B. I. Hillman, and M. G. Milgroom, Recombination and migration of Cryphonectria hypovirus 1 as inferred from gene genealogies and the coalescent, Genetics, 166 (2004), pp. 1611–1629.
[65]J. Carlsson, The effect of family structure on the likelihood for kin-biased distribution: an empirical study of brown trout populations, J. Fish Biol., 71 (2007), pp. 98–110.
[66]J. Carlsson, J. R. McDowell, P. Diaz-Jaimes, J. E. L. Carlsson, S. B. Boles, J. R. Gold, and J. E. Graves, Microsatellite and mitochondrial DNA analyses of Atlantic bluefin tuna (Thunnus thynnus thynnus) population structure in the Mediterranean sea, Mol. Ecology, 13 (2004), pp. 3345–3356.
[67]M. A. Carmen and A. Ablan, Genetics and the study of fisheries connectivity in Asian developing countries, Fisheries Research, 78 (2006), pp. 158–168.
[68]C. Carreras, M. Pascual, L. Cardona, A. Aguilar, D. Margaritoulis, A. Rees, O. Turkozan, Y. Levy, A. Gasith, M. Aureggi, and M. Khalil, The genetic structure of the loggerhead sea turtle (Caretta caretta) in the Mediterranean as revealed by nuclear and mitochondrial DNA and its conservation implications, Conservation Genetics, 8 (2007), pp. 761–775.
[69]B. C. Carstens, A. Bankhead, P. Joyce, and J. Sullivan, Testing population genetic structure using parametric bootstrapping and migrate-n, Genetica, 124 (2005), pp. 71–75.
[70]B. C. Carstens and L. L. Knowles, Shifting distributions and speciation: species divergence during rapid climate change, Mol. Ecology, 16 (2007), pp. 619–627.
[71]B. C. Carstens, A. L. Stevenson, J. D. Degenhardt, and J. Sullivan, Testing nested phylogenetic and phylogeographic hypotheses in the Plethodon vandykei species group, Systematic Biol., 53 (2004), pp. 781–792.
[72]M. C. Cassista and M. W. Hart, Spatial and temporal genetic homogeneity in the Arctic surfclam (Mactromeris polynyma), Marine Biol., 152 (2007), pp. 569–579.
[73]B. J. Cassone and E. G. Boulding, Genetic structure and phylogeography of the lined shore crab, Pachygrapsus crassipes, along the northeastern and western Pacific coasts, Marine Biol., 149 (2006), pp. 213–226.
[74]V. Castric and L. Bernatchez, The rise and fall of isolation by distance in the anadromous brook charr (Salvelinus fontinalis mitchill), Genetics, 163 (2003), pp. 983–996.
[75]V. Castric, F. Bonney, and L. Bernatchez, Landscape structure and hierarchical genetic diversity in the brook charr, Salvelinus fontinalis, Evolution, 55 (2001), pp. 1016–1028.
[76]P. C. Ceresini, H. D. Shew, T. Y. James, R. J. Vilgalys, and M. A. Cubeta, Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci, Bmc Evolutionary Biol., 7 (2007).
[77]R. Chaix, F. Austerlitz, B. Morar, L. Kalaydjieva, and E. Heyer, Vlax Roma history: What do coalescent-based methods tell us? , European J. Human Genetics, 12 (2004), pp. 285–292.
[78]S. Chatzimanolis and M. S. Caterino, Toward a better understanding of the "Transverse Range Break": Lineage diversification in southern california, Evolution, 61 (2007), pp. 2127–2141.
[79]L. Chikhi, M. W. Bruford, and M. A. Beaumont, Estimation of admixture proportions: A likelihood-based approach using Markov chain Monte carlo, Genetics, 158 (2001), pp. 1347–1362.
[80]S. J. Chivers, R. W. Baird, D. J. McSweeney, D. L. Webster, N. M. Hedrick, and J. C. Salinas, Genetic variation and evidence for population structure in eastern North Pacific false killer whales (Pseudorca crassidens), Canadian J. Zoology-revue Canadienne De Zoologie, 85 (2007), pp. 783–794.
[81]C. Ciofi, G. A. Wilson, L. B. Beheregaray, C. Marquez, J. P. Gibbs, W. Tapia, H. L. Snell, A. Caccone, and J. R. Powell, Phylogeographic history and gene flow among giant Galapagos tortoises on southern Isabela island, Genetics, 172 (2006), pp. 1727–1744.
[82]A. G. Clark, The size distribution of homozygous segments in the human genome, Am. J. Human Genetics, 65 (1999), pp. 1489–1492.
[83]R. W. Clark, W. S. Brown, R. Stechert, and K. R. Zamudio, Integrating individual behaviour and landscape genetics: the population tructure of timber rattlesnake hibernacula, Mol. Ecology, 17 (2008), pp. 719–730.
[84]B. C. Congdon, J. F. Piatt, K. Martin, and V. L. Friesen, Mechanisms of population differentiation in marbled murrelets: Historical versus contemporary processes, Evolution, 54 (2000), pp. 974–986.
[85]S. Consuegra and C. G. de Leaniz, Fluctuating sex ratios, but no sex-biased dispersal, in a promiscuous fish, Evolutionary Ecology, 21 (2007), pp. 229–245.
[86]G. Cooper, N. J. Burroughs, D. A. Rand, D. C. Rubinsztein, and W. Amos, Markov Chain Monte Carlo analysis of human Y-chromosome microsatellites provides evidence of biased mutation, Proc. National Acad. Sciences United States Am., 96 (1999), pp. 11916–11921.
[87]F. O. Costa, T. Neuparth, C. W. Theodorakis, M. H. Costa, and L. R. Shugart, Rapd analysis of southern populations of Gammarus locusta: comparison with allozyme data and ecological inferences, Marine Ecology-progress Series, 277 (2004), pp. 197–207.
[88]C. D. Criscione and M. S. Blouin, Life cycles shape parasite evolution: Comparative population genetics of salmon trematodes, Evolution, 58 (2004), pp. 198–202.
[89]E. Crispo, P. Bentzen, D. N. Reznick, M. T. Kinnison, and A. P. Hendry, The relative influence of natural selection and geography on gene flow in guppies, Mol. Ecology, 15 (2006), pp. 49–62.
[90]E. K. Croteau, S. C. Lougheed, P. G. Krannitz, N. A. Mahony, B. L. Walker, and P. T. Boag, Genetic population structure of the sagebrush Brewer’s sparrow, Spizella breweri breweri, in a fragmented landscape at the northern range periphery, Conservation Genetics, 8 (2007), pp. 1453–1463.
[91]A. Crottini, F. Andreone, J. Kosuch, L. J. Borkin, S. N. Litvinchuk, C. Eggert, and M. Veith, Fossorial but widespread: the phylogeography of the common spadefoot toad (Pelobates fuscus), and the role of the Po Valley as a major source of genetic variability, Mol. Ecology, 16 (2007), pp. 2734–2754.
[92]M. L. Dalebout, K. M. Robertson, A. Frantzis, D. Engelhaupt, A. A. Mignucci-Giannoni, R. J. Rosario-Delestre, and C. S. Baker, Worldwide structure of mtDNA diversity among Cuvier’s beaked whales (Ziphius cavirostris): implications for threatened populations, Mol. Ecology, 14 (2005), pp. 3353–3371.
[93]M. L. Dalebout, D. E. Ruzzante, H. Whitehead, and N. I. Oien, Nuclear and mitochondrial markers reveal distinctiveness of a small population of bottlenose whales (Hyperoodon ampullatus) in the western North atlantic, Mol. Ecology, 15 (2006), pp. 3115–3129.
[94]R. A. de Brito, M. H. Manfrin, and F. M. Sene, Nested cladistic analysis of Brazilian populations of Drosophila serido, Mol. Phylogenetics Evolution, 22 (2002), pp. 131–143.
[95]M. D. Dean and J. W. O. Ballard, Linking phylogenetics with population genetics to reconstruct the geographic origin of a species, Mol. Phylogenetics Evolution, 32 (2004), pp. 998–1009.
[96]P. W. DeHaan, S. V. Libants, R. F. Elliott, and K. T. Scribner, Genetic population structure of remnant lake sturgeon populations in the upper Great Lakes basin, Transactions Am. Fisheries Soc., 135 (2006), pp. 1478–1492.
[97]K. S. Delaney and R. K. Wayne, Adaptive units for conservation: Population distinction and historic extinctions in the Island scrub-jay, Conservation Biol., 19 (2005), pp. 523–533.
[98]W. Delport, T. M. Crowe, P. Lloyd, and P. Bloomer, Population growth confounds phylogeographic inference in namaqua sandgrouse, J. Heredity, 98 (2007), pp. 158–164.
[99]D. Dieringer and C. Schlotterer, Microsatellite ANALYSER (MSA): a platform independent analysis tool for large microsatellite data sets, Mol. Ecology Notes, 3 (2003), pp. 167–169.
[100]V. S. Domingues, V. C. Almada, R. S. Santos, A. Brito, and G. Bernardi, Phylogeography and evolution of the triplefin Tripterygion delaisi (Pisces, blennioidei), Marine Biol., 150 (2007), pp. 509–519.
[101]V. S. Domingues, G. Bucciarelli, V. C. Almada, and G. Bernardi, Historical colonization and demography of the Mediterranean damselfish, Chromis chromis, Mol. Ecology, 14 (2005), pp. 4051–4063.
[102]V. S. Domingues, R. S. SantoS, A. Brito, and V. C. Almada, Historical population dynamics and demography of the eastern Atlantic pomacentrid Chromis limbata (Valenciennes, 1833), Mol. Phylogenetics Evolution, 40 (2006), pp. 139–147.
[103]M. R. Douglas, P. C. Brunner, and M. E. Douglas, Drought in an evolutionary context: molecular variability in Flannelmouth Sucker (Catostomus latipinnis) from the Colorado River Basin of western North america, Freshwater Biol., 48 (2003), pp. 1254–1273.
[104]A. J. Drummond, G. K. Nicholls, A. G. Rodrigo, and W. Solomon, Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data, Genetics, 161 (2002), pp. 1307–1320.
[105]A. J. Drummond, O. G. Pybus, A. Rambaut, R. Forsberg, and A. G. Rodrigo, Measurably evolving populations, Trends In Ecology & Evolution, 18 (2003), pp. 481–488.
[106]A. J. Drummond, A. Rambaut, B. Shapiro, and O. G. Pybus, Bayesian coalescent inference of past population dynamics from molecular sequences, Mol. Biol. Evolution, 22 (2005), pp. 1185–1192.
[107]R. J. Dyer and J. D. Nason, Population Graphs: the graph theoretic shape of genetic structure, Mol. Ecology, 13 (2004), pp. 1713–1727.
[108]J. M. Eastman, T. A. Spradling, and J. W. Demastes, Conservation genetic assessment of the blue-spotted salamander in iowa, Am. Midland Naturalist, 158 (2007), pp. 233–239.
[109]K. Edh, B. Widen, and A. Ceplitis, Nuclear and chloroplast microsatellites reveal extreme population differentiation and limited gene flow in the Aegean endemic Brassica cretica (brassicaceae), Mol. Ecology, 16 (2007), pp. 4972–4983.
[110]S. V. Edwards, L. Liu, and D. K. Pearl, High-resolution species trees without concatenation, Proc. National Acad. Sciences United States Am., 104 (2007), pp. 5936–5941.
[111]V. V. Efremov, Population as a conservation and management unit in vertebrate animals, Zhurnal Obshchei Biologii, 68 (2007), pp. 205–220.
[112]B. C. Emerson, E. Paradis, and C. Thebaud, Revealing the demographic histories of species using DNA sequences, Trends In Ecology & Evolution, 16 (2001), pp. 707–716.
[113]C. W. Epps, J. D. Wehausen, V. C. Bleich, S. G. Torres, and J. S. Brashares, Optimizing dispersal and corridor models using landscape genetics, J. Appl. Ecology, 44 (2007), pp. 714–724.
[114]A. Estoup, M. Beaumont, F. Sennedot, C. Moritz, and J. M. Cornuet, Genetic analysis of complex demographic scenarios: Spatially expanding populations of the cane toad, Bufo marinus, Evolution, 58 (2004), pp. 2021–2036.
[115]A. Estoup, I. J. Wilson, C. Sullivan, J. M. Cornuet, and C. Moritz, Inferring population history from microsatellite and enzyme data in serially introduced cane toads, Bufo marinus, Genetics, 159 (2001), pp. 1671–1687.
[116]G. Ewing, G. Nicholls, and A. Rodrigo, Using temporally spaced sequences to simultaneously estimate migration rates, mutation rate and population sizes in measurably evolving populations, Genetics, 168 (2004), pp. 2407–2420.
[117]G. Ewing and A. Rodrigo, Coalescent-based estimation of population parameters when the number of demes changes over time, Mol. Biol. Evolution, 23 (2006), pp. 988–996.
[118]P. Faubet, R. S. Waples, and O. E. Gaggiotti, Evaluating the performance of a multilocus Bayesian method for the estimation of migration rates, Mol. Ecology, 16 (2007), pp. 1149–1166.
[119]P. Fearnhead and P. Donnelly, Estimating recombination rates from population genetic data, Genetics, 159 (2001), pp. 1299–1318.
[120]J. Felsenstein, Accuracy of coalescent likelihood estimates: Do we need more sites, more sequences, or more loci? , Mol. Biol. Evolution, 23 (2006), pp. 691–700.
[121]E. K. Fillatre, P. Etherton, and D. D. Heath, Bimodal run distribution in a northern population of sockeye salmon (Oncorhynchus nerka): life history and genetic analysis on a temporal scale, Mol. Ecology, 12 (2003), pp. 1793–1805.
[122]R. C. Fleischer, W. I. Boarman, E. G. Gonzalez, A. Godinez, K. E. Omland, S. Young, L. Helgen, G. Syed, and C. E. Mcintosh, As the raven flies: using genetic data to infer the history of invasive common raven (Corvus corax) populations in the Mojave desert, Mol. Ecology, 17 (2008), pp. 464–474.
[123]D. H. Foley and E. P. Torres, Population structure of an island malaria vector, Medical Veterinary Entomology, 20 (2006), pp. 393–401.
[124]M. R. Francisco, H. L. Gibbs, M. Galetti, V. O. Lunardi, and P. M. Galetti, Genetic structure in a tropical lek-breeding bird, the blue manakin (Chiroxiphia caudata) in the Brazilian Atlantic forest, Mol. Ecology, 16 (2007), pp. 4908–4918.
[125]D. J. Fraser, M. M. Hansen, S. Ostergaard, N. Tessier, M. Legault, and L. Bernatchez, Comparative estimation of effective population sizes and temporal gene flow in two contrasting population systems, Mol. Ecology, 16 (2007), pp. 3866–3889.
[126]D. J. Fraser, C. Lippe, and L. Bernatchez, Consequences of unequal population size, asymmetric gene flow and sex-biased dispersal on population structure in brook charr (Salvelinus fontinalis), Mol. Ecology, 13 (2004), pp. 67–80.
[127]V. L. Friesen, D. J. Anderson, T. E. Steeves, H. Jones, and E. A. Schreiber, Molecular support for species status of the Nazca Booby (Sula granti), Auk, 119 (2002), pp. 820–826.
[128]T. Froukh and M. Kochzius, Genetic population structure of the endemic fourline wrasse (Larabicus quadrilineatus) suggests limited larval dispersal distances in the Red sea, Mol. Ecology, 16 (2007), pp. 1359–1367.
[129]R. W. Fu, D. K. Dey, and K. E. Holsinger, Bayesian models for the analysis of genetic structure when populations are correlated, Bioinformatics, 21 (2005), pp. 1516–1529.
[130]R. W. Fu, A. E. Gelfand, and K. E. Holsinger, Exact moment calculations for genetic models with migration, mutation, and drift, Theoretical Population Biol., 63 (2003), pp. 231–243.
[131]W. C. Funk, T. D. Mullins, and S. M. Haig, Conservation genetics of snowy plovers (Charadrius alexandrinus) in the Western Hemisphere: population genetic structure and delineation of subspecies, Conservation Genetics, 8 (2007), pp. 1287–1309.
[132]O. E. Gaggiotti, O. Lange, K. Rassmann, and C. Gliddon, A comparison of two indirect methods for estimating average levels of gene flow using microsatellite data, Mol. Ecology, 8 (1999), pp. 1513–1520.
[133]P. Galbusera, M. Githiru, L. Lens, and E. Matthysen, Genetic equilibrium despite habitat fragmentation in an Afrotropical bird, Mol. Ecology, 13 (2004), pp. 1409–1421.
[134]R. C. Garrick and P. Sunnucks, Development and application of three-tiered nuclear genetic markers for basal Hexapods using single-stranded conformation polymorphism coupled with targeted DNA sequencing, Bmc Genetics, 7 (2006).
[135]D. Garrigan, S. B. Kingan, M. M. Pilkington, J. A. Wilder, M. P. Cox, H. Soodyall, B. Strassmann, G. Destro-Bisol, P. de Knijff, A. Novelletto, J. Friedlaender, and M. F. Hammer, Inferring human population sizes, divergence times and rates of gene flow from mitochondrial, X and Y chromosome resequencing data, Genetics, 177 (2007), pp. 2195–2207.
[136]L. Gay, P. D. D. Rau, J. Y. Mondain-Monval, and P. A. Crochet, Phylogeography of a game species: the red-crested pochard (Netta rufina) and consequences for its management, Mol. Ecology, 13 (2004), pp. 1035–1045.
[137]J. Geml, G. A. Laursen, K. O’Neill, H. C. Nusbaum, and D. L. Taylor, Beringian origins and cryptic speciation events in the fly agaric (Amanita muscaria), Mol. Ecology, 15 (2006), pp. 225–239.
[138]N. J. Gemmell, M. K. Schwartz, and B. C. Robertson, Moa were many, Proc. Royal Soc. London Series B-biological Sciences, 271 (2004), pp. S430–S432.
[139]M. Genovart, D. Oro, J. Juste, and G. Bertorelle, What genetics tell us about the conservation of the critically endangered Balearic shearwater? , Biological Conservation, 137 (2007), pp. 283–293.
[140]J. R. Gold, E. Saillant, C. P. Burridge, A. Blanchard, and J. C. Patton, Population structure and effective size in critically endangered cape fear shiners Notropis mekistocholas, Southeastern Naturalist, 3 (2004), pp. 89–102.
[141]D. B. Goldstein and L. Chikhi, Human migrations and population structure: What we know and why it matters, Ann. Rev. Genomics Human Genetics, 3 (2002), pp. 129–152.
[142]E. G. Gonzalez and R. Zardoya, Relative role of life-history traits and historical factors in shaping genetic population structure of sardines (Sardina pilchardus), Bmc Evolutionary Biol., 7 (2007).
[143]S. M. Goodreau, Assessing the effects of human mixing patterns on human immunodeficiency virus-1 interhost phylogenetics through social network simulation, Genetics, 172 (2006), pp. 2033–2045.
[144]P. Gorroochurn, Post-data inference of coalescence times and segregating-site distribution in a two-island model with symmetric migration, Adv. In Appl. Probability, 33 (2001), pp. 600–616.
[145]J. L. Gow, C. L. Peichel, and E. B. Taylor, Contrasting hybridization rates between sympatric three-spined sticklebacks highlight the fragility of reproductive barriers between evolutionarily young species, Mol. Ecology, 15 (2006), pp. 739–752.
[146]B. Gum, R. Gross, and R. Kuehn, Discriminating the impact of recent human mediated stock transfer from historical gene flow on genetic structure of European grayling Thymallus thymallus l., J. Fish Biol., 69 (2006), pp. 115–135.
[147]B. Gum, R. Gross, O. Rottmann, W. Schroder, and R. Kuhn, Microsatellite variation in Bavarian populations of European grayling (Thymallus thymallus): Implications for conservation, Conservation Genetics, 4 (2003), pp. 659–672.
[148]E. S. Gysels, B. Hellemans, C. Pampoulie, and F. A. M. Volckaert, Phylogeography of the common goby, Pomatoschistus microps, with particular emphasis on the colonization of the Mediterranean and the North sea, Mol. Ecology, 13 (2004), pp. 403–417.
[149]S. M. Haig, T. D. Mullins, and E. D. Forsman, Subspecific relationships and genetic structure in the spotted owl, Conservation Genetics, 5 (2004), pp. 683–705.
[150]G. Hamilton, M. Currat, N. Ray, G. Heckel, M. Beaumont, and L. Excoffier, Bayesian estimation of recent migration rates after a spatial expansion, Genetics, 170 (2005), pp. 409–417.
[151]B. Hanfling, Understanding the establishment success of non-indigenous fishes: lessons from population genetics, J. Fish Biol., 71 (2007), pp. 115–135.
[152]B. Hanfling and D. Weetman, Concordant genetic estimators of migration reveal anthropogenically enhanced source-sink population structure in the River Sculpin, Cottus gobio, Genetics, 173 (2006), pp. 1487–1501.
[153]M. M. Hansen, O. Skaala, L. F. Jensen, D. Bekkevold, and K. L. D. Mensberg, Gene flow, effective population size and selection at major histocompatibility complex genes: brown trout in the Hardanger Fjord, norway, Mol. Ecology, 16 (2007), pp. 1413–1425.
[154]O. J. Hardy, L. Maggia, E. Bandou, P. Breyne, H. Caron, M. H. Chevallier, A. Doligez, C. Dutech, A. Kremer, C. Latouche-Halle, V. Troispoux, V. Veron, and B. Degen, Fine-scale genetic structure and gene dispersal inferences in 10 Neotropical tree species, Mol. Ecology, 15 (2006), pp. 559–571.
[155]M. P. Hare, Prospects for nuclear gene phylogeography, Trends In Ecology & Evolution, 16 (2001), pp. 700–706.
[156]E. H. Harley, I. Baumgarten, J. Cunningham, and C. O’Ryan, Genetic variation and population structure in remnant populations of black rhinoceros, Diceros bicornis, in africa, Mol. Ecology, 14 (2005), pp. 2981–2990.
[157]A. D. Harlin-Cognato, T. Markowitz, B. Wuersig, and R. L. Honeycutt, Multi-locus phylogeography of the dusky dolphin (Lagenorhynchus obscurus): passive dispersal via the west-wind drift or response to prey species and climate change? , Bmc Evolutionary Biol., 7 (2007).
[158]F. M. Harper, J. A. Addison, and M. W. Hart, Introgression versus immigration in hybridizing high-dispersal echinoderms, Evolution, 61 (2007), pp. 2410–2418.
[159]D. D. Heath, C. Busch, J. Kelly, and D. Y. Atagi, Temporal change in genetic structure and effective population size in steelhead trout (Oncorhynchus mykiss), Mol. Ecology, 11 (2002), pp. 197–214.
[160]K. L. Heckman, E. Rasoazanabary, E. Machlin, L. R. Godfrey, and A. D. Yoder, Incongruence between genetic and morphological diversity in Microcebus griseorufus of Beza mahafaly, Bmc Evolutionary Biol., 6 (2006).
[161]M. E. Hellberg, Footprints on water: the genetic wake of dispersal among reefs, Coral Reefs, 26 (2007), pp. 463–473.
[162]J. Hemmer-Hansen, E. E. Nielsen, P. Gronkjaer, and V. Loeschcke, Evolutionary mechanisms shaping the genetic population structure of marine fishes; lessons from the European flounder (Platichthys flesus l.), Mol. Ecology, 16 (2007), pp. 3104–3118.
[163]A. P. Hendry and E. B. Taylor, How much of the variation in adaptive divergence can be explained by gene flow? - An evaluation using lake-stream stickleback pairs, Evolution, 58 (2004), pp. 2319–2331.
[164]A. P. Hendry, E. B. Taylor, and J. D. McPhail, Adaptive divergence and the balance between selection and gene flow: Lake and stream stickleback in the misty system, Evolution, 56 (2002), pp. 1199–1216.
[165]L. M. Herborg, D. Weetman, C. V. Oosterhout, and B. Hanfling, Genetic population structure and contemporary dispersal patterns of a recent European invader, the Chinese mitten crab, Eriocheir sinensis, Mol. Ecology, 16 (2007), pp. 231–242.
[166]M. D. Herron, J. M. Waterman, and C. L. Parkinson, Phylogeny and historical biogeography of African ground squirrels: the role of climate change in the evolution of xerus, Mol. Ecology, 14 (2005), pp. 2773–2788.
[167]J. Hey, On the number of New World founders: A population genetic portrait of the peopling of the americas, Plos Biol., 3 (2005), pp. 965–975.
[168]J. Hey and C. A. Machado, The study of structured populations - New hope for a difficult and divided science, Nature Rev. Genetics, 4 (2003), pp. 535–543.
[169]J. Hey and R. Nielsen, Multilocus methods for estimating population sizes, migration rates and divergence time, with applications to the divergence of Drosophila pseudoobscura and d-persimilis, Genetics, 167 (2004), pp. 747–760.
[170]height 2pt depth -1.6pt width 23pt, Integration within the Felsenstein equation for improved Markov chain Monte Carlo methods in population genetics, Proc. National Acad. Sciences United States Am., 104 (2007), pp. 2785–2790.
[171]M. J. Hickerson and C. W. Cunningham, Contrasting quaternary histories in an ecologically divergent sister pair of low-dispersing intertidal fish (Xiphister) revealed by multilocus DNA analysis, Evolution, 59 (2005), pp. 344–360.
[172]M. J. Hickerson, G. Dolman, and C. Moritz, Comparative phylogeographic summary statistics for testing simultaneous vicariance, Mol. Ecology, 15 (2006), pp. 209–223.
[173]H. E. Hoekstra, K. E. Drumm, and M. W. Nachman, Ecological genetics of adaptive color polymorphism in pocket mice: geographic variation in selected and neutral genes, Evolution, 58 (2004), pp. 1329–1341.
[174]A. R. Hoelzel, J. Hey, M. E. Dahlheim, C. Nicholson, V. Burkanov, and N. Black, Evolution of population structure in a highly social top predator, the killer whale, Mol. Biol. Evolution, 24 (2007), pp. 1407–1415.
[175]J. Hoglund and L. Shorey, Genetic divergence in the superspecies manacus, Biological J. Linnean Soc., 81 (2004), pp. 439–447.
[176]K. Holder, R. Montgomerie, and V. L. Friesen, Glacial vicariance and historical biogeography of rock ptarmigan (Lagopus mutus) in the Bering region, Mol. Ecology, 9 (2000), pp. 1265–1278.
[177]height 2pt depth -1.6pt width 23pt, Genetic diversity and management of Nearctic rock ptarmigan (Lagopus mutus), Canadian J. Zoology-revue Canadienne De Zoologie, 82 (2004), pp. 564–575.
[178]K. E. Holsinger and L. E. Wallace, Bayesian approaches for the analysis of population genetic structure: an example from Platanthera leucophaea (orchidaceae), Mol. Ecology, 13 (2004), pp. 887–894.
[179]T. Hrbek, I. P. Farias, M. Crossa, I. Sampaio, J. I. R. Porto, and A. Meyer, Population genetic analysis of Arapaima gigas, one of the largest freshwater fishes of the Amazon basin: implications for its conservation, Animal Conservation, 8 (2005), pp. 297–308.
[180]J. P. Huelsenbeck, B. Larget, R. E. Miller, and F. Ronquist, Potential applications and pitfalls of Bayesian inference of phylogeny, Systematic Biol., 51 (2002), pp. 673–688.
[181]J. P. Huelsenbeck, F. Ronquist, R. Nielsen, and J. P. Bollback, Evolution - Bayesian inference of phylogeny and its impact on evolutionary biology, Science, 294 (2001), pp. 2310–2314.
[182]Y. Idaghdour, D. Broderick, A. Korrida, and F. Chbel, Mitochondrial control region diversity of the houbara bustard Chlamydotis undulata complex and genetic structure along the Atlantic seaboard of North africa, Mol. Ecology, 13 (2004), pp. 43–54.
[183]E. Imbert and F. Lefevre, Dispersal and gene flow of Populus nigra (Salicaceae) along a dynamic river system, J. Ecology, 91 (2003), pp. 447–456.
[184]M. D. Iorio and R. C. Griffiths, Importance sampling on coalescent histories. i, Adv. In Appl. Probability, 36 (2004), pp. 417–433.
[185]M. D. Iorio, R. C. Griffiths, R. Leblois, and F. Rousset, Stepwise mutation likelihood computation by sequential importance sampling in subdivided population models, Theoretical Population Biol., 68 (2005), pp. 41–53.
[186]R. Jehle and J. W. Arntzen, Microsatellite markers in amphibian conservation genetics, Herpetological J., 12 (2002), pp. 1–9.
[187]R. Jehle, G. A. Wilson, J. W. Arntzen, and T. Burke, Contemporary gene flow and the spatio-temporal genetic structure of subdivided newt populations (Triturus cristatus, t-marmoratus), J. Evolutionary Biol., 18 (2005), pp. 619–628.
[188]S. G. Johnson, Age, phylogeography and population structure of the microendemic banded spring snail, Mexipyrgus churinceanus, Mol. Ecology, 14 (2005), pp. 2299–2311.
[189]M. T. Jolly, F. Viard, F. Gentil, E. Thiebaut, and D. Jollivet, Comparative phylogeography of two coastal polychaete tubeworms in the Northeast Atlantic supports shared history and vicariant events, Mol. Ecology, 15 (2006), pp. 1841–1855.
[190]H. Jow, W. Amos, H. Luo, Y. Zhang, and N. J. Burroughs, A markov chain Monte Carlo method for estimating population mixing using Y-chromosome markers: Mixing of the Han people in china, Annals Human Genetics, 71 (2007), pp. 407–420.
[191]N. K. Jue, Exploring the structure of genetic variation and the influences of demography on effective population size in the gag grouper Myteroperca microlepi (Goode & bean), J. Fish Biol., 69 (2006), pp. 217–224.
[192]M. W. Kelly and J. M. Rhymer, Population genetic structure of a rare unionid (Lampsilis cariosa) in a recently glaciated landscape, Conservation Genetics, 6 (2005), pp. 789–802.
[193]W. J. Kennington, J. Gockel, and L. Partridge, Testing for asymmetrical gene flow in a Drosophila melanogaster body-size cline, Genetics, 165 (2003), pp. 667–673.
[194]K. S. Kim, P. Cano-Rios, and T. W. Sappington, Using genetic markers and population assignment techniques to infer origin of boll weevils (Coleoptera : Curculionidae) unexpectedly captured near an eradication zone in mexico, Environmental Entomology, 35 (2006), pp. 813–826.
[195]R. B. King and R. Lawson, Patterns of population subdivision and gene flow in three sympatric natricine snakes, Copeia, (2001), pp. 602–614.
[196]J. Kitano, S. Mori, and C. L. Peichel, Phenotypic divergence and reproductive isolation between sympatric forms of Japanese threespine sticklebacks, Biological J. Linnean Soc., 91 (2007), pp. 671–685.
[197]G. Knaepkens, E. Verheyen, P. Galbusera, and M. Eens, The use of genetic tools for the evaluation of a potential migration barrier for the bullhead, J. Fish Biol., 64 (2004), pp. 1737–1744.
[198]L. L. Knowles, The burgeoning field of statistical phylogeography, J. Evolutionary Biol., 17 (2004), pp. 1–10.
[199]L. L. Knowles, B. C. Carstens, and M. L. Keat, Coupling genetic and ecological-niche models to examine how past population distributions contribute to divergence, Current Biol., 17 (2007), pp. 940–946.
[200]L. L. Knowles and W. P. Maddison, Statistical phylogeography, Mol. Ecology, 11 (2002), pp. 2623–2635.
[201]M. Kochzius and D. Blohm, Genetic population structure of the lionfish Pterois miles (Scorpaenidae, Pteroinae) in the Gulf of Aqaba and northern Red sea, Gene, 347 (2005), pp. 295–301.
[202]T. Konishi and O. Ohnishi, Close genetic relationship between cultivated and natural populations of common buckwheat in the Sanjiang area is not due to recent gene flow between them - An analysis using microsatellite markers, Genes & Genetic Systems, 82 (2007), pp. 53–64.
[203]M. E. Koopman, G. D. Hayward, and D. B. McDonald, High connectivity and minimal genetic structure among North American boreal owl (Aegolius funereus) populations, regardless of habitat matrix, Auk, 124 (2007), pp. 690–704.
[204]M. Kovacevic and S. W. Schaeffer, Molecular population genetics of X-linked genes in Drosophila pseudoobscura, Genetics, 156 (2000), pp. 155–172.
[205]M. Kreitman, Methods to detect selection in populations with applications to the human, Ann. Rev. Genomics Human Genetics, 1 (2000), pp. 539–559.
[206]U. Kryger, T. J. Robinson, and P. Bloomer, Population structure and history of southern African scrub hares, Lepus saxatilis, J. Zoology, 263 (2004), pp. 121–133.
[207]M. K. Kuhner, Lamarc 2.0: maximum likelihood and Bayesian estimation of population parameters, Bioinformatics, 22 (2006), pp. 768–770.
[208]M. K. Kuhner and L. P. Smith, Comparing likelihood and Bayesian coalescent estimation of population parameters, Genetics, 175 (2007), pp. 155–165.
[209]M. K. Kuhner, J. Yamato, and J. Felsenstein, Maximum likelihood estimation of recombination rates from population data, Genetics, 156 (2000), pp. 1393–1401.
[210]I. V. Kulikova, Y. N. Zhuravlev, and K. G. McCracken, Asymmetric hybridization and sex-biased gene flow between Eastern Spot-billed Ducks (Anas zonorhyncha) and Mallards (A-platyrhynchos) in the Russian Far east, Auk, 121 (2004), pp. 930–949.
[211]L. Kvist, J. Broggi, J. C. Illera, and K. Koivula, Colonisation and diversification of the blue tits (Parus caeruleus teneriffae-group) in the Canary islands, Mol. Phylogenetics Evolution, 34 (2005), pp. 501–511.
[212]L. Kvist, J. Martens, A. Ahola, and M. Orell, Phylogeography of a Palaearctic sedentary passerine, the willow tit (Parus montanus), J. Evolutionary Biol., 14 (2001), pp. 930–941.
[213]A. Lawton-Rauh, R. H. Robichaux, and M. D. Purugganan, Diversity and divergence patterns in regulatory genes suggest differential gene flow in recently derived species of the Hawaiian silversword alliance adaptive radiation (asteraceae), Mol. Ecology, 16 (2007), pp. 3995–4013.
[214]P. Leberg, Genetic approaches for estimating the effective size of populations, J. Wildlife Management, 69 (2005), pp. 1385–1399.
[215]T. Lee and D. O. Foighil, Placing the Floridian marine genetic disjunction into a regional evolutionary context using the scorched mussel, Brachidontes exustus, species complex, Evolution, 59 (2005), pp. 2139–2158.
[216]C. Lejeusne and P. Chevaldonne, Brooding crustaceans in a highly fragmented habitat: the genetic structure of Mediterranean marine cave-dwelling mysid populations, Mol. Ecology, 15 (2006), pp. 4123–4140.
[217]S. C. Leman, Y. G. Chen, J. E. Stajich, M. A. F. Noor, and M. K. Uyenoyama, Likelihoods from summary statistics: Recent divergence between species, Genetics, 171 (2005), pp. 1419–1436.
[218]P. Lemey, O. G. Pybus, A. Rambaut, A. J. Drummond, D. L. Robertson, P. Roques, M. Worobey, and A. M. Vandamme, The molecular population genetics of HIV-1 group o, Genetics, 167 (2004), pp. 1059–1068.
[219]P. Lemey, A. Rambaut, and O. G. Pybus, Hiv evolutionary dynamics within and among hosts, Aids Rev., 8 (2006), pp. 125–140.
[220]E. M. Lemmon, A. R. Lemmon, and D. C. Cannatella, Geological and climatic forces driving speciation in the continentally distributed trilling chorus frogs (pseudacris), Evolution, 61 (2007), pp. 2086–2103.
[221]C. Lexer, M. F. Fay, J. A. Joseph, M. S. Nica, and B. Heinze, Barrier to gene flow between two ecologically divergent Populus species, P alba (white poplar) and P tremula (European aspen): the role of ecology and life history in gene introgression, Mol. Ecology, 14 (2005), pp. 1045–1057.
[222]Y. Liu, D. C. Nickle, D. Shriner, M. A. Jensen, G. H. Learn, J. E. Mittler, and J. I. Mullins, Molecular clock-like evolution of human immunodeficiency virus type 1, Virology, 329 (2004), pp. 101–108.
[223]T. Liukkonen-Anttila, L. Uimaniemi, M. Orell, and J. Lumme, Mitochondrial DNA variation and the phylogeography of the grey partridge (Perdix perdix) in Europe: from Pleistocene history to present day populations, J. Evolutionary Biol., 15 (2002), pp. 971–982.
[224]I. F. Lopes, R. A. de Brito, F. Henrique-Silva, and S. N. D. Lama, Demographic history of wood stork (Mycteria americana) Brazilian Pantanal colonies revealed by mitochondrial DNA analysis, Genetics Mol. Biol., 29 (2006), pp. 241–250.
[225]P. C. Luttikhuizen, J. Drent, and A. J. Baker, Disjunct distribution of highly diverged mitochondrial lineage clade and population subdivision in a marine bivalve with pelagic larval dispersal, Mol. Ecology, 12 (2003), pp. 2215–2229.
[226]C. W. Luzier and R. R. Wilson, Analysis of mtDNA haplotypes of kelp bass tests for sibling-dominated recruitment near marine protected areas of the California Channel islands, Marine Ecology-progress Series, 277 (2004), pp. 221–230.
[227]C. A. Machado, R. M. Kliman, J. A. Markert, and J. Hey, Inferring the history of speciation from multilocus DNA sequence data: The case of Drosophila pseudoobscura and close relatives, Mol. Biol. Evolution, 19 (2002), pp. 472–488.
[228]M. K. Manier and S. J. Arnold, Population genetic analysis identifies source-sink dynamics for two sympatric garter snake species (Thamnophis elegans and Thamnophis sirtalis), Mol. Ecology, 14 (2005), pp. 3965–3976.
[229]height 2pt depth -1.6pt width 23pt, Ecological correlates of population genetic structure: a comparative approach using a vertebrate metacommunity, Proc. Royal Soc. B-biological Sciences, 273 (2006), pp. 3001–3009.
[230]J. Marchini, D. Cutler, N. Patterson, M. Stephens, E. Eskin, E. Halperin, S. Lin, Z. S. Qin, H. M. Munro, G. R. Abecasis, and P. Donnelly, A comparison of phasing algorithms for trios and unrelated individuals, Am. J. Human Genetics, 78 (2006), pp. 437–450.
[231]P. Marjoram and S. Tavare, Modern computational approaches for analysing molecular genetic variation data, Nature Rev. Genetics, 7 (2006), pp. 759–770.
[232]P. B. Marko and K. R. Barr, Basin-scale patterns of mtDNA differentiation and gene flow in the bay scallop Argopecten irradians concentricus, Marine Ecology-progress Series, 349 (2007), pp. 139–150.
[233]D. M. Marsh, R. B. Page, T. J. Hanlon, H. Bareke, R. Corritone, N. Jetter, N. G. Beckman, K. Gardner, D. E. Seifert, and P. R. Cabe, Ecological and genetic evidence that low-order streams inhibit dispersal by red-backed salamanders (Plethodon cinereus), Canadian J. Zoology-revue Canadienne De Zoologie, 85 (2007), pp. 319–327.
[234]H. D. Marshall and K. Ritland, Genetic diversity and differentiation of Kermode bear populations, Mol. Ecology, 11 (2002), pp. 685–697.
[235]P. Martinez, E. G. Gonzalez, R. Castilho, and R. Zardoya, Genetic diversity and historical demography of Atlantic bigeye tuna (Thunnus obesus), Mol. Phylogenetics Evolution, 39 (2006), pp. 404–416.
[236]E. P. Martins and E. A. Housworth, Phylogeny shape and the phylogenetic comparative method, Systematic Biol., 51 (2002), pp. 873–880.
[237]C. W. Matson, M. M. Lambert, T. J. McDonald, R. L. Autenrieth, K. C. Donnelly, A. Islamzadeh, D. I. Politov, and J. W. Bickham, Evolutionary toxicology: Population-level effects of chronic contaminant exposure on the marsh frogs (Rana ridibunda) of azerbaijan, Environmental Health Perspectives, 114 (2006), pp. 547–552.
[238]S. F. McDaniel and A. J. Shaw, Phylogeographic structure and cryptic speciation in the trans-antarctic moss Pyrrhobryum minoides, Evolution, 57 (2003), pp. 205–215.
[239]D. B. McDonald, Microsatellite DNA evidence for gene flow in neotropical lek-mating long-tailed manakins, Condor, 105 (2003), pp. 580–586.
[240]J. K. McKay, C. E. Christian, S. Harrison, and K. J. Rice, "how local is local? " - A review of practical and conceptual issues in the genetics of restoration, Restoration Ecology, 13 (2005), pp. 432–440.
[241]B. H. McRae, Isolation by resistance, Evolution, 60 (2006), pp. 1551–1561.
[242]M. Melo and C. O’Ryan, Genetic differentiation between Principe Island and mainland populations of the grey parrot (Psittacus erithacus), and implications for conservation, Mol. Ecology, 16 (2007), pp. 1673–1685.
[243]P. Michalak, I. Minkov, A. Helin, D. N. Lerman, B. R. Bettencourt, M. E. Feder, A. B. Korol, and E. Nevo, Genetic evidence for adaptation-driven incipient speciation of Drosophila melanogaster along a microclimatic contrast in "Evolution Canyon," israel, Proc. National Acad. Sciences United States Am., 98 (2001), pp. 13195–13200.
[244]D. G. Miller and B. Crespi, The evolution of inquilinism, host-plant use and mitochondrial substitution rates in Tamalia gall aphids, J. Evolutionary Biol., 16 (2003), pp. 731–743.
[245]E. Milot, H. L. Gibbs, and K. A. Hobson, Phylogeography and genetic structure of northern populations of the yellow warbler (Dendroica petechia), Mol. Ecology, 9 (2000), pp. 667–681.
[246]T. Mitchell-Olds, Arabidopsis thaliana and its wild relatives: a model system for ecology and evolution, Trends In Ecology & Evolution, 16 (2001), pp. 693–700.
[247]G. I. Miura and S. V. Edwards, Cryptic differentiation and geographic variation in genetic diversity of Hall’s Babbler Pomatostomus halli, J. Avian Biol., 32 (2001), pp. 102–110.
[248]D. A. Moeller, M. I. Tenaillon, and P. Tiffin, Population structure and its effects on patterns of nucleotide polymorphism in teosinte (Zea mays ssp parviglumis), Genetics, 176 (2007), pp. 1799–1809.
[249]M. Mohle, Ancestral processes in population genetics - the coalescent, J. Theoretical Biol., 204 (2000), pp. 629–638.
[250]M. Mohle and S. Sagitov, Coalescent patterns in diploid exchangeable population models, J. Math. Biol., 47 (2003), pp. 337–352.
[251]K. J. Monsen and M. S. Blouin, Extreme isolation by distance in a montane frog Rana cascadae, Conservation Genetics, 5 (2004), pp. 827–835.
[252]J. S. Moore, J. L. Gow, E. B. Taylor, and A. P. Hendry, Quantifying the constraining influence of gene flow on adaptive divergence in the lake-stream threespine stickleback system, Evolution, 61 (2007), pp. 2015–2026.
[253]P. Moran, Current conservation genetics: building an ecological approach to the synthesis of molecular and quantitative genetic methods, Ecology Freshwater Fish, 11 (2002), pp. 30–55.
[254]B. Morar, D. Gresham, D. Angelicheva, I. Tournev, R. Gooding, V. Guergueltcheva, C. Schmidt, A. Abicht, H. Lochmuller, A. Tordai, L. Kalmar, M. Nagy, V. Karcagi, M. Jeanpierre, A. Herczegfalvi, D. Beeson, V. Venkataraman, K. W. Carter, J. Reeve, R. de Pablo, V. Kucinskas, and L. Kalaydjieva, Mutation history of the roma/gypsies, Am. J. Human Genetics, 75 (2004), pp. 596–609.
[255]P. L. Morrell, K. E. Lundy, and M. T. Clegg, Distinct geographic patterns of genetic diversity are maintained in wild barley (Hordeum vulgare ssp spontaneum) despite migration, Proc. National Acad. Sciences United States Am., 100 (2003), pp. 10812–10817.
[256]O. Moya, H. G. Contreras-Diaz, P. Oromi, and C. Juan, Genetic structure, phylogeography and demography of two ground-beetle species endemic to the Tenerife laurel forest (Canary islands), Mol. Ecology, 13 (2004), pp. 3153–3167.
[257]G. R. Moyer, K. O. Winemiller, M. V. McPhee, and T. F. Turner, Historical demography, selection, and coalescence of mitochondrial and nuclear genes in Prochilodus species of northern South america, Evolution, 59 (2005), pp. 599–610.
[258]J. B. Mu, D. A. Joy, J. H. Duan, Y. M. Huang, J. Carlton, J. Walker, J. Barnwell, P. Beerli, M. A. Charleston, O. G. Pybus, and X. Z. Su, Host switch leads to emergence of Plasmodium vivax malaria in humans, Mol. Biol. Evolution, 22 (2005), pp. 1686–1693.
[259]R. Muniz-Salazar, S. L. Talbot, G. K. Sage, D. H. Ward, and A. Cabello-Pasini, Population genetic structure of annual and perennial populations of Zostera marina L. along the Pacific coast of Baja California and the Gulf of california, Mol. Ecology, 14 (2005), pp. 711–722.
[260]height 2pt depth -1.6pt width 23pt, Genetic structure of eelgrass Zostera marina meadows in an embayment with restricted water flow, Marine Ecology-progress Series, 309 (2006), pp. 107–116.
[261]C. Murat, J. Diez, P. Luis, C. Delaruelle, C. Dupre, G. Chevalier, P. Bonfante, and F. Martin, Polymorphism at the ribosomal DNA ITS and its relation to postglacial re-colonization routes of the Perigord truffle Tuber melanosporum, New Phytologist, 164 (2004), pp. 401–411.
[262]D. Muths, D. Davoult, F. Gentil, and D. Jollivet, Incomplete cryptic speciation between intertidal and subtidal morphs of Acrocnida brachiata (Echinodermata : Ophiuroidea) in the Northeast atlantic, Mol. Ecology, 15 (2006), pp. 3303–3318.
[263]N. Nagata, K. Kubota, K. Yahiro, and T. Sota, Mechanical barriers to introgressive hybridization revealed by mitochondrial introgression patterns in Ohomopterus ground beetle assemblages, Mol. Ecology, 16 (2007), pp. 4822–4836.
[264]R. Nathan, G. Perry, J. T. Cronin, A. E. Strand, and M. L. Cain, Methods for estimating long-distance dispersal, Oikos, 103 (2003), pp. 261–273.
[265]A. Natoli, A. Birkun, A. Aguilar, A. Lopez, and A. R. Hoelzel, Habitat structure and the dispersal of male and female bottlenose dolphins (Tursiops truncatus), Proc. Royal Soc. B-biological Sciences, 272 (2005), pp. 1217–1226.
[266]A. Natoli, A. Canadas, V. M. Peddemors, A. Aguilar, C. Vaquero, P. Fernandez-Piqueras, and A. R. Hoelzel, Phylogeography and alpha taxonomy of the common dolphin (Delphinus sp.), J. Evolutionary Biol., 19 (2006), pp. 943–954.
[267]J. E. Neigel, Is F-ST obsolete? , Conservation Genetics, 3 (2002), pp. 167–173.
[268]H. M. Neville, J. B. Dunham, and M. M. Peacock, Landscape attributes and life history variability shape genetic structure of trout populations in a stream network, Landscape Ecology, 21 (2006), pp. 901–916.
[269]C. Nichols, J. Herman, O. E. Gaggiotti, K. M. Dobney, K. Parsons, and A. R. Hoelzel, Genetic isolation of a now extinct population of bottlenose dolphins (Tursiops truncatus), Proc. Royal Soc. B-biological Sciences, 274 (2007), pp. 1611–1616.
[270]R. A. Nichols and K. L. M. Freeman, Using molecular markers with high mutation rates to obtain estimates of relative population size and to distinguish the effects of gene flow and mutation: a demonstration using data from endemic Mauritian skinks, Mol. Ecology, 13 (2004), pp. 775–787.
[271]D. C. Nickle, M. A. Jensen, D. Shriner, S. J. Brodie, L. M. Frenkel, J. E. Mittler, and J. I. Mullins, Evolutionary indicators of human immunodeficiency virus type 1 reservoirs and compartments, J. Virology, 77 (2003), pp. 5540–5546.
[272]E. E. Nielsen, M. M. Hansen, and D. Meldrup, Evidence of microsatellite hitch-hiking selection in Atlantic cod (Gadus morhua L.): implications for inferring population structure in nonmodel organisms, Mol. Ecology, 15 (2006), pp. 3219–3229.
[273]R. Nielsen, Mutations as missing data: Inferences on the ages and distributions of nonsynonymous and synonymous mutations, Genetics, 159 (2001), pp. 401–411.
[274]height 2pt depth -1.6pt width 23pt, Peopling the americas, European J. Human Genetics, 13 (2005), pp. 1100–1101.
[275]R. Nielsen and M. Slatkin, Likelihood analysis of ongoing gene flow and historical association, Evolution, 54 (2000), pp. 44–50.
[276]P. Nosil and B. J. Crespi, Does gene flow constrain adaptive divergence or vice versa? A test using ecomorphology and sexual isolation in Timema cristinae walking-sticks, Evolution, 58 (2004), pp. 102–112.
[277]P. Nosil, B. J. Crespi, and C. P. Sandoval, Reproductive isolation driven by the combined effects of ecological adaptation and reinforcement, Proc. Royal Soc. London Series B-biological Sciences, 270 (2003), pp. 1911–1918.
[278]P. Nosil, C. P. Sandoval, and B. J. Crespi, The evolution of host preference in allopatric vs. parapatric populations of Timema cristinae walking-sticks, J. Evolutionary Biol., 19 (2006), pp. 929–942.
[279]S. L. Nuismer, Parasite local adaptation in a geographic mosaic, Evolution, 60 (2006), pp. 24–30.
[280]T. Okuyama and B. M. Bolker, Combining genetic and ecological data to estimate sea turtle origins, Ecological Applications, 15 (2005), pp. 315–325.
[281]M. V. Osier, K. H. Cheung, J. R. Kidd, A. J. Pakstis, P. L. Miller, and K. K. Kidd, Alfred: An allele frequency database for anthropology, Am. J. Phys. Anthropology, 119 (2002), pp. 77–83.
[282]N. J. Ouborg, Y. Piquot, and J. M. V. Groenendael, Population genetics, molecular markers and the study of dispersal in plants, J. Ecology, 87 (1999), pp. 551–568.
[283]S. J. Oyler-McCance, J. S. John, F. L. Knopf, and T. W. Quinn, Population genetic analysis of Mountain Plover using mitochondrial DNA sequence data, Condor, 107 (2005), pp. 353–362.
[284]M. Packert, C. Dietzen, J. Martens, M. Wink, and L. Kvist, Radiation of Atlantic goldcrests Regulus regulus spp.: evidence of a new taxon from the Canary islands, J. Avian Biol., 37 (2006), pp. 364–380.
[285]S. Palsson, Microsatellite variation in Daphnia pulex from both sides of the Baltic sea, Mol. Ecology, 9 (2000), pp. 1075–1088.
[286]F. P. Palstra, M. F. O’Connell, and D. E. Ruzzante, Population structure and gene flow reversals in Atlantic salmon (Salmo salar) over contemporary and long-term temporal scales: effects of population size and life history