Selection strategy for a seedling seed orchard design based on trait selection index and genomic analysis by molecular markers: A case study for Eucalyptus dunnii

Tree Physiology

Volumn 25, Issue 11, 2005, Pages 1457-1467

  Zelener, Noga ^a   Marcucci Poltri, Susana N ^a   Bartoloni, Norberto ^b   López, Carlos R ^c   Hopp, Horacio E ^a,b  

^a INSTITUTO NACIONAL DE TECNOLOGÍA AGROPECUARIA INTA   (Argentina)

^b UNIVERSIDAD DE BUENOS AIRES   (Argentina)

^c UNIVERSIDAD NACIONAL DE SANTIAGO DEL ESTERO   (Argentina)

Author keywords

AFLP; AMOVA; DNA fingerprinting; Forest tree improvement; Genetic diversity; Genetic relationship; Microsatellites; Population genetic structure; Simple sequence repeats (SSRs)

Indexed keywords

DNA FINGERPRINTING; GENETIC VARIATION; PLANT BREEDING; PROVENANCE TRIAL; SILVICULTURE;

EUCALYPTUS; EUCALYPTUS DUNNII;

EID: 28444492616     PISSN: 0829318X     EISSN: None     Source Type: Journal    
DOI: 10.1093/treephys/25.11.1457     Document Type: Article

References (52)

1. Acuña, C., S. Torales, M. Marcó, L. Harrand and S. Marcucci Poltri. 2002. Análisis de la variabilidad genética de una población de mejoramiento de Eucalyptus grandis mediante marcadores moleculares. Proc. V Simposio Nacional de Biotecnología Vegetal. REDBIO, Sección C: Genética, Buenos Aires, Argentina. Trabajo C1, 87 p.
2. Báez, M.N. 1991. Eucalyptus grandis, E. saligna y E. dunnii en la Mesopotamia Argentina. Jornadas sobre Eucaliptos de Alta Productividad. CIEF. Proc. Vol. II. Buenos Aires, Argentina, pp 280-289.
3. Belaj, A., Z. Satovic, G. Cipriani, L. Baldoni, R. Testolin, L. Rallo and I. Trujillo. 2003. Comparative study of the discriminating capacity of RAPD, AFLP and SSR markers and of their effectiveness in establishing genetic relationships in olive. Theor. Appl. Genet. 107:736-744.
4. Brondani, R.P.V., C. Brondani, R. Tarchini and D. Grattapaglia. 1998. Development, characterization and mapping of microsatellite markers in Eucalyptus grandis and E. urophylla. Theor. Appl. Genet. 97:816-827.
5. Brookfield, J.F.I. 1996. A simple new method for estimating null allele frequency from heterozygote deficiency. Mol. Ecol. 5:453-455.
6. Byrne, M., M.I. Marquez-García, T. Uren, D.S. Smith and G.F. Moran. 1996. Conservation and genetic diversity of microsatellite loci in the genus Eucalyptus. Aust. J. Bot. 44:331-341.
7. Chakrabarty, R. and L. Jin. 1993. A unified approach to study hypervariable polymorphisms: statistical considerations of determining relatedness and population distances. In DNA Fingerprinting: State of the Science. Eds. S.D.J. Pena, R. Chakraborty, J.T. Epplen and A.J. Jeffreys. Birkhauser Verlag, Basel, Switzerland, pp 153-175.
8. Cortezzi Graça, M.E. 1987. Avaliação do Florescimento e do Potencial de Produção de Sementes de Eucalyptus dunnii Maid. no Brazil. Bol. Pesq. Flor., EMBRAPA-CNPF. Curitiba, Brazil. 14:1-12.
9. David, A., C. Pike and R. Stine. 2003. Comparison of selection methods for optimizing genetic gain and gene diversity in a red pine (Pinus resinosa Ait.) seedling seed orchard. Theor. Appl. Genet. 107:843-849.
10. Duarte Pereyra, J.C., A.R. Higa, J.Y. Shimizu and R.C.V. Higa. 1986. Comparação da qualidade da madera de tres procedencias de Eucalyptus dunnii Maiden, para fines energéticos. Bol. Pesq. Flor., EMBRAPA-CNPF. Curitiba, Brazil. Bol. Pesq. Flor. 13:9-16.
11. Excoffier, L., P. Smouse and J. Quattro. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131:479-491.
12. Gaiotto, F.A. and D. Grattapaglia. 1997. Estimation of genetic variability in a breeding population of Eucalyptus urophylla using AFLP (Amplified Fragment Length Polymorphism) markers. In Proc. IUFRO Conference on Silviculture and Improvement of Eucalyptus, Salvador. Colombo EMBRAPA-CNPF, Brazil, 2:46-52.
13. Giancola, S., S. Marcucci Poltri, P. Lacaze and H.E. Hopp. 2002. Feasibility of integration of molecular markers and morphological descriptors in a real case study of a plant variety protection system for soybean. Euphytica 127:95-113.
14. Glenn, D. and J. Chaparro. 1996. Integration of molecular markers into tree breeding and improvement programs. In Tree Improvement for Sustainable Tropical Forestry. Eds. M.J. Dieters, A.C. Matheson, D.G. Nikles, C.E. Harwood and S.M. Walter, pp 472-477.
15. Goodman, S.J. 1997. RST CALC: a collection of computer programs for calculating estimates of genetic differentiation from microsatellite data and determining their significance. Mol. Ecol. 6:881-885.
16. Goudet, J. 2001. FSTAT, a program to estimate and test gene diversities and fixation indices (Version 2.9.3). http://www.unil.ch/izea/softwares/fstat. html.
17. Grattapaglia, D. 2000. Molecular breeding of Eucalyptus. State of the art, operational applications and technical challenges. In Molecular Markers and Genome Mapping in Woody Plants. Vol. I. Eds. S.M. Jain and S.C. Minocha. Kluwer Academic Publishers, Dordrecht, The Netherlands, pp 451-474.
18. Guo, S.W. and E.A. Thompson. 1992. Performing the exact test of Hardy-Weinberg proportions for multiple alleles. Biometrics 48:361-372
19. Hoisington, D.A., M.M. Khairallah and D. Gonzales de Leon. 1994. Laboratory protocols. CIMMYT Applied Molecular Genetics Laboratory. CIMMYT, Hisfoa, Mexico, DF, pp 2-5.
20. Jaccard, P. 1908. Nouvelles recherches sur la distribution florale. Bull. Soc. Vaud. Sci. Nat. 44:223-270.
21. Kang, K.S., D. Lindgren and T.J. Mullin. 2001. Prediction of genetic gain and gene diversity in seed orchard crops under alternative management strategies. Theor. Appl. Genet. 103:1099-1107.
22. Khan, I.A., J.D. Procunier, D.G. Humphreys, G. Tranquilly, A.R. Schlatter, S. Marcucci Poltri, R. Frohberg and J. Dubcovsky. 2000. Development of PCR-based markers for a high grain protein content gene from Triticum turgidum ssp. dicoccoides transferred to bread wheat. Crop Sci. 40:518-524.
23. Kirst, M., R.P.V. Brondani, C. Brondani and D. Grattapaglia. 1997. Screening of designed primer pairs for recovery of microsatellite markers and their transferability among species of Eucalyptus. In Proc. IUFRO Conf. on Silviculture and Improvement of Eucalyptus. Salvador. Colombo EMBRAPA-CNPF, Brazil 2:167-171.
24. Langella, O. 2002. POPULATIONS 1.2.28. Population genetics software. http://www.cnrs-gif.fr/pge/bioinfo/populations/index.php.
25. Lewis, P.O. and D. Zaykin. 2001. Genetic data analysis: computer program for the analysis of allelic data. Version 1.0 (d16c). http://lewis.eeb.uconn. edu/lewishome/software.html.
26. Li, Y.C., A.B. Korol, T. Fahima, A. Beiles and E. Nevo. 2002. Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review. Mol. Ecol. 11:2453-2465.
27. Lindgren, D. and T.J. Mullin. 1997. Balancing gain and relatedness in selection. Silvae Genet. 46:124-129.
28. Lowe, A., S. Harris and P. Ashton. 2004. Ecological genetics: design, analysis, and application. Blackwell Science, Oxford, UK, 326 p.
29. Lynch, M. and B.G. Milligan. 1994. Analysis of population genetic structure with RAPD markers. Mol. Ecol. 3:91-99.
30. Maguire, T.L., R. Peakall, P. Saenger. 2002. Comparative analysis of genetic diversity in the mangrove species Avicennia marina (Forsk.) Vierh. (Avicenniaceae) detected by AFLPs and SSRs. Theor. Appl. Genet. 104:388-398.
31. Maradei, D. 1987. Eucalyptus dunnii: primeros resultados en Argentina. Simposio sobre Silvicultura y Mejoramiento Genético de Especies Forestales, Vol. III, CIEF, Buenos Aires, Argentina, pp 43-52.
32. Marcó, M.A. and J.A. López. 1995. Performance of Eucalyptus grandis and Eucalyptus dunnii in the Mesopotamia Argentina. In Eucalypt Plantations: Improving Fibre Yield and Quality. Proc. CRCTHF-IUFRO Conf., February 19-24, 1995, Hobart, Tasmania, Australia, pp 40-45.
33. Marcó, M. and T.L. White. 2002. Genetic parameters estimates and genetic gains for Eucalyptus grandis and E. dunnii in Argentina. For. Genet. 3:205-215.
34. Marcucci Poltri, S.N., N. Zelener, J. Rodríguez Traverso, P. Gelid and H.E. Hopp. 2003. Selection of a seed orchard of Eucalyptus dunnii based on genetic diversity criteria calculated using molecular markers. Tree Physiol. 23:625-632.
35. Mariette, S., V. Le Corre, F. Austerlitz and A. Kremer. 2002. Sampling within the genome for measuring within-population diversity: trade-offs between markers. Mol. Ecol. 11:1145-1156.
36. Nei, M. 1973. Analysis of gene diversity in subdivided populations. Proc. Natl. Acad. Sci. USA. 70:3321-3323.
37. Nybom, H. 2004. Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Mol. Ecol. 13:1143-1155.
38. Pathauer, P.S., G.A. López, P.E. Gelid, V. Dell'Arciprete. 2003. Evaluación de orígenes y progenies de Eucalyptus dunnii Maiden en el Centro de la Provincia de Buenos Aires. En: Proc. X Jornadas Técnicas Forestales y Ambientales, Eldorado, Argentina. Identification no. E90. Available on CD from isif@factor.unam.edu.ar upon request.
39. Powell, W., M. Morgante, C. Andre, M. Hanafey, J. Vogel, S. Tingey and A. Rafalski. 1996. The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. Mol. Breed. 2:225-238.
40. Raymond, M. and F. Rousset. 1995. GENEPOP (Version 1.2): population genetics software for exact tests and ecumenicism. J. Hered. 86:248-249.
41. Resende, M.D.V. de and F.L.G. Bertolucci. 1995. Maximization of genetic gain with restriction on effective population size and inbreeding in Eucalyptus grandis. In CRC for Temperate Hardwood Forestry. IUFRO, Hobart, Australia, pp 167-170.
42. Rohlf, F.J. 1998. NTSYS-PC numerical taxonomy and multivariate analysis system. Version 2.0. Exeter Software, Setauket, NY.
43. Russell, J.R., J.D. Fuller, M. Macaulay, B.G. Hatz, A. Jahoor, W. Powell and R. Waugh. 1997. Direct comparison of levels of genetic variation among barley accessions detected by RFLPs, AFLPs, SSRs and RAPDs. Theor. Appl. Genet. 95:714-722.
44. Schneider, S., D. Roessli and L. Excoffier. 2000. ARLEQUIN, Version 2.000. A software for population genetics data analysis. Genetics and Biometry Laboratory, Dept. of Anthropology and Ecology, Univ. Geneva, Switzerland. URL http://anthro.unige.ch/arlequin.
45. Slatkin, M. 1995. A measure of population subdivision based on microsatellite allele frequency. Genetics 139:457-462.
46. Swain, T.-L. and R.A.W. Gardner. 2000. Eucalyptus dunnii provenance/progeny trials in KwaZulu-Natal, South Africa - final measurements and pulping properties. In Proc. Forest Genetics for the Next Millennium. IUFRO, Working Party 2.08.01, pp 221-227.
47. Tautz, D. 1989. Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17:6463-6471.
48. Vekemans, X., T. Beauwens, M. Lemaire and I. Roldan-Ruiz. 2002. Data from amplified fragment length polymorphism (AFLP) markers show indication of size homoplasy and of a relationship between degree of homoplasy and fragment size. Mol. Ecol. 11:39-151.
49. Vos, P., R. Hogers, M. Bleeker et al. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acid Res. 23:4407-4414.
50. White, T. 2001. Breeding strategies for forest trees: concepts and challenges. South. Afr. For. J. 190:31-42.
51. Zhivotovsky, L.A. 1999. Estimating population structure in diploids with multilocus dominant DNA markers. Mol. Ecol. 8:907-913.
52. Zobel, B.J. and J. Talbert. 1994. Técnicas de mejoramiento genético de árboles forestales. 2nd Edn. John Wiley & Sons, Hoboken, NJ, 545 p.