%0 Journal Article %1 shaffer2017desert %A Shaffer, H. Bradley %A McCartney-Melstad, Evan %A Ralph, Peter L. %A Bradburd, Gideon %A Lundgren, Erik %A Vu, Jannet %A Hagerty, Bridgette %A Sandmeier, Fran %A Weitzman, Chava %A Tracy, C. Richard %D 2017 %I Cold Spring Harbor Laboratory %J bioRxiv %K desert_tortoise myown population_genomics reaction-diffusion resistance_distance %R 10.1101/195743 %T Desert Tortoises in the Genomic Age: Population Genetics and the Landscape %U https://www.biorxiv.org/content/early/2017/09/29/195743 %X The California Department of Fish and Wildlife (CDFW) provided research funds to study the conservation genomics and landscape genomics of the Mojave desert tortoise, Gopherus agassizii, in response to the Desert Renewable Energy Conservation Plan (DRECP). To do this, we consolidated tissue samples of the desert tortoise from across the species range within California and southern Nevada, generated a DNA dataset consisting of full genomes of 270 tortoises, and analyzed the way in which the environment of the desert tortoise has determined modern patterns of relatedness and genetic diversity across the landscape. Here we present the implications of these results for the conservation and landscape genomics of the desert tortoise. Our work strongly indicates that several well-defined genetic groups exist within the species, including a primary north-south genetic discontinuity at the Ivanpah Valley and another separating western from eastern Mojave samples. We also use existing desert tortoise habitat modeling data with a novel extension of genetic "resistance distance" using geographic maps of continuous space to predict the relative impacts of five proposed development alternatives within the DRECP and rank them with respect to their likely impacts on desert tortoise gene flow and connectivity in the Mojave. Finally, we analyzed the impacts of each of the 214 distinct proposed development area "chunks", derived from the proposed development polygons, and ranked each chunk in terms of its range-wide impacts on desert tortoise gene flow.

@article{shaffer2017desert, abstract = {The California Department of Fish and Wildlife (CDFW) provided research funds to study the conservation genomics and landscape genomics of the Mojave desert tortoise, Gopherus agassizii, in response to the Desert Renewable Energy Conservation Plan (DRECP). To do this, we consolidated tissue samples of the desert tortoise from across the species range within California and southern Nevada, generated a DNA dataset consisting of full genomes of 270 tortoises, and analyzed the way in which the environment of the desert tortoise has determined modern patterns of relatedness and genetic diversity across the landscape. Here we present the implications of these results for the conservation and landscape genomics of the desert tortoise. Our work strongly indicates that several well-defined genetic groups exist within the species, including a primary north-south genetic discontinuity at the Ivanpah Valley and another separating western from eastern Mojave samples. We also use existing desert tortoise habitat modeling data with a novel extension of genetic "resistance distance" using geographic maps of continuous space to predict the relative impacts of five proposed development alternatives within the DRECP and rank them with respect to their likely impacts on desert tortoise gene flow and connectivity in the Mojave. Finally, we analyzed the impacts of each of the 214 distinct proposed development area "chunks", derived from the proposed development polygons, and ranked each chunk in terms of its range-wide impacts on desert tortoise gene flow.}, added-at = {2017-10-02T20:41:50.000+0200}, author = {Shaffer, H. Bradley and McCartney-Melstad, Evan and Ralph, Peter L. and Bradburd, Gideon and Lundgren, Erik and Vu, Jannet and Hagerty, Bridgette and Sandmeier, Fran and Weitzman, Chava and Tracy, C. Richard}, biburl = {https://www.bibsonomy.org/bibtex/241ea424b0fd0804186332063c80d32fd/peter.ralph}, doi = {10.1101/195743}, eprint = {https://www.biorxiv.org/content/early/2017/09/29/195743.full.pdf}, interhash = {519820c8f0708a1832c9555c006b9f8a}, intrahash = {41ea424b0fd0804186332063c80d32fd}, journal = {bioRxiv}, keywords = {desert_tortoise myown population_genomics reaction-diffusion resistance_distance}, publisher = {Cold Spring Harbor Laboratory}, timestamp = {2018-08-20T07:28:10.000+0200}, title = {Desert Tortoises in the Genomic Age: {Population} Genetics and the Landscape}, url = {https://www.biorxiv.org/content/early/2017/09/29/195743}, year = 2017 }