Linkage disequilibrium estimates of contemporary Ne using highly variable genetic markers: a largely untapped resource for applied conservation and evolution

By Robin S. Waples, C. Do. Evolutionary Applications, 2009

1,004 citations recorded by the source corpus.

Genetic methods are routinely used to estimate contemporary effective population size (Ne) in natural populations, but the vast majority of applications have used only the temporal (two‐sample) method. We use simulated data to evaluate how highly polymorphic molecular markers affect precision and bias in the single‐sample method based on linkage disequilibrium (LD). Results of this study are as follows: (1) Low‐frequency alleles upwardly bias , but a simple rule can reduce bias to

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/105f08a97dc0ad508e8b73f3e3f21352a1756cef

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Genetics

1. M. D. C. Gomez-Cabrera
2. O. Berry
3. J. Pandolfi
4. J. Ovenden
5. B. Bruce
6. M. Barbato
7. M. W. Bruford
8. D. Blower

In Molecular Biology

1. O. Berry
2. J. Pandolfi
3. J. Ovenden
4. B. Bruce
5. M. W. Bruford

Citations in the corpus

• SNeP: a tool to estimate trends in recent effective population size trajectories using genome-wide SNP data (2015, background): “…to differentiate different demographic histories, more than their numerical values, by using them as a potential demographic fingerprint for that breed or species, yet taking into consideration that mutation, migration, and selection can influ-ence the N e estimation through LD (Waples and Do, 2010).”
• Ocean's eleven: a critical evaluation of the role of population, evolutionary and molecular genetics in the management of wild fisheries (2015, background): “Ne can be measured in a variety of ways, and no consensus method has appeared yet, although LD (Waples and Do 2010) is a front-runner.”
• Population genetics of Australian white sharks reveals fine-scale spatial structure, transoceanic dispersal events and low effective population sizes (2012, methodology): “Rare alleles upwardly bias CNe estimates under simulated con ditions (n = 100, 20 loci with 10 alleles locus−1) (Waples & Do 2010).”