Abstract
Habitat destruction and fragmentation are known to strongly affect dispersal by altering the quality of the environment between populations. As a consequence, lower landscape connectivity is expected to enhance extinction risks through a decrease in gene flow and the resulting negative effects of genetic drift, accumulation of deleterious mutations and inbreeding depression. Such phenomena are particularly harmful for amphibian species, characterized by disjunct breeding habitats. The dispersal behaviour of amphibians being poorly understood, it is crucial to develop new tools, allowing us to determine the influence of landscape connectivity on the persistence of populations. In this study, we developed a new landscape genetics approach that aims at identifying land-uses affecting genetic differentiation, without a priori assumptions about associated ecological costs. We surveyed genetic variation at seven microsatellite loci for 19 Alpine newt (Mesotriton alpestris) populations in western Switzerland. Using strips of varying widths that define a dispersal corridor between pairs of populations, we were able to identify land-uses that act as dispersal barriers (i.e. urban areas) and corridors (i.e. forests). Our results suggest that habitat destruction and landscape fragmentation might in the near future affect common species such as M. alpestris. In addition, by identifying relevant landscape variables influencing population structure without unrealistic assumptions about dispersal, our method offers a simple and flexible tool of investigation as an alternative to least-cost models and other approaches.
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Akaike H (1974) New look at statistical-model identification. IEEE Trans Automat Contr AC19:716–723
Anderson DR, Burnham KP, White GC (2001) Kullback-Leibler information in resolving natural resource conflicts when definitive data exist. Wildl Soc Bull 29:1260–1270
Arens P, van der Sluis T, van’t Westende WPC, Vosman B, Vos CC, Smulders MJM (2007) Genetic population differentiation and connectivity among fragmented Moor frog (Rana arvalis) populations in The Netherlands. Landscape Ecol 22:1489–1500
Arnaud JF (2003) Metapopulation genetic structure and migration pathways in the land snail Helix aspersa: influence of landscape heterogeneity. Landscape Ecol 18:333–346
Blaustein AR, Wake DB, Sousa WP (1994) Amphibian declines—judging stability, persistence, and susceptibility of populations to local and global extinctions. Conserv Biol 8:60–71
Bockelmann AC, Reusch TBH, Bijlsma R, Bakker JP (2003) Habitat differentiation vs. isolation-by-distance: the genetic population structure of Elymus athericus in European salt marshes. Mol Ecol 12:505–515
Bossart JL, Prowell DP (1998) Genetic estimates of population structure and gene flow: limitations, lessons and new directions. Trends Ecol Evol 13:202–206
Broquet T, Berset-Braendli L, Emaresi G, Fumagalli L (2007) Buccal swabs allow efficient and reliable microsatellite genotyping in amphibians. Conserv Genet 8:509–511
Burnham KP, Anderson DR (2002) Model selection and inference—a practical information-theoretic approach. Springer, New York
Carr LW, Fahrig L (2001) Effect of road traffic on two amphibian species of differing vagility. Conserv Biol 15:1071–1078
Castellano S, Balletto E (2002) Is the partial mantel test inadequate? Evolution 56:1871–1873
Chapuis MP, Estoup A (2007) Microsatellite null alleles and estimation of population differentiation. Mol Biol Evol 24:621–631
Cushman SA, McKelvey KS, Hayden J, Schwartz MK (2006) Gene flow in complex landscapes: testing multiple hypotheses with causal modeling. Am Nat 168:486–499
Eastman JR (2002) Idrisi 32.2. Clark University, Worcester. http://www.clarklabs.org
Fahrig L (2003) Effects of habitat fragmentation on biodiversity. Ann Rev Ecol Evol Syst 34:487–515
Fahrig L, Pedlar JH, Pope SE, Taylor PD, Wegner JF (1995) Effect of road traffic on amphibian density. Biol Conserv 73:177–182
Frankham R (1996) Relationship of genetic variation to population size in wildlife. Conserv Biol 10:1500–1508
Funk WC, Blouin MS, Corn PS, Maxell BA, Pilliod DS, Amish S, Allendorf FW (2005) Population structure of Columbia spotted frogs (Rana luteiventris) is strongly affected by the landscape. Mol Ecol 14:483–496
Garner TWJ, Schmidt BR, Hoeck P, Van Buskirk J (2003) Di- and tetranucleotide microsatellite markers for the Alpine newt (Triturus alpestris): characterization and cross-priming in five congeners. Mol Ecol Notes 3:186–188
Geffen E, Anderson MJ, Wayne RK (2004) Climate and habitat barriers to dispersal in the highly mobile grey wolf. Mol Ecol 13:2481–2490
Gill D (1978) The metapopulation ecology of the red-spotted newt, Notophthalmus viridescens (Rafinesque). Ecol Monogr 48:145–166
Goudet J (2001) Fstat (version 2.9.3): a program to estimate and test gene diversities and fixation indices. University of Lausanne. Available at: http://www2.unil.ch/popgen/softwares/fstat.htm
Goudet J, Raymond M, deMeeus T, Rousset F (1996) Testing differentiation in diploid populations. Genetics 144:1933–1940
Grossenbacher K (1988) Atlas de distribution des amphibians de Suisse. Ligue Suisse pour la protection de la Nature, Basel
Hanski I (1998) Metapopulation dynamics. Nature 396:41–49
Hanski I (1999) Habitat connectivity, habitat continuity, and metapopulations in dynamic landscapes. Oikos 87:209–219
Hanski I, Gilpin M (1991) Metapopulation dynamics—brief history and conceptual domain. Biol J Linn Soc 42:3–16
Hanski I, Gilpin M (1997) Metapopulation biology: ecology, genetics and evolution. Academic Press, London
Hitchings SP, Beebee TJC (1996) Persistence of British natterjack toad Bufo calamita Laurenti (Anura: Bufonidae) populations despite low genetic diversity. Biol J Linn Soc 57:69–80
Jehle R, Sinsch U (2007) Wanderleistung und Orientierung von Amphibien: eine Übersicht. Zeitschrift für Feldherpetologie 14:137–152
Jepsen JU, Baveco JM, Topping CJ, Verboom J, Vos CC (2005) Evaluating the effect of corridors and landscape heterogeneity on dispersal probability: a comparison of three spatially explicit modelling approaches. Ecol Modell 181:445–459
Johansson M, Primmer CR, Sahlsten J, Merila J (2005) The influence of landscape structure on occurrence, abundance and genetic diversity of the common frog, Rana temporaria. Glob Chang Biol 11:1664–1679
Keller LF, Waller DM (2002) Inbreeding effects in wild populations. Trends Ecol Evol 17:230–241
Keyghobadi N, Roland J, Strobeck C (1999) Influence of landscape on the population genetic structure of the alpine butterfly Parnassius smintheus (Papilionidae). Mol Ecol 8:1481–1495
Kindlmann P, Aviron S, Burel F (2005) When is landscape matrix important for determining animal fluxes between resource patches? In: 6th World Congress of the international-association-for-landscape-ecology (IALE), Darwin, AUSTRALIA, pp 150–158
Levins R (1969) Some demographic and genetic consequences of environmental heterogeneity for biological control. Bull Entomol Soc Am 15:237–240
MacKenzie DI, Nichols JD, Lachman GB, Droege S, Royle JA, Langtimm CA (2002) Estimating site occupancy rates when detection probabilities are less than one. Ecology 83:2248–2255
Manel S, Schwartz MK, Luikart G, Taberlet P (2003) Landscape genetics: combining landscape ecology and population genetics. Trends Ecol Evol 18:189–197
Manly BGF (1997) Randomisation and Monte Carlo methods in biology, 2nd edn. Chapman and Hall, London
Marsh DM, Milam GS, Gorham NR, Beckman NG (2005) Forest roads as partial barriers to terrestrial salamander movement. Conserv Biol 19:2004–2008
Meyer AH, Schmidt BR, Grossenbacher K (1998) Analysis of three amphibian populations with quarter-century long time-series. Proc R Soc Lond B Biol Sci 265:523–528
Nei M (1987) Molecular evolutionary genetics. Columbia University Press, New York
Opdam P (1990) Dispersal in fragmented populations: the key to survival. In: Bunce RGH, Howard DC (eds) Species dispersal in agricultural habitats. Belhaven Press, London, pp 3–17
Opdam P, Van Apeldoorn R, Schotmann R, Kalkhoven J (1993) Population responses to landscape fragmentation. In: Vos CC, Opdam P (eds) Landscape ecology of a stressed environment. Chapman and Hall, London, pp 147–171
Pabijan M, Babik W (2006) Genetic structure in northeastern populations of the Alpine newt (Triturus alpestris): evidence for post-Pleistocene differentiation. Mol Ecol 15:2397–2407
Pellet J, Guisan A, Perrin N (2004) A concentric analysis of the impact of urbanization on the threatened European tree frog in an agricultural landscape. Conserv Biol 18:1599–1606
Perret N, Pradel R, Miaud C, Grolet O, Joly P (2003) Transience, dispersal and survival rates in newt patchy populations. J Anim Ecol 72:567–575
Pidancier N, Miquel C, Miaud C (2003) Buccal swabs as a non-destructive tissue sampling method for DNA analysis in amphibians. Herpetol J 13:175–178
Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959. http://pritch.bsd.uchicago.edu/software/structure2_2.html
Raufaste N, Rousset F (2001) Are partial mantel tests adequate? Evolution 55:1703–1705
Ricketts TH (2001) The matrix matters: Effective isolation in fragmented landscapes. Am Nat 158:87–99
Rousset F (1997) Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics 145:1219–1228
Rousset F (2002) Partial mantel tests: reply to Castellano and Balletto. Evolution 56:1874–1875
Semlitsch RD (2002) Critical elements for biologically based recovery plans of aquatic-breeding amphibians. Conserv Biol 16:619–629
Semlitsch RD (2003) Conservation of pond-breeding amphibians. In: Semlitsch RD (ed) Amphibian conservation. Smithsonian Institution, Washington, DC, pp 8–23
Sinsch U (1990) Migration and orientation in anuran amphibians. In: International symposium on homing in animals. Rome, Italy, pp 65–79
Slatkin M (1987) Gene flow and the geographic structure of natural populations. Science 236:787–792
Smith MA, Green DM (2005) Dispersal and the metapopulation paradigm in amphibian ecology and conservation: are all amphibian populations metapopulations? Ecography 28:110–128
Spear SF, Peterson CR, Matocq MD, Storfer A (2005) Landscape genetics of the blotched tiger salamander (Ambystoma tigrinum melanostictum). Mol Ecol 14:2553–2564
Stevens VM, Verkenne C, Vandewoestijne S, Wesselingh RA, Baguette M (2006) Gene flow and functional connectivity in the natterjack toad. Mol Ecol 15:2333–2344
Swisstopo (2003) Vector25. Office Fédéral de la Topographie, Bern
Team RDC (2005) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna
Trenham PC, Koenig WD, Mossman MJ, Stark SL, Jagger LA (2003) Regional dynamics of wetland-breeding frogs and toads: Turnover and synchrony. Ecol Appl 13:1522–1532
Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535–538. http://www.microchecker.hull.ac.uk/
Vos CC, Antonisse-De Jong AG, Goedhart PW, Smulders MJM (2001) Genetic similarity as a measure for connectivity between fragmented populations of the moor frog (Rana arvalis). Heredity 86:598–608
Waldick RC, Freedman B, Wassersug RJ (1999) The consequences for amphibians of the conversion of natural, mixed-species forests to conifer plantations in southern New Brunswick. Can Field-Nat 113:408–418
Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of populations structure. Evolution 38:1358–1370
Whitlock MC, McCauley DE (1999) Indirect measures of gene flow and migration: FST not equal 1/(4Nm + 1). Heredity 82:117–125
Wiens JA (1997) Metapopulation dynamics and landscape ecology. In: Hanski I, Gilpin M (eds) Metapopulation biology. Academic Press, San Diego, pp 43–68
Wiens JA, Stenseth NC, Vanhorne B, Ims RA (1993) Ecological mechanisms and landscape ecology. Oikos 66:369–380
Acknowledgments
We are grateful to T. Broquet, P. Fontanillas, J. Goudet, N. Perrin and two anonymous reviewers for their comments on earlier versions of this manuscript. We also thank the Conservation de la faune et de la nature in St-Sulpice (Switzerland) for capture authorisation.
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Emaresi, G., Pellet, J., Dubey, S. et al. Landscape genetics of the Alpine newt (Mesotriton alpestris) inferred from a strip-based approach. Conserv Genet 12, 41–50 (2011). https://doi.org/10.1007/s10592-009-9985-y
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DOI: https://doi.org/10.1007/s10592-009-9985-y