An empirical evaluation of genetic distance statistics using microsatellite data from bear (Ursidae) populations

Genetics

Volumn 147, Issue 4, 1997, Pages 1943-1957

  Paetkau, David ^a,e   Waits, Lisette P ^b   Clarkson, Peter L ^c   Craighead, Lance ^d   Strobeck, Curtis ^a,f  

^a UNIVERSITY OF ALBERTA   (Canada)

^b UNIVERSITY OF UTAH SCHOOL OF MEDICINE   (United States)

^c DEPARTMENT OF ENVIRONMENT AND NATURAL RESOURCES   (Canada)

^d MONTANA STATE UNIVERSITY   (United States)

^e UNIV GRENOBLE ALPES   (France)

^f Gwich'in Renewable Resource Board   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

MICROSATELLITE DNA;

ANIMAL EXPERIMENT; ARTICLE; BEAR; CONTROLLED STUDY; GENETIC DISTANCE; GENETIC MARKER; GEOGRAPHIC DISTRIBUTION; NONHUMAN; PRIORITY JOURNAL; SPECIES DIFFERENCE; STATISTICAL ANALYSIS;

ALLELES; ANIMALS; EVALUATION STUDIES; MICROSATELLITE REPEATS; MODELS, GENETIC; MODELS, STATISTICAL; PHYLOGENY; URSIDAE; VARIATION (GENETICS);

ANIMALIA; URSIDAE; URSUS ARCTOS; URSUS MARITIMUS;

EID: 0030782517     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (52)

1. AMOS, W., and D. C. RUBINSZTEIN, 1996 Microsatellitcs are subject to directional evolution. Nature Genet. 12: 13-14.
2. AMOS, W., S. J. SAWCER, R. W. FEAKES and D. C. RUBINSZTEIN, 1996 Microsatellites show mutational bias and heterozygote instability. Nature Genet. 13: 390-391.
3. BANFIELD, A. W. F., 1987 The Mammals of Canada. University of Toronto Press, Toronto.
4. BOWCOCK, A. M., A. RUIZ-LlNARES, J. TOMFOHRDE, E. MlNCII, J. R. KIDD et al., 1994 High resolution of human evolutionary trees with polymorphic microsatellitcs. Nature 368: 455-457.
5. BRUFORD, M. W., and R. K. WAYNE, 1993 Microsatellites and their application to population genetic studies. Curr. Opin. Genet. Devel. 3: 939-943.
6. GALLEN, D. F., A. D. THOMPSON, Y. SIIEN, H.A. PHILLIPS, R. I. RICHARDS et al., 1993 Incidence and origin of "null" alleles in the (AC) microsatellite markers. Am.J. Hum. Genet. 52: 922-927.
7. CAN-FIELD, J., and A. L. HARTING, 1987 Home range and movements, pp. 27-35 in Grizzly Bear Compendium, edited byM. N.J. LEFRANC, M. B. MOSS, K. A. PATNODE and W. C. I. SUGG. National Wildlife Federation, Washington, DC.
8. CHAKRABORTY, R., and M. NEI, 1976 Bottleneck effects on average heterozygosity and genetic distance with the stepwise mutation model. Evolution 31: 347-356.
9. CRAIGHEAD, L., D. PAETKAU, H. V. REYNOLDS, E. R. VYSE and C. STROBECK, 1995 Microsatellite analysis of paternity and reproduction in Arctic grizzly bears. J. Hered. 86: 255-261.
10. DYKE, A. S., and V. K. PREST, 1987 Late Wisconsinan and Holocene history of the Laurentide ice sheet. Geogr. Phys. Quat. 41: 237-263.
11. EICHLER, E. E., J. J. A. HOLDEN, B. W. POPOVICH, A. L. REISS, K. SNOW et al., 1994 Length of uninterrupted CGG repeats determines instability in the FMR1 gene. Nat. Genet. 8: 88-94.
12. ELLEGREN, H., C. R. PRIMMER and B. C. SIIELDON, 1995 Microsatellite "evolution": directionality or bias? Nat. Genet. 11: 360-362.
13. FELDMAN, M. W., A. BERGMAN, D. D. POLLOCK and D. B. GOLDSTEIN, 1997 Microsatellite genetic distances with range constraints: analytic description and problems of estimation. Genetics 145: 207-216.
14. FITZSIMMONS, N. N., C. MORITZ and S. S. MOORE, 1995 Conservation and dynamics of microsatellite loci over 300 million years of marine turtle evolution. Mol. Biol. Evol. 12: 432-440.
15. FLINT, R. F., 1971 Glacial and Quaternary Geology. John Wiley & Sons, New York.
16. FORBES, S. H., J. T. HOGG, F. C. BUCHANAN, A. M. CRAWFORD and F. W. ALLENDORF, 1995 Microsatellite evolution in congeneric mammals: domestic and bighorn sheep. Mol. Biol. Evol. 12: 1106-1113.
17. GARZA, J. C., M. SLATKIN and N. B. FREIMER, 1995 Microsatellite allele frequencies in humans and chimpanzees, with implications for constraints on allele size. Mol. Biol. Evol. 12: 594-603.
18. GOLDSTEIX, D. B., A. Ruiz LINARES, L. L. CAVALLI-SFORZA and M. W. FELDMAN, 1995a An evaluation of genetic distances for use with microsatellite loci. Genetics 139: 463-471.
19. GOLDSTEIN, D. B., A. RUIZ LINARES, L. L. CAVAI.LI-SFORZA and M. W. FELDMAN, 1995b Genetic absolute dating based on microsatellites and the origin of modern humans. Proc. Nat. Acad. Sci. USA 92: 6723-6727.
20. GUO, S. W., and E. A. THOMPSON, 1992 Performing the exact test of Hardy-Weinberg proportion for multiple alleles. Biometrics 48: 361-372.
21. KIMURA, M., and J. F. CROW, 1964 The number of alleles that can be maintained in a finite population. Genetics 49: 725-738.
22. MCLACHLAN, G. J., 1992 Discriminant Analysis and Statistical Pattern Recognition. John Wiley & Sons, New York.
23. MCLELLAN, B., and D. C. REINER, 1994 A review of bear evolution. Int. Conf. Bear Res. Manag. 9: 85-96.
24. NAUTA, M.J., and F.J. WEISSING, 1996 Constraints on allele size at microsatellite loci: implications for genetic differentiation. Genetics 143: 1021-1032.
25. NEI, M., 1972 Genetic distance between populations. Am. Nat. 106: 283-292.
26. NEI, M., 1987 Molecular and Evolutionary Genetics. Columbia University Press, New York.
27. NEI, M., and A. K. ROYCHOUDHURY, 1975 Sampling variances of heterozygosity and genetic distance. Genetics 76: 379-390.
28. NEI, M., F. TAJIMA and Y. TATENO, 1983 Accuracy of estimated phylogenetic trees from molecular data. J. Mol. Evol. 19: 153-170.
29. OHTA, T., and M. KIMURA, 1973 A model of mutation appropriate to estimate the number of electrophoretically detectable alleles in a finite population. Genet. Res. 22: 201-204.
30. OSTRANDER, E. A., G. F. SPRAGUE and J. RlNE, 1993 Identification and characterization of dinucleolide repeat (CA) markers for genetic mapping in dog. Genomics 16: 207-213.
31. PAETKAU, D., and C. STROBECK, 1994 Microsatellite analysis of genetic variation in black bear populations. Mol. Ecol. 3: 489-495.
32. PAETKAU, D., and C. STROBECK, 1995 The molecular basis and evolutionary history of a microsatellite null allele in bears. Mol. Ecol. 4: 519-520.
33. PAETKAU, D., and C. STROBECK, 1996 Mitochondrial DNA and the phylogeography of Newfoundland black bears. Can. J. Zool. 74: 192-196.
34. PAETKAU, D., W. GU.VERT, I. STIRLING and C. STROBECK, 1995 Microsatellite analysis of population structure in Canadian polar bears. Mol. Ecol. 4: 347-354.
35. PAETKAU, D., L. P. WAITS, P. L. CLARKSON, L. CRAIGHEAD, E. VYSE et al., 1997 Variation in genetic diversity across the range of North American brown bears. Conserv. Biol. (in press).
36. PEMBERTON, J. M., J. SLATE, D. R. BANCROFT andj. A. BARRET, 1995 Nonamplifying alleles at microsatellite loci: a caution for parentage and population studies. Mol. Ecol. 4: 249-252.
37. QUELLER.D. C.J. E.STRASSMANXandC. R.HUGIIES, 1993 Microsatellites and kinship. Trends Ecol. Evol. 8: 285-288.
38. RUBINSZTEIN, D. C., W. AMOS, J. LEGGO, S. GOODBURN, S. JAIN- et al., 1995 Microsatellite evolution-evidence for directionality and variation in rate between species. Nat. Genet. 10: 337-343.
39. SlIRIVER, M. D., L. JlN, E. BOERWINKLE, R. DEKA, R. E. FERRELL et al., 1995 A novel measure of genetic distance for highly polymorphic tandem repeat loci. Mol. Biol. Evol. 12: 914-920.
40. SLATKIN, M., 1995 A measure of population subdivision based on microsatellite allele frequencies. Genetics 139: 457-462.
41. SOKAL, R. R., and F. J. ROHLF, 1995 Biometry. W. H. Freeman, NewYork.
42. STIRLING, I., 1993 Bears, Majestic Creatures of the Wild. Rodale Press, Emmaus, PA.
43. TAKEZAKI, N., and M. NEI, 1996 Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genetics 144: 389-399.
44. TALBOT, S. L., and G. F. SHIELDS, 1996a A phytogeny of the bears (Ursidae) inferred from complete sequences of three mitochondrial genes. Mol. Phylogenet. Evol. 5: 567-575.
45. TALBOT, S. L., and G. F. SHIELDS, 1996b Phylogeography of brown bears ( Ursus arctos) of Alaska and paraphyly within the Ursidae. Mol. Phylogenet. Evol. 5: 477-494.
46. TAUTZ, D., and M. RENZ, 1984 Simple sequences are ubiquitous components of eukaryotic genomes. Nucleic Acids Res. 12:4127-4138.
47. TAYLOR, M., andj. LEE, 1995 Distribution and abundance of Canadian polar bear populations: a management perspective. Arctic 48: 147-154.
48. WAHLUND, S., 1928 Zusammensetzung von populationen und korrelationserscheinungen vom Standpunkt der Vererbungslehre aus betrachtet. Hereditas 11: 65-106.
49. WAITS, L. P., 1996 A comprehensive molecular study of the evolution and genetic variation of bears, Ph.D. Thesis. University of Utah, Salt Lake City.
50. WAITS, L. P., S. TALBOT, R. H. WARD and G. F. SHIELDS, 1997 Mitochondrial DNA phylogeography of the North American brown bear and implications for conservation. Conserv. Biol. ( in press).
51. WEBER,J. L., and C. WONG, 1993 Mutation of human short tandem repeats. Human Mol. Genet. 2: 1123-1128.
52. ZHANG, L., E. P. LEEFANG, J. Yu and N. ARNHEIM, 1994 Studying human mutations by sperm typing: instability of CAG trinucleotide repeats in the human androgen receptor gene. Nat. Genet. 7: 531-535.