Power for detecting genetic divergence: Differences between statistical methods and marker loci

Molecular Ecology

Volumn 15, Issue 8, 2006, Pages 2031-2045

  Ryman, Nils ^a   Palm, Stefan ^a   André, Carl ^b   Carvalho, Gary R ^c   Dahlgren, Thomas G ^b   Jorde, Per Erik ^d,e   Laikre, Linda ^a   Larsson, Lena C ^a   Palmé, Anna ^a   Ruzzante, Daniel E ^f  

^a STOCKHOLM UNIVERSITY   (Sweden)

^b GÖTEBORG UNIVERSITY   (Sweden)

^c UNIVERSITY OF GOTHENBURG   (Sweden)

^d UNIVERSITY OF OSLO   (Norway)

^e INSTITUTE OF MARINE RESEARCH   (Norway)

^f DALHOUSIE UNIVERSITY   (Canada)

Author keywords

Chi square; Fisher's exact test; Fisher's method; G test; Genetic differentiation; Statistical power

Indexed keywords

ISOENZYME;

ALLELE; ANIMAL; ARTICLE; BIOLOGICAL MODEL; COMPUTER SIMULATION; FISH; GENETIC MARKER; GENETICS; METHODOLOGY; POPULATION GENETICS; SAMPLE SIZE; STATISTICS; TROUT;

ALLELES; ANIMALS; COMPUTER SIMULATION; FISHES; GENETIC MARKERS; GENETICS, POPULATION; ISOENZYMES; MODELS, GENETIC; SAMPLE SIZE; STATISTICS; TROUT;

EID: 33745055761     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2006.02839.x     Document Type: Article

References (33)

1. Agresti A 2001 Exact inference for categorical data: recent advances and continuing controversies. Statistics in Medicine, 20, 2709 2722.
2. Brumfield RT Beerli P Nickerson DA Edwards SV 2003 The utility of single nucleotide polymorphisms in inferences of population history. Trends in Ecology & Evolution, 18, 249 256.
3. Choy SC Weir BS 1978 Exact inbreeding coefficients in populations with overlapping generations. Genetics, 89, 591 614.
4. Erdfelder E Faul F Buchner A 1996 gpower: a general power analysis program. Behavior Research Methods, Instruments and Computers, 28, 1 11.
5. Goudet J 1995 fstat (version 1.2): a computer program to calculate F-statistics. Journal of Heredity, 86, 485 486.
6. Goudet J 2001) fstat: A program to estimate and test gene diversities and fixation indices (version 2.9.3). Available from http://www.unil.ch/izea/ softwares/fstat.html. Updated from Goudet (1995).
7. Goudet J Raymond M de Meeüs T Rousset F 1996 Testing differentiation in diploid populations. Genetics, 144, 1933 1940.
8. Hedrick PW 1999 Highly variable loci and their interpretation in evolution and conservation. Evolution, 53, 313 318.
9. Hedrick PW 2001 Conservation genetics: where are we now? Trends in Ecology & Evolution, 16, 629 636.
10. Kalinowski ST 2002 How many alleles per locus should be used to estimate genetic distances? Heredity, 88, 62 65.
11. Kalinowski ST 2005 Do polymorphic loci require large sample sizes to estimate genetic distances? Heredity, 94, 33 36.
12. Mehta C Patel N 1997 statxact for Windows. Statistical Software for Exact Nonparametric Inference. User Manual. CYTEL Software Corporation, Cambridge, Massachusetts.
13. Morin PA Luikart G Wayne RK, the SNP workshop Group 2004 SNPs in ecology, evolution and conservation. Trends in Ecology & Evolution, 19, 208 216.
14. Nei M 1975 Molecular Population Genetics and Evolution. North-Holland, Amsterdam, The Netherlands.
15. Nei M 1987 Molecular Evolutionary Genetics. Columbia University Press, New York.
16. Neuhäuser M 2003 Tests for genetic differentiation. Biometrical Journal, 45, 974 984.
17. Neuhäuser M 2004 Testing whether any of the significant tests within a table is indeed significant. Oikos, 106, 409 410.
18. Palm S Dannewitz J Järvi T Petersson E Prestegaard T Ryman N 2003 Lack of molecular genetic divergence between sea-ranched and wild sea trout (Salmo trutta). Molecular Ecology, 12, 2057 2071.
19. Peterman RM 1990 Statistical power analysis can improve fisheries research and management. Canadian Journal of Fisheries and Aquatic Sciences, 47, 2 15.
20. Petit E Balloux F Goudet J 2001 Sex-biased dispersal in a migratory bat: a characterization using sex-specific demographic parameters. Evolution, 55, 635 640.
21. Raymond M Rousset F 1995a genepop (version 1.2): population genetics software for exact tests and ecumenicism. Journal of Heredity, 86, 248 249.
22. Raymond M Rousset F 1995b An exact test for population differentiation. Evolution, 49, 1280 1283.
23. Rohlf FJ 1987 biom. A Package of Statistical Programs to Accompany the Text of Biometry. Applied Biostatistics, Inc., New York.
24. Ryman N Palm S in press powsim - a computer program for assessing statistical power when testing for genetic differentiation. Molecular Ecology Notes.
25. Ryman N 2006 chifish: a computer program testing for genetic heterogeneity at multiple loci using chi-square and Fisher's exact test. Molecular Ecology Notes, 6, 285 287.
26. Ryman N Jorde PE 2001 Statistical power when testing for genetic heterogeneity. Molecular Ecology, 10, 2361 2373.
27. Ryman N Lagercrantz U Andersson L Chakraborty R Rosenberg R 1984 Lack of correspondence between genetic and morphologic variability patterns in Atlantic herring (Clupea harengus). Heredity, 53, 687 704.
28. Schneider S Roessli D Excoffier L 2000) arlequin: A software for population genetics data analysis, version 2.000. Genetics and Biometry Laboratory, Department of Anthropology, University of Geneva, Switzerland.
29. Sokal RR Rohlf FJ 1995 Biometry. 3rd edn. W.H. Freeman, New York.
30. Waples RS 1998 Separating the wheat from the chaff: patterns of genetic differentiation in high gene flow species. Journal of Heredity, 89, 438 450.
31. Weir BS 1996 Genetic Data Analysis II. Sinauer Associates, Sunderland, Massachusetts.
32. Weir BS Cockerham CC 1984 Estimating F-statistics for the analysis of population structure. Evolution, 38, 1358 1370.
33. Yeh FC Yang R-C Boyle T et al. 1997) popgene (version 1.31), the user-friendly shareware for population genetic analysis. Molecular Biology and Biotechnology Centre. University of Alberta, Canada. http://www.ualberta.ca/ ∼fyeh/info.htm.