A statistical procedure to assess the significance level of barriers to gene flow

Sébastien Rioux Paquette^{a
, ,},
François-Joseph Lapointe^b

a.
Allan Wilson Centre for Molecular Ecology & School of Biological Sciences, Victoria University of Wellington, PO Box 600 Wellington 6140, New Zealand
b.
Département de Sciences Biologiques, Université de Montréal, C.P. 6128 Succursale Centre-ville, Montréal, Québec, H3C 3J7, Canada

More Information

Corresponding author: E-mail address: sebastien.riouxpaquette@vuw.ac.nz (Sébastien Rioux Paquette)

摘要

- /
- /
- /
- /
Abstract: Although several methods are available to study the extent of isolation by distance (IBD) among natural populations, comparatively few exist to detect the presence of sharp genetic breaks in genetic distance datasets. In recent years, Monmonier's maximum-difference algorithm has been increasingly used by population geneticists. However, this method does not provide means to measure the statistical significance of such barriers, nor to determine their relative contribution to population differentiation with respect to IBD. Here, we propose an approach to assess the significance of genetic boundaries. The method is based on the calculation of a multiple regression from distance matrices, where binary matrices represent putative genetic barriers to test, in addition to geographic and genetic distances. Simulation results suggest that this method reliably detects the presence of genetic barriers, even in situations where IBD is also significant. We also illustrate the methodology by analyzing previously published datasets. Conclusions about the importance of genetic barriers can be misleading if one does not take into consideration their relative contribution to the overall genetic structure of species.
- genetic barriers /
- genetic distances /
- isolation by distance /
- multiple regression on distance matrices /
- partial regression coefficients

HTML全文

参考文献(34)

[1]	Balloux, F. EASYPOP (version 1.7): A computer program for population genetics simulations J. Hered., 92 (2001),pp. 301-302
[2]	Barbujani, G., Belle, E.M.S. Genomic boundaries between human populations Hum. Hered., 61 (2006),pp. 15-21
[3]	Bekkevold, D., André, C., Dahlgren, T.G. et al. Environmental correlates of population differentiation in Atlantic herring Evolution, 59 (2005),pp. 2656-2668
[4]	Bohonak, A.J. IBD (Isolation By Distance): A program for analyses of isolation by distance J. Hered., 93 (2002),pp. 153-154
[5]	Bond, J.M., Daniels, R., Bioret, F. Ecography, 28 (2005),pp. 374-384
[6]	Brassel, K.E., Reif, D. A procedure to generate Thiessen polygons Geogr. Anal., 325 (1979),pp. 31-36
[7]	Gagnon, M.-C., Angers, B. The determinant role of temporary proglacial drainages on the genetic structure of fishes Mol. Ecol., 15 (2006),pp. 1051-1065
[8]	Godbout, J., Jaramillo-Correa, J.P., Beaulieu, J. et al. Mol. Ecol., 14 (2005),pp. 3497-3512
[9]	Jensen, J.L., Bohonak, A.J., Kelley, S.T. Isolation by distance, web service BMC Genet., 6 (2005),p. 13
[10]	Jorgensen, H.B.H., Hansen, M.M., Bekkevold, D. et al. Mol. Ecol., 14 (2005),pp. 3219-3234
[11]	Koscinski, D., Yates, A.G., Handford, P. et al. Effects of landscape and history on diversification of a montane, stream-breeding amphibian J. Biogeogr., 36 (2009),pp. 255-265
[12]	Latch, E.K., Scognamillo, D.G., Fike, J.A. et al. J. Hered., 99 (2008),pp. 265-274
[13]	Legendre, P., Lapointe, F.-J., Casgrain, P. Modeling brain evolution from behavior: A permutational regression approach Evolution, 48 (1994),pp. 1487-1499
[14]	Lichstein, J. Multiple regression on distance matrices: A multivariate spatial analysis tool Plant Ecol., 188 (2007),pp. 117-131
[15]	Lu, Z., Wang, Y., Peng, Y. et al. Plant Sci., 170 (2006),pp. 407-412
[16]	MacNally, R. Regression and model-building in conservation biology, biogeography, and ecology: The distinction between – and reconciliation of – predictive and explanatory models Biodiversity Conserv., 9 (2000),pp. 655-671
[17]	Manly, B.F.J.
[18]	Manni, F., Guérard, E., Heyer, E. Geographic patterns of (genetic, morphologic, linguistic) variation: How barriers can be detected by “Monmonier's algorithm” Hum. Biol., 76 (2004),pp. 173-190
[19]	Mantel, N. The detection of disease clustering and a generalized regression approach Cancer Res., 27 (1967),pp. 209-220
[20]	Menchari, Y., Camilleri, C., Michel, S. et al. New Phytol., 171 (2006),pp. 861-874
[21]	Mockford, S.W., Herman, T.B., Snyder, M. et al. Conservation genetics of Blanding's turtle and its application in the identification of evolutionarily significant units Conserv. Genet., 8 (2007),pp. 209-219
[22]	Monmonier, M. Maximum-difference barriers: An alternative numerical regionalization method Geogr. Anal., 3 (1973),pp. 245-261
[23]	Nakamura, K., Suwa, R., Denda, T. et al. Geohistorical and current environmental influences on floristic differentiation in the Ryukyu Archipelago, Japan J. Biogeogr., 36 (2009),pp. 919-928
[24]	Nicholls, J.A., Austin, J.J., Moritz, C. et al. Evolution, 60 (2006),pp. 1279-1290
[25]	Raymond, M., Rousset, F. GENEPOP (version 1.2): Population genetics software for exact test and ecumenism J. Hered., 86 (1995),pp. 248-249
[26]	Reynolds, C.E., Houle, G. Plant Ecol., 164 (2002),pp. 19-27
[27]	Rioux Paquette, S., Behncke, S.M., O'Brien, S.H. et al. Conserv. Genet., 8 (2007),pp. 797-807
[28]	Rousset, F. Genetics, 145 (1997),pp. 1219-1228
[29]	Slatkin, M. Isolation by distance in equilibrium and non-equilibrium population Evolution, 47 (1993),pp. 264-279
[30]	Telles, M.P.C., Diniz-Filho, J.A.F. Multiple Mantel tests and isolation by distance, taking into account long-term historical divergence Genet. Mol. Res., 4 (2005),pp. 742-748
[31]	Vianna, J.A., Bonde, R.K., Caballero, S. et al. Phylogeography, phylogeny and hybridization in trichechid sirenians: Implications for manatee conservation Mol. Ecol., 15 (2006),pp. 433-447
[32]	Voronoi, M.G. Nouvelles applications des paramètres continus à la théorie des formes quadratiques J. Reine Angew. Math., 134 (1908),pp. 198-207
[33]	Yang, R.C. A likelihood-based approach to estimating and testing for isolation by distance Evolution, 58 (2004),pp. 1839-1845
[34]	Wright, S. Isolation by distance Genetics, 28 (1943),pp. 114-138

施引文献

资源附件(0)

访问统计

点击查看大图

计量

文章访问数: 105
HTML全文浏览量: 22
PDF下载量: 0
被引次数: 0

姓名
邮箱
手机号码
标题
留言内容
验证码

留言板

doi: 10.1016/S1673-8527(08)60161-7

计量

A statistical procedure to assess the significance level of barriers to gene flow

Corresponding author: E-mail address: sebastien.riouxpaquette@vuw.ac.nz (Sébastien Rioux Paquette)

计量

目录

留言板

doi: 10.1016/S1673-8527(08)60161-7

计量

出版历程

A statistical procedure to assess the significance level of barriers to gene flow

Corresponding author: E-mail address: sebastien.riouxpaquette@vuw.ac.nz (Sébastien Rioux Paquette)

计量

出版历程

目录