Statistical analysis of individual assignment tests among four cattle breeds using fifteen STR loci

Journal of Animal Science

Volumn 84, Issue 1, 2006, Pages 11-19

  Ciampolini, R ^a   Cetica, V ^a   Ciani, E ^a   Mazzanti, E ^a   Fosella, X ^c   Marroni, F ^c   Biagetti, M ^b   Sebastiani, C ^b   Papa, P ^b   Filippini, G ^b   Cianci, D ^a   Presciuttini, S ^c  

^a Dipartimento di Produzioni Animali   (Italy)

^b ISTITUTO ZOOPROFILATTICO SPERIMENTALE DELL UMBRIA E DELLE MARCHE   (Italy)

^c Centro di Genetica Statistica   (Italy)

Author keywords

Assignment test; Cattle breed; Genetic diversity; Microsatellite loci; Statistical power

Indexed keywords

ANIMALIA; BOS TAURUS;

EID: 33748789621     PISSN: 00218812     EISSN: None     Source Type: Journal    
DOI: 10.2527/2006.84111x     Document Type: Article

References (35)

1. Bjornstad, G., and K. H. Roed. 2001. Breed demarcation and potential for breed allocation of horses assessed by microsatellite markers. Anim. Genet. 32:59-65.
2. Bjornstad, G., and K. H. Roed. 2002. Evaluation of factors affecting individual assignment precision using microsatellite data from horse breeds and simulated breed crosses. Anim. Genet. 33:264-270.
3. Blott, S. C., J. L. Williams, and C. S. Haley. 1999. Discriminating among cattle breeds using genetic markers. Heredity 82:613-619.
4. Buchanan, F. C., L. J. Adams, R. P. Littlejohn, J. F. Maddox, and A. M. Crawford. 1994. Determination of evolutionary relationships among sheep breeds using microsatellites. Genomics 22:397-403.
5. Casellas, J., N. Jimenez, M. Fina, J. Tarres, A. Sanchez, and J. Piedrafita. 2004. Genetic diversity measures of the bovine Alberes breed using microsatellites: Variability among herds and types of coat colour. J. Anim. Breed. Genet. 121:101-110.
6. Ciampolini, R., H. Leveziel, E. Mazzanti, C. Grohs, and D. Cianci. 2000. Genomic identification of the breed of an individual or its tissue. Meat Sci. 54:35-40.
7. Ciampolini, R., K. Moazami-Goudarzi, D. Vaiman, C. Dillmann, E. Mazzanti, J. L. Foulley, H. Leveziel, and D. Cianci. 1995. Individual multilocus genotypes using microsatellite polymorphisms to permit the analysis of the genetic variability within and between Italian beef cattle breeds. J. Anim. Sci. 73:3259-3268.
8. Davies, N., F. X. Villablanca, and G. K. Roderick. 1999. Determining the source of individuals: Multilocus genotyping in nonequilibrium population genetics. Trends Ecol. Evol. 14:17-21.
9. Edwards, A. W. F. 1992. Likelihood-Expanded Edition. The Johns Hopkins Univ. Press, Baltimore, MD.
10. Farnir, F., W. Coppieters, J. J. Arranz, P. Berzi, N. Cambisano, B. Grisait, L. Karim, F. Marcq, L. Moreau, M. Mni, C. Nezer, P. Simon, P. Vanmanshoven, D. Wagenaar, and M. Georges. 2000. Extensive genome-wide linkage disequilibrium in cattle. Genome Res. 10:220-227.
11. Guinand, B., A. Topchy, K. S. Page, M. K. Burnham-Curtis, W. F. Punch, and K. T. Scribner. 2002. Comparisons of likelihood and machine learning methods of individual classification. J. Hered. 93:260-269.
12. Jeanpierre, M. 1987. A rapid method for the purification of DNA from blood. Nucleic Acids Res. 15:9611.
13. Jordana, J., P. Alexandrino, A. Beja-Pereira, I. Bessa, J. Canon, Y. Carretero, S. Dunner, D. Laloe, K. Moazami-Goudarzi, A. Sanchez, and N. Ferrand. 2003. Genetic structure of eighteen local south european beef cattle breeds by comparative F-statistics analysis. J. Anim. Breed. Genet. 120:73-87.
14. Koskinen, M. T. 2003. Individual assignment using microsatellite DNA reveals unambiguous breed identification in the domestic dog. Anim. Genet. 34:297-301.
15. Manel, S., P. Berthier, and G. Lukart. 2002. Detecting wildlife poaching identifying the origin of individuals with bayesian assignment test and multilocus genotypes. Conserv. Biol. 16:650-659.
16. Maudet, C., G. Luikart, and P. Taberlet. 2002. Genetic diversity and assignment tests among seven French cattle breeds based on microsatellite DNA analysis. J. Anim. Sci. 80:942-950.
17. McKean, J. D. 2001. The importance of traceability for public health and consumer protection. Rev. Sci. Tech. 20:363-371.
18. Moioli, B., F. Napolitano, and G. Catillo. 2004. Genetic diversity between Piedmontese, Maremmana, and Podolica cattle breeds. J. Hered. 95:250-256.
19. Narrod, C. A., and K. O. Fuglie. 2000. Private-sector investment in livestock breeding. Agribusiness 4:457-470.
20. Paetkau, D., W. Calvert, I. Stirling, and C. Strobeck. 1995. Microsatellite analysis of population structure in Canadian polar bears. Mol. Ecol. 4:347-354.
21. Paetkau, D., G. F. Shields, and C. Strobeck. 1998. Gene flow between insular, coastal and interior populations of brown bears in Alaska. Mol. Ecol. 7:1283-1292.
22. Paetkau, D., R. Slade, M. Burden, and A. Estoup. 2004. Genetic assignment methods for the direct, real-time estimation of migration rate: A simulation-based exploration of accuracy and power. Mol. Ecol. 13:55-65.
23. Presciuttini, S., G. Paoli, and M. Franceschi. 1990. Surname versus gene structure of a small isolate. Ann. Hum. Genet. 54:79-90.
24. Primmer, C. R., M. T. Koskinen, and J. Piironen. 2000, The one that did not get away: Individual assignment using microsatellite data detects a case of fishing competition fraud. Proc. R. Soc. Lond. B Biol. Sci. 267:1699-1704.
25. Pritchard, J. K., M. Stephens, and P. Donnelly. 2000. Inference of population structure using multilocus genotype data. Genetics 155:945-959.
26. Rannala, B., and J. L. Mountain. 1997. Detecting immigration by using multilocus genotypes. Proc. Natl. Acad. Sci. USA 94:9197-9201.
27. Roques, S., P. Duchesne, and L. Bernatchez. 1999. Potential of microsatellites for individual assignment: The North Atlantic redfish (genus Sebastes) species complex as a case study. Mol. Ecol. 8:1703-1717.
28. SanCristobal, M., C. Chevalet, J. L. Foulley, and L. Ollivier. 2003. Some methods for analysing genetic marker data in biodiversity setting-example of the pigbiodiv data. Archives de Zootecnia 52:173-183.
29. Schmid, M., N. Saitbekova, C. Gaillard, and G. Dolf. 1999. Genetic diversity in Swiss cattle breeds. J. Anim. Breed. Genet. 116:1-8.
30. Schneider, S., D. Roessli, and L. Excoffier. 2000. Arlequin ver 2.000: A software for population genetics data analysis. Genetics and Biometry Laboratory, University of Geneva, Switzerland.
31. Sokal, R. R., and F. J. Rohlf. 1995. Biometry. 3rd ed. W. H. Freeman and Co., New York, NY.
32. Steffer, P., A. Eggen, A. B. Dietz, J. E. Womack, G. Stranzinger, and R. Fries. 1993. Isolation and mapping of polymorphic microsatellites in cattle. Anim. Genet. 24:121-124.
33. Vaiman, D., D. Mercier, K. Goudarzi, A. Eggen, R. Ciampolini, A. Lepingle, R. Velmala, J. Kaukinen, S. L. Varvio, P. Martin, H. Leveziel, and G. Guerin. 1994. A set of 99 cattle microsatellites: Characterization, synteny mapping, and polymorphism. Mammal. Genome 5:288-297.
34. Waser, P. M., and C. Strobeck. 1998. Genetic signature of interpopulation dispersal. Trends Ecol. Evol. 13:43-44.
35. Weir, B. S. 1996. Genetic Data Analysis II. Sinauer, Sunderland, MA.