Detection of reduction in population size using data from microsatellite loci

By J. Garza, E. G. Williamson. Molecular Ecology, 2001

1,652 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/cb0ce04a641fe4a4a79472c77964e18973b1ba25

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In Genetics

Citations in the corpus

Detecting bottlenecks using BOTTLENECK 1.2.02 in wild populations: the importance of the microsatellite structure (2010, background): “The use of M, the mean ratio of the number of alleles to the range in allele size, could retain bottleneck signatures for longer (Garza and Williamson 2001).”
Comparison of methods for detecting bottlenecks from microsatellite loci (2006, methodology): “The methods examined in this paper for identifying recent population bottlenecks using microsatellite data make several assumptions about the mutation process of microsatellite loci (Cornuet and Luikart 1996; Luikart et al. 1998; Garza and Williamson 2001).”
Inferring population history with DIY ABC: a user-friendly approach to approximate Bayesian computation (2008, methodology): “We are most grateful to Sonya Clegg for authorizing the use of Silvereye microsatellite data in our second example.”
Genetic diversity and population structure of the invasive alien red swamp crayfish (2010, methodology): “For the TPM, we used a model of 90% single step mutations and the remaining 10% multistep mutations and variance of 10, as this mutation model has been used in other species (Garza and Williamson 2001; Yue et al. 2009).”
Genetic Effects of a Persistent Bottleneck on a Natural Population of Ornate Box Turtles (Terrapene ornata) (2004, methodology): “Several methods have been developed to detect historical population bottlenecks from molecular marker data (Cornuet and Luikart 1996; Luikart and Cornuet 1998; Beaumont 1999; Garza and Williamson 2001).”
Computer simulations: tools for population and evolutionary genetics (2012, methodology): “Here we focus on using available software tools, and we do not provide a blueprint for validating methods, as we feel that most users who are interested in method development are already familiar with the steps involved (for examples, see REFS 53,55,76,77 ).”
Genetic consequences of a demographic bottleneck in the Scandinavian arctic fox (2006, background): “Bottlenecked populations that are small for a long time could lose additional genetic variation as a consequence of intensified genetic drift (Garza and Williamson 2001) and could be subjected to inbreeding (Keller and Waller 2002).”
Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows (2010, background): “…names of the computed statistics K , H , GW , R , and FIS , which stand for the average number of alleles per locus, the average heterozygosity, the average Garza-Williamson statistic (Garza & Williamson 2001), the average microsatellite allelic range, and the inbreeding coefﬁcient, respectively.”
Founder effect and bottleneck signatures in an introduced, insular population of elk (2010, methodology): “That parameterization of the TPM was recommended as a conservative model of microsatellite mutation (Garza and Williamson 2001).”
Population structure of copper rockfish (Sebastes caurinus) reflects postglacial colonization and contemporary patterns of larval dispersal (2002, methodology): “It is unlikely that a low M value would result from a post-Pleistocene founder, as the statistic rebounds within hundreds of generations (Garza and Williamson 2001).”
Landscape attributes and life history variability shape genetic structure of trout populations in a stream network (2006, methodology): “The population-based analyses included Analysis of Molecular Variance (AMOVA, Weir and Cockerham 1984), FST (Goudet 2001), tests for genetic bottlenecks (Garza and Williamson 2001), and maximum likelihood coalescent-based estimates of dispersal and effective sizes (Ne, Beerli and Felsenstein 1999, 2”
Assessing losses of genetic diversity due to translocation: long-term case histories in Merriam's turkey (Meleagris gallopavo merriami) (2004, methodology): “…of wildlife translocations using neutral markers as indicators of diversity (e.g., Maruyama and Fuerst 1985; Haig et al. 1990; Leberg 1992; Leberg et al. 1994; Luikart et al. 1998; Leberg and Ellsworth 1999; LePage et al. 2000; Spencer et al. 2000; Garza and Williamson 2001; Williams et al. 2002).”
COMPUTER PROGRAMS: onesamp: a program to estimate effective population size using approximate Bayesian computation (2008, neutral): “The statistics include: the number of alleles divided by allele length range (Garza & Williamson 2001), the difference of the natural logarithms of variance in allele length and heterozygosity (King et al. 2000), expected heterozygosity (Nei 1987), number of alleles per locus, Wright’s FIS (Nei…”
Low connectivity and declining genetic variability along a depth gradient in Corallium rubrum populations (2011, methodology): “In order to reveal the presence (if any) of genetic bottleneck signatures in the eight sampled populations, and in particular in the deeper samples, the M-ratio of the number of alleles k divided by the allelic size range r averaged across all loci in each sample was used (Garza and Williamson 2001)”
Phylogeography and genetic differentiation along the distributional range of the orchid Epidendrum fulgens: a Neotropical coastal species not restricted to glacial refugia (2011, methodology): “Significance was assessed by comparison between the mean value M across all loci and the value M = 0.680, the threshold value below which a population can reasonably be assumed to have undergone a reduction in population size (Garza & Williamson, 2001).”