Genetic bottlenecks driven by population disconnection

Conservation Biology

Volumn 24, Issue 6, 2010, Pages 1596-1605

  Broquet, Thomas ^a   Angelone, Sonia ^b,c   Jaquiery, Julie ^a   Joly, Pierre ^d   Lena, Jean Paul ^d   Lengagne, Thierry ^d   Plenet, Sandrine ^d   Luquet, Emilien ^d   Perrin, Nicolas ^a  

^a UNIVERSITY OF LAUSANNE   (Switzerland)

^b SWISS FEDERAL RESEARCH INSTITUTE WSL   (Switzerland)

^c UNIVERSITY OF ZURICH   (Switzerland)

^d UNIVERSITÉ LYON 1   (France)

Author keywords

Allelic richness; Bottleneck; Connectivity; European tree frog; Gene diversity; Hyla arborea; Isolation

Indexed keywords

CONNECTIVITY; DEMOGRAPHY; FROG; GENETIC DRIFT; GENETIC VARIATION; HETEROZYGOSITY; ISOLATED POPULATION; MUTATION; POPULATION BOTTLENECK; POPULATION SIZE;

ANIMAL; ARTICLE; COMPUTER SIMULATION; FROGS AND TOADS; GENE FREQUENCY; GENETIC DRIFT; GENETIC VARIABILITY; GENETICS; PHYSIOLOGY; POPULATION DENSITY; POPULATION DYNAMICS;

ANIMALS; ANURA; COMPUTER SIMULATION; GENE FREQUENCY; GENETIC DRIFT; GENETIC VARIATION; POPULATION DENSITY; POPULATION DYNAMICS;

HYLA ARBOREA; HYLIDAE;

EID: 78349236158     PISSN: 08888892     EISSN: 15231739     Source Type: Journal    
DOI: 10.1111/j.1523-1739.2010.01556.x     Document Type: Article

References (55)

1. Allendorf, F. W. 1986. Genetic drift and the loss of alleles versus heterozygosity. Zoo Biology 5:181-190.
2. Andersen, L. W., K. Fog, and C. Damgaard 2004. Habitat fragmentation causes bottlenecks and inbreeding in the European tree frog (Hyla arborea). Proceedings of the Royal Society B: Biological Sciences 271:1293-1302.
3. Angelone, S., and R. Holderegger 2009. Population genetics suggests effectiveness of habitat connectivity measures for the European tree frog in Switzerland. Journal of Applied Ecology 46:879-887.
4. Arens, P., R. Bugter, W. Van't Westende, R. Zollinger, J. Stronks, C. C. Vos, and M. J. M. Smulders 2006. Microsatellite variation and population structure of a recovering tree frog (Hyla arborea L.) metapopulation. Conservation Genetics 7:825-835.
5. Arens, P., W. Van't Westende, R. Bugter, M. J. M. Smulders, and B. Vosman 2000. Microsatellite markers for the European tree frog Hyla arborea. Molecular Ecology 9:1919-1952.
6. Barrientos, R., L. Kvist, A. Barbosa, F. Valera, and G. M. López-Iborra 2009. Colonization patterns and genetic structure of peripheral populations of the trumpeter finch (Bucanetes githagineus) from Northwest Africa, the Canary Islands and the Iberian Peninsula. Journal of Biogeography 36:210-219.
7. Bates, D., M. Maechler, and B. Dai 2008. lme4: linear mixed-effects models using S4 classes. R package version 0.999375-28. Available from (accessed April 2009).
8. Beebee, T. J. C., and R. A. Griffiths 2005. The amphibian decline crisis: a watershed for conservation biology? Biological Conservation 125:271-285.
9. Berset-Brändli, L., J. Jaquiéry, T. Broquet, and N. Perrin 2008a. Extreme heterochiasmy and nascent sex chromosomes in European tree frogs. Proceedings of the Royal Society B: Biological Sciences 275:1577-1585.
10. Berset-Brändli, L., J. Jaquiéry, T. Broquet, and N. Perrin 2008b. Isolation and characterization of microsatellite loci for the European tree frog (Hyla arborea). Molecular Ecology Resources 8:1095-1097.
11. Berset-Brändli, L., J. Jaquiéry, and N. Perrin 2007. Recombination is suppressed and variability reduced in a nascent Y chromosome. Journal of Evolutionary Biology 20:1182-1188.
12. Brookfield, J. F. Y. 2001. Population bottlenecks. Current Biology 11:R1000.
13. Broquet, T., L. Berset-Braendli, G. Emaresi, and L. Fumagalli 2007. Buccal swabs allow efficient and reliable microsatellite genotyping in amphibians. Conservation Genetics 8:509-511.
14. Broquet, T., J. Jaquiéry, and N. Perrin 2009. Opportunity for sexual selection and effective population size in the lek-breeding European tree frog Hyla arborea. Evolution 63:674-683.
15. Burns, E. L., M. D. B. Eldridge, and B. A. Houlden 2004. Microsatellite variation and population structure in a declining Australian Hylid Litoria aurea. Molecular Ecology 13:1745-1757.
16. Busch, J. D., P. M. Waser, and J. A. DeWoody 2007. Recent demographic bottlenecks are not accompanied by a genetic signature in banner-tailed kangaroo rats (Dipodomys spectabilis). Molecular Ecology 16:2450-2462.
17. Carlson, A., and P. Edenham 2000. Extinction dynamics and the regional persistence of a tree frog metapopulation. Proceedings of the Royal Society of London B 267:1311-1313.
18. Comps, B., D. Gomory, J. Letouzey, B. Thiebaut, and R. J. Petit 2001. Diverging trends between heterozygosity and allelic richness during postglacial colonization in the European beech. Genetics 157:389-397.
19. Cornuet, J.-M., and G. Luikart 1996. Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics 144:2001-2014.
20. Crawley, M. J. 2007. The R book. Wiley, Chichester, United Kingdom
21. Edenhamn, P., M. Höggren, and A. Carlson 2000. Genetic diversity and fitness in peripheral and central populations of the European tree frog Hyla arborea. Hereditas 133:115-122.
22. El Mousadik, A., and R. J. Petit 1996. High level of genetic differentiation for allelic richness among populations of the argan tree [Arganian spinosa (L.) Skeels] endemic to Morocco. Theoretical and Applied Genetics 92:832-839.
23. Fisher, R. A. 1954. Statistical methods for research workers. Oliver & Boyd, Edinburgh
24. Fog, K. 1993. Migration in the tree frog Hyla arborea. Pages 55-64 in A. H. P. Stumpel, and U. Tester, editors. Ecology and conservation of the European tree frog. Institute for Forestry and Nature Research, Wageningen, The Netherlands
25. Frankham, R. 2005. Genetics and extinction. Biological Conservation 126:131-140.
26. Frankham, R., J. D. Ballou, and D. A. Briscoe 2002. Introduction to conservation genetics. Cambridge University Press, Cambridge, United Kingdom
27. Franklin, I. R. 1980. Evolutionary change in small populations. Pages 135-150 in M. E. Soulé, and B. A. Wilcox, editors. Conservation biology: an evolutionary-ecological perspective. Sinauer Associates, Sunderland, Massachusetts
28. Goudet, J. 2005. HIERFSTAT, a package for R to compute and test hierarchical F-statistics. Molecular Ecology Notes 5:184-186.
29. Hartl, D. L., and A. G. Clark 1997. Principles of population genetics. Sinauer Associates, Sunderland, Massachusetts
30. Kawecki, T. J. 2008. Adaptation to marginal habitats. Annual Review of Ecology Evolution and Systematics 39:321-342.
31. Keller, L. F., K. J. Jeffery, P. Arcese, M. A. Beaumont, W. M. Hochachka, J. N. M. Smith, and M. W. Bruford 2001. Immigration and the ephemerality of a natural population bottleneck: evidence from molecular markers. Proceedings of the Royal Society of London Series B-Biological Sciences 268:1387-1394.
32. Kimura, M., and T. Ohta 1975. Distribution of allelic frequencies in a finite population under stepwise production of neutral alleles. Proceedings of the National Academy of Science of the USA 72:2761-2764.
33. Lande, R. 1988. Genetics and demography in biological conservation. Science 241:1455-1460.
34. Lande, R. 1995. Mutation and conservation. Conservation Biology 9:782-791.
35. Leberg, P. L. 1992. Effects of population bottlenecks on genetic diversity as measured by allozyme electrophoresis. Evolution 46:477-494.
36. Leblois, R., A. Estoup, and F. Rousset 2009. IBDSim: a computer program to simulate genotypic data under isolation by distance. Molecular Ecology Resources 9:107-109.
37. Leblois, R., A. Estoup, and R. Streiff 2006. Genetics of recent habitat contraction and reduction in population size: does isolation by distance matter? Molecular Ecology 15:3601-3615.
38. Lindsay, D. L., K. R. Barr, R. F. Lance, S. A. Tweddale, T. J. Hayden, and P. L. Leberg 2008. Habitat fragmentation and genetic diversity of an endangered, migratory songbird, the golden-cheeked warbler (Dendroica chrysoparia). Molecular Ecology 17:2122-2133.
39. Luikart, G., and J. M. Cornuet 1998. Empirical evaluation of a test for identifying recently bottlenecked populations from allele frequency data. Conservation Biology 12:228-237.
40. Luikart, G., W. B. Sherwin, B. M. Steele, and F. W. Allendorf 1998. Usefulness of molecular markers for detecting population bottlenecks via monitoring genetic change. Molecular Ecology 7:963-974.
41. Nei, M., T. Maruyama, and R. Chakraborty 1975. Bottleneck effect and genetic-variability in populations. Evolution 29:1-10.
42. Pellet, J., A. Guisan, and N. Perrin 2004. A concentric analysis of the impact of urbanization on the threatened European tree frog in an agricultural landscape. Conservation Biology 18:1599-1606.
43. Pidancier, N., C. Miquel, and C. Miaud 2003. Buccal swabs as a non-destructive tissue sampling method for DNA analysis in amphibians. Herpetological Journal 13:175-178.
44. Pope, L. C., A. Estoup, and C. Moritz 2000. Phylogeography and population structure of an ecotonal marsupial, Bettongia tropica, determined using mtDNA and microsatellites. Molecular Ecology 9:2041-2053.
45. Pritchard, J. K., M. T. Seielstad, A. Perez-Lezaun, and M. W. Feldman 1999. Population growth of human Y chromosomes: a study of Y chromosome microsatellites. Molecular Biology and Evolution 16:1791-1798.
46. Procházka, P., E. Bellinvia, D. Fainová, P. Hájková, A. Elhalah, and K. Alomari 2008. Immigration as a possible rescue of a reduced population of a long-distant migratory bird: Reed warblers in the Azraq Oasis, Jordan. Journal of Arid Environments 72:1184-1192.
47. R Development Core Team. 2007. R: A language and environment for statistical computing. R Foundation for Statistical Computing., Vienna
48. Ramakrishnan, U., E. A. Hadly, and J. L. Mountain 2005. Detecting past population bottlenecks using temporal genetic data. Molecular Ecology 14:2915-2922.
49. Rousset, F. 2004. Genetic structure and selection in subdivided populations. Princeton University Press, Princeton, New Jersey
50. Schlotterer, C., M. Kauer, and D. Dieringer 2004. Allele excess at neutrally evolving microsatellites and the implications for tests of neutrality. Proceedings of the Royal Society of London Series B-Biological Sciences 271:869-874.
51. Shriver, M. D., L. Jin, R. Chakraborty, and E. Boerwinkle 1993. VNTR allele frequency distributions under the stepwise mutation model: a computer simulation approach. Genetics 134:983-993.
52. Sokal, R. R., and F. J. Rohlf 1995. Biometry. W. H. Freeman, New-York
53. Storz, J. F., U. Ramakrishnan, and S. C. Alberts 2002. Genetic effective size of a wild primate population: influence of current and historical demography. Evolution 56:817-829.
54. Stumpel, A. H. P., and G. Hanekamp 1986. Habitat and ecology of Hyla arborea in the Netherlands. Pages 409-412 in Z. Rocek, editor. Studies in Herpetology. Charles University, Prague
55. Vos, C. C., C. J. F. Ter Braak, and W. Nieuwenhuizen 2000. Incidence function modelling and conservation of the tree frog Hyla arborea in the Netherlands. Pages 165-180 in P. Sjögren-Gulve, and T. Ebenhard, editors. Ecological bulletins 48-the use of population viability analyses in conservation planning. Munksgaard International Publishers, Copenhagen