Sampling for Microsatellite-Based Population Genetic Studies: 25 to 30 Individuals per Population Is Enough to Accurately Estimate Allele Frequencies

PLoS ONE

Volumn 7, Issue 9, 2012, Pages

  Hale, Marie L ^a   Burg, Theresa M ^b   Steeves, Tammy E ^a  

^a UNIVERSITY OF CANTERBURY   (New Zealand)

^b UNIVERSITY OF LETHBRIDGE   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ARTICLE; BIRD; DNA POLYMORPHISM; FORMICA LUGUBRIS; GENE FREQUENCY; GENE LOCUS; GENETIC DISTANCE; GENETIC VARIABILITY; GENOTYPE; HETEROZYGOSITY; HIMANTOPUS NOVAEZELANDIA; HUMAN; INSECT; MICROSATELLITE BASED POPULATION GENETICS; POPULATION GENETICS; POPULATION SIZE; SCIURIDAE; SCIURUS VULGARIS; SIMULATION; THALASSARCHE MELANOPHRIS;

ALLELES; ANIMALS; ANTS; BIRDS; CHARADRIIFORMES; DATABASES, GENETIC; GENE FREQUENCY; GENETIC VARIATION; GENETICS, POPULATION; GENOTYPE; LINKAGE DISEQUILIBRIUM; MICROSATELLITE REPEATS; SAMPLE SIZE; SCIURIDAE; SPECIES SPECIFICITY;

AVES; DIOMEDEA MELANOPHRIS; FORMICA LUGUBRIS; HEXAPODA; HIMANTOPUS; MAMMALIA; SCIURUS VULGARIS;

EID: 84866309967     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0045170     Document Type: Article

References (21)

1. Kalinowski ST, (2005) HP-RARE 1.0: a computer program for performing rarefaction on measures of allelic richness. Mol. Ecol. Notes 5: 187-189.
2. Hartl DL, Clark AG (1997) Principles of Population Genetics, 3rd edition. Sunderland USA, Sinauer Associates Inc. 542 p.
3. Bashalkhanov S, Pandey M, Rajora OP, (2009) A simple method for estimating genetic diversity in large populations from finite sample sizes. BMC Genetics 10: 84.
4. Ryman N, Palm S, (2006) POWSIM: a computer program for assessing statistical power when testing for genetic differentiation. Mol. Ecol. 6: 600-602.
5. Landguth EL, Fedy BC, Oyler-McCance SJ, Garey AL, Emel SH, et al. (2012) Effects of sample size, number of markers, and allelic richness on the detection of spatial genetic pattern. Mol. Ecol. Resour. 12: 276-284.
6. Yan LN, Zhang DX, (2004) Effects of sample size on various genetic diversity measures in population genetic study with microsatellite DNA markers. Acta Zool. Sinica 50: 279-290.
7. Miyamoto N, Fernándéz-Manjarrés JF, Morand-Prieur ME, Bertolino P, Frascaria-Lacoste N, (2008) What sampling is needed for reliable estimations of genetic diversity in Fraxinus excelsior L. (Oleaceae)? Ann. Forest Sci. 65: 403.
8. Pruett CL, Winker K, (2008) The effects of sample size on population genetic diversity estimates in song sparrows Melospiza melodia. J. Avian Biol. 39: 252-256.
9. Peakall R, Smouse PE, (2006) GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol. Ecol. Notes 6: 288-295.
10. Chapuisat M, (1996) Characterization of microsatellite loci in Formica lugubris B and their variability in other ant species. Mol. Ecol. 5: 599-601.
11. Gyllenstrand N, Gertsch PJ, Pamilo P, (2002) Polymorphic microsatellite DNA markers in the ant Formica exsecta. Mol. Ecol. Notes 2: 67-69.
12. Hale ML, Bevan R, Wolff K, (2001a) New polymorphic microsatellite markers for the red squirrel (Sciurus vulgaris) and their applicability to the grey squirrel (S. carolinensis). Mol. Ecol. Notes 1: 47-49.
13. Hale ML, Lurz PWW, Shirley MDF, Rushton S, Fuller RM, et al. (2001b) Impact of landscape management on the genetic structure of red squirrel populations. Science 293: 2246-2248.
14. Burg TM, (1999) Isolation and characterization of microsatellites in albatrosses. Mol. Ecol. 8: 338-341.
15. Burg TM, Croxall JP, (2001) Global relationships among black-browed and grey-headed albatrosses: analysis of population structure using mitochondrial DNA and microsatellites. Mol. Ecol. 10: 2647-2660.
16. Steeves TE, Hale ML, Gemmell NJ, (2008) Development of polymorphic microsatellite markers for the New Zealand black stilt (Himantopus novaezelandiae) and cross-amplification in the pied stilt (Himantopus himantopus leucocephalus). Mol. Ecol. Resour. 8: 1105-1107.
17. Steeves TE, Maloney R, Hale ML, Tylianakis JM, Gemmell NJ, (2010) Genetic analyses reveal but no hybrid swarm in one of the world's rarest birds. Mol. Ecol. 19: 5090-5100.
18. Nei M, (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89: 583-590.
19. Baverstock PR, Moritz C (1996) Project design in molecular systematics. In Hillis DM, Moritz C, Mable M, editors. Molecular Systematics. Sunderland USA, Sinauer Associates Inc.
20. Ruzzante DE, (1998) A comparison of several measures of genetic distance and population structure with microsatellite data: bias and sampling variance. Can. J. Fish. Aquat. Sci. 55: 1-14.
21. Kalinowski ST, (2005) Do polymorphic loci require large sample sizes to estimate genetic distances? Heredity 94: 33-36.