Ecology and Evolution · 2020 · 29 citations · 63 references
Life SciencesEcologyGeneticsConservation GeneticsGenomicsPopulation GeneticsGenetic DiversityGenetic Diversity AssessmentGenetic Diversity MonitoringPopulation Genetics InferencePopulation GenomicsSpatial Genetic PatternsGenetic Diversity GenerationGenome-wide Diversity AssessmentGenome-wide Diversity StudiesGenomic Monitoring Of PopulationsPopulation Genetic StructureSingle Nucleotide Polymorphism DiversitySingle-nucleotide Polymorphism AnalysisSingle-nucleotide Polymorphisms
Abstract Predicting the consequences of environmental changes, including human‐mediated climate change on species, requires that we quantify range‐wide patterns of genetic diversity and identify the ecological, environmental, and historical factors that have contributed to it. Here, we generate baseline data on polar bear population structure across most Canadian subpopulations ( n = 358) using 13,488 genome‐wide single nucleotide polymorphisms (SNPs) identified with double‐digest restriction site‐associated DNA sequencing (ddRAD). Our ddRAD dataset showed three genetic clusters in the sampled Canadian range, congruent with previous studies based on microsatellites across the same regions; however, due to a lack of sampling in Norwegian Bay, we were unable to confirm the existence of a unique cluster in that subpopulation. These data on the genetic structure of polar bears using SNPs provide a detailed baseline against which future shifts in population structure can be assessed, and opportunities to develop new noninvasive tools for monitoring polar bears across their range.
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R: A Language and Environment for Statistical Computing
R Core Team · 2000 · 353K citations · Full text
Natural Sciences, Computer Science, Statistical Computing +10
The Sequence Alignment/Map format and SAMtools
Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li, Richard Durbin · Bioinformatics · 2009 · 62.8K citations · Full text
Inference of Population Structure Using Multilocus Genotype Data
Jonathan K. Pritchard, Matthew Stephens, Peter Donnelly · Genetics · 2000 · 34.3K citations · Full text