Fine-scale analysis reveals cryptic patterns of genetic structure in canada geese

Condor

Volumn 115, Issue 4, 2013, Pages 738-749

  Finnegan, Laura ^a   Castillo, Sarrah ^a   Hughes, Jack ^b   Abraham, Ken F ^c   Brook, Rodney W ^c   Kyle, Christopher J ^a  

^a TRENT UNIVERSITY   (Canada)

^b ENVIRONMENT CANADA   (Canada)

^c ONTARIO MINISTRY OF NATURAL RESOURCES   (Canada)

Author keywords

Branta canadensis; Microsatellite DNA; Migration; MtDNA; Subarctic; Temperate; Wildlife management

Indexed keywords

EID: 84890494272     PISSN: 00105422     EISSN: None     Source Type: Journal    
DOI: 10.1525/cond.2013.120117     Document Type: Article

References (62)

1. All endorf, F. W., and S. R. Phelps. 1981. Use of allelic frequencies to describe population structure. Canadian Journal of Fisheries and Aquatic Sciences 38:1507-1514
2. Ankney, C. 1996. An embarrassment of riches: Too many geese. Journal of Wildlife Management 60:217-223
3. Ball, M. C., L. Finnegan, M. Manseau, and P. Wils on. 2010. Integrating multiple analytical approaches to spatially delineate and characterize genetic population structure: an application to boreal caribou (Rangifer tarandus caribou) in central Canada. Conservation Genetics 11:2131-2143
4. Banks, R., C. Cicero, J. Dunn, A. Kratter, P. Rasmuss en, J. V. Remsen, J. D. Rising, and D. Stotz. 2004. Forty-fifth supplement to the American Ornithologists Union Check-list of North American Birds. Auk 121:985-995
5. Boulet, M., S. Couturier, S. D. Côté, R. D. Otto, and L. Bernatchez. 2007. Integrative use of spatial, genetic, and demographic analyses for investigating genetic connectivity between migratory, montane, and sedentary caribou herds. Molecular Ecology 16:4223-4240
6. Buchholz, W., J. Pearce, B. Pierson, and K. Scribner. 1998. Dinucleotide repeat polymorphisms in waterfowl (family Anatidae): Characterization of a sex-linked (Z-specific) and 14 autosomal loci. Animal Genetics 29:322-332
7. Canadian Wildlife Service Waterfowl Committee [online]. 2011. Population status of migratory game birds in Canada: November 2011. CWS Migratory Birds Regulatory Report 34. http://www.ec.gc.ca/Publications/D391EA88-53B4-4C8F-B0E1- DB0DEBB6534D/PopulationStatusMigratory-BirdsInCanadaNov2011.pdf (13 January 2013)
8. Cathey, J. 1998. Microsatellite markers in Canada Geese (Branta canadensis). Journal of Heredity 89:173-175
9. Chao, A., and T. Shen [online]. 2010. Program Spade (Species Predicition and Diversity Estimation). Program and user's guide. (14 May 2011)
10. Chen, C., E. Durand, F. Forbes, and O. François. 2007. Bayesian clustering algorithms ascertaining spatial population structure: A new computer program and a comparison study. Molecular Ecology Notes 7:747-756
11. Conover, M. 1985. Alleviating nuisance Canada Goose problems through methiocarb-induced aversive conditioning. Journal of Wildlife Management 49:631-636
12. Crawf ord, N. 2010. SMOGD : Software for the measurement of genetic diversity. Molecular Ecology Resources 10:556-557
13. Delacour, J. 1954.Waterfowl of the world. Country Life, London
14. Dennis, D. G., N. R. North, and H. G. Lumsden. 2000. Range expansion and population growth of Giant Canada Geese in southern Ontario: benefits, drawbacks and management techniques, p. 159-165. In K. M. Dickson [ed.], Towards conservation of the diversity of Canada Geese (Branta canadensis). Canadian Wildlife Service Occasional Paper 103
15. Dupanloup, I., S. Schneider, and L. Excoff ier. 2002. A simulated annealing approach to define the genetic structure of populations. Molecular Ecology 11:2571-2581
16. Evanno, G., S. Regnaut, and J. Goudet. 2005. Detecting the number of clusters of individuals using the software Structure: A simulation study. Molecular Ecology 14:2611-2620
17. Excoffier, L., and H. Lischer. 2010. Arelquin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources 10:564-567
18. Falush, D., M. Stephens, and J. Pritchard. 2003. Inference of population structure using multilocus genotype data: Linked loci and correlated allele frequencies. Genetics 164:1567-1587
19. Finnegan, L. A., P. J. Wils on, G. N. Price, S. J. Lowe, B. R. Patterson, M.-J. Fortin, and D. L. Murray. 2012. The complementary role of genetic and ecological data in understanding population structure: A case study using moose. European Journal of Wildlife Research 58:415-423
20. François, O., S. Ancelet, and G. Guill ot. 2006. Bayesian clustering using hidden Markov random fields in spatial population genetics. Genetics 174:805-816
21. Fu, Y.-X. 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Human Genetics 147:915-925
22. Guill ot, G. 2008. Inference of structure in subdivided populations at low levels of genetic differentiation. The correlated allele frequencies model revisited. Bioinformatics 24:2222-2228
23. Guillot, G., A. Estoup, F. Mortier, and J. F. Cosson. 2005a. A spatial statistical model for landscape genetics. Genetics 170:1261-1280
24. Guillot, G., F. Mortier, and A. Estoup. 2005b. Geneland: A computer package for landscape genetics. Molecular Ecology Notes 5:712-715
25. Guillot, G., F. Santos, and A. Estoup. 2008. Analysing georeferenced population genetics data with Geneland: A new algorithm to deal with null alleles and a friendly graphical user interface. Bioinformatics 24:1406-1407
26. Guill ot, G., F. Santos, and A. Estoup [online]. 2012. Population genetics analysis using R and the Geneland program. 14 April 2012)
27. Goudet, J. 1995. Fstat (version 1.2): a computer program to calculate F-statistics. Journal of Heredity 86:485-486
28. Green, D. M. 2005. Designatable units for status assessment of endangered species. Conservation Biology 19:1813-1820
29. Greenwood, P. J., and P. H. Harvey. 1982. Mating systems, philopatry and dispersal in birds and mammals. Annual Review of Ecology and Systematics 13:1-21
30. Hanson, H. 1965. The Giant Canada goose. Southern Illinois University Press, Carbondale, IL
31. Jost, L. 2008. Gst and its relatives do not measure differentiation. Molecular Ecology 17:4015-4026
32. Koen, E. L., J. Bowman, C. J. Garroway, S. C. Mills, and P. J. Wilson. 2012. Landscape resistance and American marten gene flow. Landscape Ecology 27:29-43
33. Landguth, E. L., S. A. Cushman, M. K. Schwartz, K. S. McKelvey, M. Murphy, and G. Luikart. 2010. Quantifying the lag time to detect barriers in landscape genetics. Molecular Ecology 19:4179-4191
34. Leafl oor, J. 1998. Philopatry, geographic variation in body size, and genetic structure of Canada Geese. Ph. D. dissertation, University of Wisconsin, Madison, WI
35. Lecomte, N., G. Gauthier, J.-F. Giroux, E. Milot, and L. Bernatchez. 2009. Tug of war between continental gene flow and rearing site philopatry in a migratory bird: The sex-biased dispersal paradigm reconsidered. Molecular Ecology 18:593-602
36. Lynch, M., and K. Ritland. 1999. Estimation of pairwise relatedness with molecular markers. Genetics 152:1753-1766
37. McCracken, G., M. McCracken, and A. Vawter. 1994. Genetic structure in migratory populations of the bat Tadarida brasilensis mexicana. Journal of Mammalogy 75:500-510
38. Merendino, M. T., C. D. Ankney, D. G. Dennis, and J. O. Leafl oor. 1994. Morphometric discrimination of Giant and Akimiski Island Canada Geese. Wildlife Society Bulletin 22:14-19
39. Mill er-Butterworth, C. M., D. S. Jacobs, and E. H. Harley. 2003. Strong population substructure is correlated with morphology and ecology in a migratory bat. Nature 4300:187-191
40. Mylecraine, K., H. Gibbs, C. Anderson, and M. Shieldcastle. 2008. Using 2 genetic markers to discriminate among Canada Goose populations in Ohio. Journal of Wildlife Management 72:1220-1230
41. Peakall, R., and P. Smouse. 2006. Genalex 6: Genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes 6:288-295
42. Posada, D., and K. A. Crandall . 1998. Modeltest: Testing the model of DNA substitution. Bioinformatics 14:817-818
43. Pritchard, J., M. Stephens, and P. Donnell y. 2000. Inference of population genetic structure using multilocus genotype data. Genetics 155:945-959
44. Purcell, F. H., R. K. Cowen, C. R. Hughes, and D. A. Will iams. 2006. Weak genetic structure indicates strong dispersal limits: A tale of two coral reef fish. Proceedings of the Royal Society B 273:1483-1490
45. Raveling, D. 1979. Traditional use of migration and winter roost sites by Canada Geese. Journal of Wildlife Management 43:229-235
46. Reudink, M. W., C. J. Kyle, J. J. Nocera, R. A. Oomen, M. C. Green, and C. M. Somers. 2011. Panmixia on a continental scale in a widely distributed colonial waterbird. Biological Journal of the Linnean Society 102:583-592
47. Riley, S. P. D., J. P. Poll inger, R. M. Sauvajot, E. C. York, C. Bromley, T. K. Full er, and R. K. Wayne. 2006. A southern California freeway is a physical and social barrier to gene flow in carnivores. Molecular Ecology 15:1733-41
48. Ronquist, F., and J. Huels enbeck. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574
49. Scribner, K., S. Talbot, and J. Pearce. 2003a. Phylogeography of Canada Geese (Branta canadensis) in western North America. Auk 120:889-907
50. Scribner, K. T., R. A. Malecki, B. D. J. Batt, R. L. Inman, S. Libants, and H. Prince. 2003b. Identification of source population for Greenland Canada Geese: Genetic assessment of a recent colonization. Condor 105:771-782
51. Scribner, K., J. Warrill ow, J. Leafl oor, H. Prince, R. Inman, D. Luukkonen, and C. Flegel. 2003c. Genetic methods for determining racial composition of Canada Goose harvests. Journal of Wildlife Management 67:122-135
52. Serrouya, R., D. Paetkau, B. N. McLell an, S. Boutin, M. Campbell, and D. A Jenkins. 2012. Population size and major valleys explain microsatellite variation better than taxonomic units for caribou in western Canada. Molecular Ecology 21:2588-2601
53. Smouse, P. E., and R. Peakall . 1999. Spatial autocorrelation analysis of individual multiallele and multiclocus genetic structure. Heredity 82:561-573
54. Smouse, P. E., R. Peakall, and E. Gonzales. 2008. A heterogeneity test for fine-scale genetic structure. Molecular Ecology 17:3389-3400
55. Tamura, K., D. Peterson, N. Peterson, G. Stecher, M. Nei, and S. Kumar. 2011. Mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Molecular Biology and Evolution 28:2731-2739
56. Teacher, A. G. F., and D. J. Griff iths. 2011. HapStar: Automated haplotype network layout and visualisation. Molecular Ecology Resources 11:151-153
57. Thompson, J., and M. Hill . 1999. Improving use of morphometric discrimination to identify Canada Goose subspecies. Wildlife Society Bulletin 27:274-280
58. U.S. Fish and Wildlife Service [online]. 2005. Final environmental impact statement, resident Canada Goose management. U.S. Fish and Wildlife Service, Washington, D.C. (20 May 2011)
59. Webster, M. S., P. P. Marra, S. M. Haig, S. Bensc h, and R. T. Holmes. 2002. Links between worlds: Unraveling migratory connectivity. Trends in Ecology & Evolution 17:76-83
60. Weir, B., and C. Cockerham. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38:1358-1370
61. Wickham, H. 2009. Ggplot2: Elegant graphics for data analysis. Springer, New York
62. Zenner, G., J. Levengood, B. Will iamson, R. Marshall a, J. Johnson, T. Landwehr, D. Graber, G. Tori, K. Abraham, E. Warr, B. Wheeler, B. Montgomery, M. McGraw, and D. Rusch [online]. 1996. Mississippi Flyway Giant Canada Goose management plan. (20 May 2011)