Data from: Isolation by distance, resistance and/or clusters? Lessons learned from a forest-dwelling carnivore inhabiting a heterogeneous landscape

Ruiz-González A, Cushman SA, Madeira MJ, Gómez-Moliner BJ, Randi E

Date Published: September 17, 2015

DOI: http://dx.doi.org/10.5061/dryad.2k4b7

 

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Title Sample locations, microsatellite data and clustering assignment
Downloaded 19 times
Description Complete genetic profiles at 15 microsatellite loci (Ruiz-Gonzalez et al. 2014), geographic coordinates and Bayesian clustering assignment according to STRUCTURE and GENELAND for the 140 pine marten individuals. The genetic raw data is provided in CONVERT data format (Glaubitz, 2004).
Download Pine_Marten_140Ind_Loc_Pops_STR_GL.xlsx (78.27 Kb)
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Title Landscape resistance maps
Downloaded 11 times
Description Raw '.asc' files of the optimal resistance models (IBR; i.e. EN, LandFB_100 and LandFb_50) produced with ARCGIS version 9.3 (ESRI 2009), with a raster cell size set to 50 m. The three different landscape resistance models were previously optimized for the study species at the Basque country level (Ruiz-González et al. 2014). Land_Fb100 and Land_Fb50: Binary landscape resistance maps indicating that pine marten gene flow in is facilitated by forests, forestry plantations, scrubland, agroforestry mosaics and pastures and meadows, and that crops have roughly 100 (LandFb_100) or 50 (LandFb_50) times higher resistance than optimal habitat and the existence of a barrier effect of national roads, highways, urban areas, reservoirs and quarries. Ecological Network resistance map; EN: a resistance map analogous to that used in the design of the ecological network of the Basque country (Gurrutxaga et al. 2010a). Land use information was obtained in vector format from the most recent forest map of Spain (Spanish Ministry of the environment, 2006) and from national road network maps (Spanish National Geographic Institute (2008). Full methodological details for model construction are reported in Table 1 and Appendix S2 (Supporting information).
Download Resistance_optimal_Models_ascii.zip (6.499 Mb)
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Title Genetic_LCD_Matrices
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Description Genetic distance (Rousset’s a) matrix and least-cost distance (LCD) matrices for IBD, IBR and IBB models. 1) IBD-Isolation by distance; 2) IBR-Isolation by landscape resistance models optimized by Ruiz-González et al. (2014); Land_Fb100 and Land_Fb50: Binary landscape resistance maps indicating that pine marten gene flow in is facilitated by forests, forestry plantations, scrubland, agroforestry mosaics and pastures and meadows, and that crops have roughly 100 (LandFb_100) or 50 (LandFb_50) times higher resistance than optimal habitat and the existence of a barrier effect of national roads, highways, urban areas, reservoirs and quarries. Ecological Network resistance map; EN: a resistance map analogous to that used in the design of the ecological network of the Basque country (Gurrutxaga et al. 2010a); and 3) IBB-Isolation by barriers or clusters obtained from both Bayesian clustering approaches (i.e. IBB_Geneland and IBB_Structure). The effective and Euclidean distances between each pair of individuals were calculated with PATHMATRIX 1.1 (Ray 2005), following the resistances values outlined in Table 1. Pair-wise effective distances between individuals were calculated as the accumulated cost through the least cost paths (LCP) throughout each resistance surface (Adriaensen et al. 2003; Ray 2005). Full methodological details for model construction are reported in Appendix S2 (Supporting information).
Download Genetic_LCD_Matrices.zip (426.2 Kb)
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When using this data, please cite the original publication:

Ruiz-González A, Cushman SA, Madeira MJ, Randi E, Gómez-Moliner BJ (2015) Isolation by distance, resistance and/or clusters? Lessons learned from a forest-dwelling carnivore inhabiting a heterogeneous landscape. Molecular Ecology 24(20): 5110–5129. http://dx.doi.org/10.1111/mec.13392

Additionally, please cite the Dryad data package:

Ruiz-González A, Cushman SA, Madeira MJ, Gómez-Moliner BJ, Randi E (2015) Data from: Isolation by distance, resistance and/or clusters? Lessons learned from a forest-dwelling carnivore inhabiting a heterogeneous landscape. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.2k4b7
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