Development and evaluation of microsatellite markers for identification of individual Greenshell™ mussels (Perna canaliculus) in a selective breeding programme

Aquaculture

Volumn 274, Issue 1, 2008, Pages 41-48

  MacAvoy, Elizabeth S ^a   Wood, Ann R ^a   Gardner, Jonathan P A ^a  

^a VICTORIA UNIVERSITY OF WELLINGTON   (New Zealand)

Author keywords

Greenshell mussels; Microsatellites; Null alleles; Parentage assignment; Perna canaliculus

Indexed keywords

ALLELE; BIOMARKER; BIVALVE; ENDEMIC SPECIES; HATCHERY; IDENTIFICATION METHOD; POLYMERASE CHAIN REACTION; POLYMORPHISM; SELECTIVE BREEDING;

AUSTRALASIA; NEW ZEALAND;

PERNA; PERNA CANALICULUS;

EID: 37449014878     PISSN: 00448486     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.aquaculture.2007.11.003     Document Type: Article

References (38)

1. Ardren W.R., Borer S., Thrower F., Joyce J.E., and Kapuscinski A.R. Inheritance of 12 microsatellite loci in Oncorhynchus mykiss. J. Heredity 90 (1999) 529-536
2. Bernatchez L., and Duchesne P. Individual based genotype analysis in studies of parentage and population assignment: how many loci, how many alleles?. Can. J. Fish. Aquat. Sci. 57 (2000) 1-12
3. Blouin M.S. DNA-based methods for pedigree reconstruction and kinship analysis in natural populations. Trends Ecol. Evol. 18 (2003) 503-511
4. Boudry P., Collet B., Cornette F., Hervouet V., and Bonhomme F. High variance in reproductive success of the Pacific oyster (Crassostrea gigas, Thunberg) revealed by microsatellite-based parentage analysis of multifactorial crosses. Aquaculture 204 (2002) 283-296
5. n microsatellite markers. Am. J. Genet. 52 (1993) 922-927
6. Craighead L., Paetkau D., Reynolds H.V., Vyse E.R., and Strobeck C. Microsatellite analysis of paternity and reproduction in Arctic grizzly bears. J. Heredity 86 (1995) 255-261
7. Curole J.P., and Hedgecock D. High frequency of SNPs in the Pacific oyster genome. Plant and Animal Genomes XIII Conference, San Diego, U.S.A (2005). http://intl-pag.org/13/abstracts/PAG13_W026.html Available at http://intl-pag.org/13/abstracts/PAG13_W026.html
8. Dakin E.E., and Avise J.C. Microsatellite null alleles in parentage analysis. Heredity 93 (2004) 504-509
9. Estoup A., Gharbi K., SanCristobal M., Chevalet C., Haffray P., and Guyomard R. Parentage assignment using microsatellites in turbot (Scopthalmus maximus) and rainbow trout (Oncorhynchus mykiss) hatchery populations. Can. J. Fish. Aquat. Sci. 55 (1998) 715-725
10. Ewen K.R., Bahlo M., Treloar S.A., Levinson D.F., Mowry B., Barlow J.W., and Foote S.J. Identification and analysis of error types in high-throughout genotyping. Am. J. Hum. Genet. 67 (2000) 727-736
11. Garcia de Leon F.J., Canonne M., Quillet E., Bonhomme F., and Chatain B. The application of microsatellite markers to breeding programmes in the sea bass, Dicentrarchus labrax. Aquaculture 159 (1998) 303-316
12. Goldstein D.B., and Schlotterer C. Microsatellites: Evolution and Applications (1999), Oxford University Press, New York
13. Guo S.W., and Thompson E.A. Performing the exact test of Hardy-Weinberg proportions for multiple alleles. Biometrics 48 (1992) 361-372
14. Hamilton M.B., Pincus E.L., Di Fiore A., and Fleischer R.C. Universal linker and ligation procedures for construction of genomic DNA libraries enriched for microsatellites. Biotechniques 27 (1999) 500-507
15. Hara M., and Sekino M. Efficient detection of parentage in a cultured Japanese flounder Paralichthys olivaceus using microsatellite DNA marker. Aquaculture 217 (2003) 107-114
16. Hedgecock D., Li G., Hubert S., Bucklin K., and Ribes V. Widespread null alleles and poor cross-species amplification of microsatellite DNA loci cloned from the Pacific oyster, Crassostrea gigas. J. Shellfish Res. 23 (2004) 379-385
17. Jeffs A.G., Holland R.C., Hooker S.H., and Hayden B.J. Overview and bibliography of research on the greenshell mussel, Perna canaliculus, from New Zealand waters. J. Shellfish Res. 18 (1999) 347-360
18. Jerry D.R., Preston N.P., Crocos P.J., Keys S., Meadows J.R.S., and Li Y. Parentage determination of Kuruma shrimp Penaeus (Marsupenaeus) japonicus using microsatellite markers (Bate). Aquaculture 235 (2004) 237-247
19. Jerry D.R., Evans B.S., Kenway M., and Wilson K. Development of a microsatellite DNA parentage marker suite for black tiger shrimp Penaeus monodon. Aquaculture 255 (2006) 542-547
20. Jones A.G., and Ardren W.R. Methods of parentage analysis in natural populations. Mol. Ecol. 12 (2003) 2511-2523
21. Kalinowski S.T., Taper M.L., and Marshall T.C. Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol. Ecol. 16 (2007) 1099-1106
22. Launey S., and Hedgecock D. High genetic load in the Pacific oyster Crassostrea gigas. Genetics 159 (2001) 255-265
23. Li Q., Park C., Kobayashi T., and Kijima A. Inheritance of microsatellite DNA markers in the Pacific abalone Haliotis discus hannai. Mar. Biotechnol. 5 (2003) 331-338
24. Light E. Paris to Perth, Shanghai to New York: they're loving our seafood. Seaf. N. Z. 15 (2007) 8-11
25. Liu Z.J., and Cordes J.F. DNA marker technologies and their applications in aquaculture genetics. Aquaculture 238 (2004) 1-37
26. MacAvoy E.S., McGibbon L.M., Sainsbury J.P., Lawrence H., Wilson C.A., Daugherty C.H., and Chambers G.K. Genetic variation in island populations of tuatara (Sphenodon spp) inferred from microsatellite markers. Conserv. Genet. 8 (2007) 305-318
27. 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
28. McGoldrick D.J., Hedgecock D., English L., Baoprasertkul P., and Ward R.D. The transmission of microsatellite alleles in Australian and North American stocks of the Pacific oyster (Crassostrea gigas): selection and null alleles. J. Shellfish Res. 19 (2000) 779-788
29. n repeats in the European flat oyster Ostrea edulis L. Mol. Mar. Biol. Biotechnol. 4 (1995) 83-89
30. Norris A.T., Bradley D.G., and Cunningham E.P. Parentage and relatedness determination in farmed Atlantic salmon (Salmo salar) using microsatellite markers. Aquaculture 182 (2000) 73-83
31. 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
32. Pasqualotto A.C., Denning D.W., and Anderson M.J. A cautionary tale: lack of consistency in allele sizes between two laboratories for a published multilocus microsatellite typing system. J. Clin. Microbiol. 45 (2007) 522-528
33. Pemberton J.M., Slate J., Bancroft D.R., and Barrett J.A. Nonamplifying alleles at microsatellite loci: a caution for parentage and population studies. Mol. Ecol. 4 (1995) 249-252
34. Raymond M., and Rousset F. GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism. J. Heredity 86 (1995) 248-249
35. Reece K.S., Ribeiro W.L., Gaffney P.M., Carnegie R.B., and Allen Jr. S.K. Microsatellite marker development and analysis in the Eastern oyster (Crassostrea virginica): confirmation of null alleles and non-Mendelian segregation ratios. J. Heredity 95 (2004) 346-352
36. Rice W. Analyzing tables of statistical tests. Evolution 43 (1989) 223-225
37. Vandeputte M., Kocour M., Mauger S., Dupont-Nivet M., De Guerry D., Rodina M., Gela D., Vallod D., Chevassus B., and Linhart O. Heritability estimates for growth-related traits using microsatellite parentage assignment in juvenile common carp (Cyprinus carpio L.). Aquaculture 235 (2004) 223-236
38. Wilson A.J., and Ferguson M.M. Molecular pedigree analysis in natural populations of fishes: approaches, applications, and practical considerations. Can. J. Fish. Aquat. Sci. 59 (2002) 1696-1707