Data from: Genetic signatures of small effective population sizes and demographic declines in an endangered rattlesnake, Sistrurus catenatus
Sovic, Michael, The Ohio State University
Fries, Anthony, The Ohio State University
Martin, Scott A., The Ohio State University
Gibbs, H. Lisle, The Ohio State University
Published Oct 29, 2018 on Dryad.
Cite this dataset
Sovic, Michael; Fries, Anthony; Martin, Scott A.; Gibbs, H. Lisle (2018). Data from: Genetic signatures of small effective population sizes and demographic declines in an endangered rattlesnake, Sistrurus catenatus [Dataset]. Dryad. https://doi.org/10.5061/dryad.jg81r80
Endangered species that exist in small isolated populations are at elevated risk of losing adaptive variation due to genetic drift. Analyses that estimate short-term effective population sizes, characterize historical demographic processes, and project the trajectory of genetic variation into the future are useful for predicting how levels of genetic diversity may change. Here, we use data from two independent types of genetic markers (single nucleotide polymorphisms [SNPs] and microsatellites) to evaluate genetic diversity in 17 populations spanning the geographic range of the endangered eastern massasauga rattlesnake (Sistrurus catenatus). First, we use SNP data to confirm previous reports that these populations exhibit high levels of genetic structure (overall Fst = 0.25). Second, we show that most populations have contemporary Ne estimates less than 50. Heterozygosity-fitness correlations in these populations provided no evidence for a genetic cost to living in small populations, though these tests may lack power. Third, model-based demographic analyses of individual populations indicate that all have experienced declines, with the onset of many of these declines occurring over timescales consistent with anthropogenic impacts (<200 years). Finally, forward simulations of the expected loss of variation in relatively large (Ne = 50) and small (Ne = 10) populations indicate they will lose a substantial amount of their current standing neutral variation (63% and 99%, respectively) over the next 100 years. Our results argue that drift has a significant and increasing impact on levels of genetic variation in isolated populations of this snake, and efforts to assess and mitigate associated impacts on adaptive variation should be components of the management of this endangered reptile.
Barcode files associated with each of the 21 fastq data files used in AftrRAD run.
Fastq dataset associated with RAD3 barcode file
Fastq dataset associated with RAD4 barcode file
Fastq dataset associated with RAD5 barcode file
Fastq dataset associated with RAD7 barcode file
Fastq dataset associated with RAD9a barcode file
Fastq dataset associated with RAD10 barcode file
RAD14-1_fastq (1 of 2)
Partial fastq dataset associated with RAD14 barcode file. Combine with RAD14-2 prior to analysis.
RAD14-2_fastq (2 of 2)
Partial fastq dataset associated with RAD14 barcode file. Combine with RAD14-1 prior to analysis.
Fastq dataset associated with RAD15 barcode file
Fastq dataset associated with RAD16 barcode file
Fastq dataset associated with RAD18 barcode file
Fastq dataset associated with RAD19 barcode file
Fastq dataset associated with RAD20 barcode file
Fastq dataset associated with RAD21 barcode file
RAD22-1_fastq (1 of 2)
Partial fastq dataset associated with RAD22 barcode file. Combine with RAD22-2 prior to analysis.
Partial fastq dataset associated with RAD22 barcode file. Combine with RAD22-1 prior to analysis.
Fastq dataset associated with RAD24 barcode file
Fastq dataset associated with RAD26 barcode file
Fastq dataset associated with RAD28 barcode file
Fastq dataset associated with RAD30A barcode file
Fastq dataset associated with RAD30B barcode file
RAD42-1_fastq (1 of 2)
Partial fastq dataset associated with RAD42 barcode file. Combine with RAD42-2 prior to analysis.
RAD42-2_fastq (2 of 2)
Partial fastq dataset associated with RAD42 barcode file. Combine with RAD42-1 prior to analysis.