How many marker loci are necessary? Analysis of dominant marker data sets using two popular population genetic algorithms
Article first published online: 28 AUG 2013
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Ecology and Evolution
Volume 3, Issue 10, pages 3455–3470, September 2013
How to Cite
Ecology and Evolution 2013; 3(10): 3455–3470
- Issue published online: 19 SEP 2013
- Article first published online: 28 AUG 2013
- Manuscript Accepted: 11 JUL 2013
- Manuscript Revised: 10 JUL 2013
- Manuscript Received: 4 JUN 2013
- Minnesota Agricultural Experiment Station
- National Science Foundation
- University of Minnesota
- 2008. Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS ONE 3:e3376. , , , , , , et al.
- 2001. EASYPOP (Version 1.7): a computer program for population genetics simulations. J. Hered. 92:301–302.
- 2011. Population genomic tests of models of adaptive radiation in Lake Victoria region cichlid fish. Evolution 65:3381–3397. , , and .
- 2007. Statistical analysis of amplified fragment length polymorphism data: a toolbox for molecular ecologists and evolutionists. Mol. Ecol. 16:3737–3758. , , and .
- 2005. Optimal sampling strategy for estimation of spatial genetic structure in tree populations. Heredity 95:281–289. , , , , , , et al.
- 2001. Population genetic structure of the cleistogamous plant species Viola pubescens Aiton (Violaceae), as indicated by allozyme and ISSR molecular markers. Heredity 86:545–556. , and .
- 2007. The ade4 package: implementing the duality diagram for ecologists. J. Stat. Softw. 22(4):1–20. , and .
- 2005. Detecting the number of clusters of individuals using the software structure: a simulation study. Mol. Ecol. 14:2611–2620. , , and .
- 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131:479–491. , , and .
- 2007. Inference of population structure using multilocus genotype data: dominant markers and null alleles. Mol. Ecol. Notes 7:574–578. , , and .
- 1999. Invasiveness in wetland plants in temperate North America. Wetlands 19:733–755. , , and .
- 2004. Neighbour joining trees, dominant markers and population genetic structure. Heredity 92:490–498. , and .
- 2013. Genetic evidence suggests a widespread distribution of native North American populations of reed canarygrass. Biol. Invasions 15:261–268. , , and .
- 2008. GST and its relatives do not measure differentiation. Mol. Ecol. 17:4015–4026.
- 1964. The stepping stone model of population structure and the decrease of genetic correlation with distance. Genetics 49:561. , and .
- 1962. Tetraploid and hexaploid chromosome races of Phalaris arundinacea L. Crop Pasture Sci. 13:1–9. , and .
- 2001. Genetic variation and molecular biogeography of a North American invasive plant species (Alliaria petiolata, Brassicaceae). Int. J. Plant Sci. 162:161–169. , , and .
- 1998. The native status of reed canarygrass (Phalaris arundinacea L.) in the Inland Northwest, USA. Nat. Area. J. 18:223–230. , and .
- 2013. Population genetic structure of N. American and European Phalaris arundinacea L. as inferred from inter-simple sequence repeat markers. Biol. Invasions. , , , and .
- 2008. quantiNemo: an individual-based program to simulate quantitative traits with explicit genetic architecture in a dynamic metapopulation. Bioinformatics 24:1552. , , , and .
- 2004. Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Mol. Ecol. 13:1143–1155.
- 2000. Inference of population structure using multilocus genotype data. Genetics 155:945–959. , , and .
- R Development Core Team. 2011. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0.
- 2000. Genetic structure and AFLP variation of remnant populations in the rare plant Pedicularis palustris (Scrophulariaceae) and its relation to population size and reproductive components. Am. J. Bot. 87:678–689. , and .
- 2006. Optimum sample size for estimating gene diversity in wild wheat using AFLP markers. Genet. Resour. Crop Evol. 53:23–33. , , , and .
- 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res. 23:4407–4414. , , , , , , et al.
- 1968. Self-incompatibility in the Gramineae. Hereditas 60:157–166.
- 1998. Assessing hybridization in natural populations of Penstemon (Scrophulariaceae) using hypervariable intersimple sequence repeat (ISSR) bands. Mol. Ecol. 7:1107–1125. , , and .
- 1994. Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. Genomics 20:176–183. , , and .