Informativeness of genetic markers for pairwise relationship and relatedness inference

Theoretical Population Biology

Volumn 70, Issue 3, 2006, Pages 300-321

  Wang, Jinliang ^a  

^a INSTITUTE OF ZOOLOGY   (United Kingdom)

Author keywords

Genetic markers; Information content; Kinship; Population structure; Probability of identity by descent; Relatedness

Indexed keywords

MICROSATELLITE DNA;

ALGORITHM; GENETIC ALGORITHM; GENETIC MARKER; GENOTYPE; INFORMATION; RELATEDNESS;

ALGORITHM; ANIMAL; ARTICLE; BIOLOGICAL MODEL; DIPLOIDY; DISCRIMINANT ANALYSIS; DNA FINGERPRINTING; DOMINANT GENE; EPIDEMIOLOGY; GENE FREQUENCY; GENETIC MARKER; GENETIC VARIABILITY; GENETICS; GENOTYPE; HAPLOIDY; HUMAN; INFORMATION SCIENCE; INHERITANCE; METHODOLOGY; MUTATION; NONPARAMETRIC TEST; PATERNITY; PEDIGREE; PHENOTYPE; PROBABILITY; SENSITIVITY AND SPECIFICITY; STANDARD; STATISTICAL MODEL; VALIDATION STUDY;

ALGORITHMS; ANIMALS; BIAS (EPIDEMIOLOGY); DIPLOIDY; DISCRIMINANT ANALYSIS; DNA FINGERPRINTING; GENE FREQUENCY; GENES, DOMINANT; GENETIC MARKERS; GENETIC VARIATION; GENOTYPE; HAPLOIDY; HUMANS; INFORMATION THEORY; INHERITANCE PATTERNS; LIKELIHOOD FUNCTIONS; MICROSATELLITE REPEATS; MODELS, GENETIC; MUTATION; PATERNITY; PEDIGREE; PHENOTYPE; PROBABILITY; SENSITIVITY AND SPECIFICITY; STATISTICS, NONPARAMETRIC; VARIATION (GENETICS);

EID: 33749261284     PISSN: 00405809     EISSN: 10960325     Source Type: Journal    
DOI: 10.1016/j.tpb.2005.11.003     Document Type: Article

References (39)

1. Blouin M.S. DNA-based methods for pedigree reconstruction and kinship analysis in natural populations. Trends Ecol. Evol. 18 (2003) 503-511
2. Blouin M.S., Parsons M., Lacaille V., and Lotz S. Use of microsatellite loci to classify individuals by relatedness. Mol. Ecol. 5 (1996) 393-401
3. Bonin A., Bellemain E., Bronken Eidesen P., et al. How to track and assess genotyping errors in population genetics studies. Mol. Ecol. 13 (2004) 3261-3273
4. Chakraborty R., Meagher T.R., and Smouse P.E. Parentage analysis with genetic markers in natural populations. I. The expected proportion of offspring with unambiguous paternity. Genetics 118 (1988) 527-536
5. Conrad K.F., Clarke M.F., Roberston R.J., and Boag P.T. Paternity and the relatedness of helpers in the cooperatively breeding bell miner. Condor 100 (1998) 343-349
6. Cover T.M., and Thomas J.A. Elements of Information Theory (1991), Wiley, New York
7. Dodds K.G., Tate M.L., McEwan J.C., and Crawford A.M. Exclusion probabilities for pedigree testing farm animals. Theor. Appl. Genet. 92 (1996) 966-975
8. Goodnight K.F., and Queller D.C. Computer software for performing likelihood tests of pedigree relationship using genetic markers. Mol. Ecol. 8 (1999) 1231-1234
9. Hammond R.L., Bruford M.W., and Bourke A.F.G. Ant workers sefishly bias sex ratios by manipulating female development. Proc. Royal Soc. London 269 (2001) 173-178
10. Hardy O.J. Estimation of pairwise relatedness between individuals and characterization of isolation-by-distance processes using dominant genetic markers. Mol. Ecol. 12 (2003) 1577-1588
11. Jamieson A., and Taylor S.C.S. Comparisons of three probability formulae for parentage exclusion. Anim. Genet. 28 (1997) 397-400
12. Jacquard A. Genetic information given by a relative. Biometrics 28 (1972) 1101-1114
13. Jones K.L., Glenn T.C., Lacy R.C., et al. Refining the wooping crane studbook by incorporating microsatellite DNA and leg-banding analyses. Conser. Biol. 16 (2002) 789-799
14. Kempenaers B., Verheyen G.R., and Dhondt A.A. Extrapair paternity in the blue tit (Parus caeruleus): female choice, male characteristics, and offspring quality. Behav. Ecol. 8 (1997) 481-492
15. Li C.C., Weeks D.E., and Chakravarti A. Similarity of DNA fingerprints due to chance and relatedness. Hum. Hered. 43 (1993) 45-52
16. Lynch M. Estimation of relatedness by DNA fingerprinting. Mol. Biol. Evol. 5 (1988) 584-599
17. Lynch M., and Milligan B.G. Analysis of population genetic-structure with RAPD markers. Mol. Ecol. 3 (1994) 91-99
18. Lynch M., and Ritland K. Estimation of pairwise relatedness with molecular markers. Genetics 152 (1999) 1753-1766
19. Lynch M., and Walsh B. Genetics and Analysis of Quantitative Traits (1998), Sinauer Associates, Sunderland, MA
20. Marshall T.C., Slate J., Kruuk L.E.B., and Pemberton J.M. Statistical confidence for likelihood-based paternity inference in natural populations. Mol. Ecol. 7 (1998) 639-655
21. Martinez J.G., Burke T., Dawson D., et al. Microsatellite typing reveals mating patterns in the brood parasitic great spotted cuckoo (Clamator glandarius). Mol. Ecol. 7 (1998) 289-297
22. Milligan B.G. Maximum-likelihood estimation of relatedness. Genetics 163 (2003) 1153-1167
23. Queller D.C., and Goodnight K.F. Estimating relatedness using molecular markers. Evolution 43 (1989) 258-275
24. Queller D.C., Zacchi F., Cervo R., et al. Unrelated helpers in a social insect. Nature 405 (2000) 784-787
25. O'Reilly P.T., Herbinger C., and Wright J.M. Analysis of parentage determination in Atlantic salmon (Salmo salar) using microsatellites. Anim. Genet. 29 (1998) 363-370
26. Ritland K. Estimators for pairwise relatedness and inbreeding coefficients. Genet. Res. 67 (1996) 175-186
27. Rosenberg N.A., Li L.M., Ward R., and Pritchard J.K. Informativeness of genetic markers for inference of ancestry. Am. J. Hum. Genet. 73 (2003) 1402-1422
28. SanCristobal M., and Chevalet C. Error tolerant parent identification from a finite set of individuals. Genet. Res. 70 (1997) 53-62
29. Sieberts S.K., Wijsman E.M., and Thompson E.A. Relationship inference from trios of individuals, in the presence of typing error. Am. J. Hum. Genet. 70 (2002) 170-180
30. Smouse P.E., and Meagher T.R. Genetic analysis of male reproductive contributions in Chamaelium luteum (L.) Gray (Liliaceae). Genetics 136 (1994) 313-322
31. Soukup S.S., and Thompson C.F. Social mating system and reproductive success in house wrens. Behav. Ecol. 9 (1998) 43-48
32. Streiff R., Ducousso A., Lexer C., et al. Pollen dispersal inferred from paternity analysis in a mixed oak stand of Quercus robur L. and Q. petraea (Matt.) Liebl. Mol. Ecol. 8 (1999) 831-841
33. Thompson E.A. The estimation of pairwise relationships. Ann. Hum. Genet. 39 (1975) 173-188
34. Thomas S.C., Pemberton J.M., and Hill W.G. Estimating variance components in natural populations using inferred relationships. Heredity 84 (2000) 427-436
35. Van de Casteele T., Galbusera P., and Matthysen E. A comparison of microsatellite-based pairwise relatedness estimates. Mol. Ecol. 10 (2001) 1539-1549
36. Wang J. An estimator for pairwise relatedness using molecular markers. Genetics 160 (2002) 1203-1215
37. Wang J. Sibship reconstruction from genetic data with typing errors. Genetics 166 (2004) 1963-1979
38. Wang J. Estimating pairwise relatedness from dominant genetic markers. Mol. Ecol. 13 (2004) 3169-3178
39. Weir B.S. Genetic Data Analysis II (1996), Sinauer Associates, Sunderland, Massachusetts pp. 209-212