FLOCK provides reliable solutions to the "number of populations" problem

Journal of Heredity

Volumn 103, Issue 5, 2012, Pages 734-743

  Duchesne, Pierre ^a   Turgeon, Julie ^a  

^a UNIVERSITÉ LAVAL   (Canada)

Author keywords

clustering program; genetic differentiation; iterative method; population allocation

Indexed keywords

ALGORITHM; ARTICLE; GENE FREQUENCY; GENETIC VARIABILITY; GENOTYPE; MIGRATION; MONTE CARLO METHOD; MUTATION RATE; POPULATION; PRIORITY JOURNAL; VALIDITY;

ALGORITHMS; ANIMALS; BELUGA WHALE; BIRDS; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; CRUSTACEA; DATABASES, FACTUAL; EMPIRICAL RESEARCH; FISHES; GENETIC MARKERS; GENETIC VARIATION; GENETICS, POPULATION; GENOTYPE; INSECTS; MARKOV CHAINS; MICROSATELLITE REPEATS; MODELS, GENETIC; MONTE CARLO METHOD; MULTIGENE FAMILY; RATS; REPRODUCIBILITY OF RESULTS;

EID: 84867526071     PISSN: 00221503     EISSN: 14657333     Source Type: Journal    
DOI: 10.1093/jhered/ess038     Document Type: Article

References (22)

1. Balloux F. 2001. EASYPOP (version 1.7). A computer program for the simulation of population genetics. J Hered. 92:301-302. (Pubitemid 32613522)
2. Brin M, Stuck G. 2002. Introduction to dynamical systems. Cambridge (UK): Cambridge University Press.
3. Chen C, Durand E, Forbes F, Francxois O. 2007. Bayesian clustering algorithms ascertain spatial population structure: A new computer program and a comparison study. Mol Ecol Notes. 7:747-756. (Pubitemid 47329398)
4. Corander J, Marttinen P, Mäntyniemi S. 2005. A Bayesian method for identification of stock mixtures from molecular data. Fish Bull. 104:550-558.
5. Corander J, Siren J, Arjas E. 2008. Bayesian spatial modeling of genetic population structure. Comput Stat. 23:111-129.
6. Dawson KJ, Belkhir K. 2001. A Bayesian approach to the identification of panmictic populations and the assignment of individuals. Genet Res. 78:59-77. (Pubitemid 32755322)
7. Duchesne P, Turgeon J. 2009. FLOCK: A method for quick mapping of admixture without source samples. Mol Ecol Res. 9:1333-1344.
8. Evanno G, Regnaut S, Goudet J. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: A simulation study. Mol Ecol. 14:2611-2620. (Pubitemid 40886055)
9. Francxois O, Ancelet S, Guillot G. 2006. Bayesian clustering using hidden Markov random fields in spatial population genetics. Genetics. 174:805-816. (Pubitemid 44656469)
10. Francxois O, Blum MGB, Jakobsson M, Rosenberg NA. 2008. Demographic history of European populations of Arabidopsis thaliana. PLoS Genet. 4:e1000075.
11. Frantz AC, Cellina S, Krier A, Schley L, Burke T. 2009. Using spatial Bayesian methods to determine the genetic structure of a continuously distributed population: Clusters or isolation by distance? J Appl Ecol. 46:493-505.
12. Goudet J. 2002. FSTAT (v. 9.2.3.2): A computer program to calculate F-statistics. Lausanne (Switzerland): Institute of Ecology, University of Lausanne.
13. Guillot G. 2009. Response to comment 'On the inference of spatial structure from population genetics data.' Bioinformatics. 25:1805-1806.
14. Guillot G, Leblois R, Coulon A, Frantz AC. 2009. Statistical methods in spatial genetics. Mol Ecol. 18:4734-4756.
15. Guillot G, Mortier F, Estoup A. 2005. GENELAND: A computer package for landscape genetics. Mol Ecol Notes. 5:712-715. (Pubitemid 41716893)
16. Guillot G, Santos F, Estoup A. 2008. Analysing georeferenced population genetics data with GENELAND: A new algorithm to deal with null alleles and a friendly graphical user interface. Bioinformatics. 24:1406-1407. (Pubitemid 351737151)
17. Hubisz MJ, Falush D, Stephens M, Pritchard JK. 2009. Inferring weak population structure with the assistance of sample group information. Mol Ecol Res. 9:1322-1332.
18. Latch EK, Dharmarajan G, Glaubitz JC, Rhodes OE. 2006. Relative performance of Bayesian clustering softwares for inferring population substructure and individual assignment at low levels of differentiation. Conserv Genet. 7:295-302. (Pubitemid 43873283)
19. Paetkau D, Calvert W, Sterling I, Strobeck C. 1995. Microsatellite analysis of population structure in Canadian polar bears. Mol Ecol. 4:347-354.
20. Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics. 155:945-959. (Pubitemid 30397141)
21. Rodríguez-Ramilo ST, Toro MA, Fernández J. 2009. Assessing population genetic structure via the maximisation of genetic distance. Genet Sel Evol. 41:49.
22. Waples RS, Gaggiotti O. 2006. What is a population? An empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity. Mol Ecol. 15:1419-1439.