A simulated annealing approach to define the genetic structure of populations

By Isabelle Dupanloup, S. Schneider, Laurent Excoffier. Molecular Ecology, 2002

1,921 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/dad4ed7a4c9b779b6cdeea66e170364f88bd2258

How researchers see this paper

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

In Ecology

In Genetics

Citations in the corpus

Gene Flow in Complex Landscapes: Testing Multiple Hypotheses with Causal Modeling (2006, methodology): “Further work in model optimization (see Dupanloup et al. 2002 for an example using genetic data) to estimate parameter values will be needed to determine the particular resistance parameters associated with each landscape variable.”
Ecological factors drive differentiation in wolves from British Columbia (2009, methodology): “Figures 2 and 3 both illustrate visually the difference in haplotypes and haplotype frequency between coastal and inland wolves prior to statistical testing, which requires that the samples be grouped. samova identified structure based on five groups (K = 5) as most probable (UCT = 0.321; P = 0.006)”
The roles of rivers and Pleistocene refugia in shaping genetic diversity in Praomys misonnei in tropical Africa (2011, methodology): “We applied the spatial analysis of molecular variance (SAMOVA) procedure (Dupanloup et al., 2002) to identify groups of geographically adjacent populations that were maximally differentiated based on sequence data.”
Refugia within refugia: the case study of a canopy tree (Eurycorymbus cavaleriei) in subtropical China (2009, methodology): “Moreover, the SAMOVA demonstrates several diverging groups of related haplotypes that correspond fairly well with geography.”
Genetic isolation by distance and localized fjord population structure in Pacific cod (Gadus macrocephalus): limited effective dispersal in the northeastern Pacific Ocean (2009, methodology): “In addition, a spatial analysis of molecular variance (SAMOVA) developed by Dupanloup et al. (2002) was conducted to define groupings of samples that were maximally differentiated from each other.”
The genetic structure of Atlantic cod (Gadus morhua) around Iceland: insight from microsatellites, the Pan I locus, and tagging experiments (2006, methodology): “Results of the spatial analysis of molecular variance (SAMOVA) analyses carried out on microsatellite loci (Dupanloup et al. 2002).”
Alleles in space (AIS): computer software for the joint analysis of interindividual spatial and genetic information. (2005, methodology): “This geographical regionalization procedure is increasingly being used to detect the locations of putative barriers to gene flow by iteratively identifying sets of contiguous, large genetic distances along connectivity networks (Doupanloup et al. 2002; Manel et al. 2003; Manni et al. 2004).”
Assignment methods: matching biological questions with appropriate techniques. (2005, background): “AMs that enable one to identify genetic boundaries [25] or to find the best partition of the overall sample based on AMOVA and geographical coordinates [ 26 ] are more suitable.”
A new scenario for the quaternary history of European beech populations: palaeobotanical evidence and genetic consequences. (2006, background): “Journal compilation © New Phytologist (2006) groups of populations that are geographically homogeneous and maximally differentiated from each other (Dupanloup et al., 2002).”
Comparative phylogeography and population structure of European Betula species, with particular focus on B. pendula and B. pubescens (2007, methodology): “The program samova 1.0 (Dupanloup et al., 2002) was run for 10,000 iterations for K ¼ 2, …, 8 using 100 initial conditions.”
Spatial pattern of genetic and morphological diversity in the direct developer Acanthina monodon (Gastropoda: Mollusca) (2011, methodology): “Secondly, we applied a spatial analysis of molecular variance (SAMOVA) test (Dupanloup et al. 2002) to explore the possibility of alternative patterns of population subdivision (e.g. genetic breaks).”