Comparison of Genetic Structure Assessed by Amplified Fragment Length Polymorphism and Retrotransposon-based Sequence-specific Amplification Polymorphism for Portuguese Populations of Pinus pinea L.

CARDOSO, M. M. and P. A. LOBO (2001): Delimitação de pisos bioclimáticos e regiões de proveniência de pinheiro manso em Portugal, usando sistemas de informação geográfica, Silva Lusitana 9: 93-108.Search in Google Scholar

CARNEIRO, A. I. L. N. (2002): Avaliação da variabilidade e controlo genético de características biométricas das pinhas e da semente da Pinus pinea L., Relatório do trabalho de fim de Curso de Engenharia Florestal, Universidade Técnica de Lisboa. Instituto Superior de Agronomia, Lisbon, 58 p.Search in Google Scholar

ELLIS, T. H. N., S. J. POYSER, M. R. KNOX, A. V. VERSHININ and M. J. AMBROSE (1998): Polymorphism of insertions sites of TY1-copia-class retrotransposon and its use for linkage and diversity analysis in pea, Molecular General Genetics 260: 9-19.10.1007/PL00008630Search in Google Scholar

EVARISTO, I. N., R. SEABRA, J. BAETA and M. S. PAIS (2002): Caracterização molecular de proveniências de Pinus pinea L. por RAPD (Random Amplified Polymorphic DNA), Silva Lusitana 10: 53-61.Search in Google Scholar

FALLOUR, D., B. FADY and F. LEFEVRE (1997): Study on isozyme variation in Pinus pinea L.: Evidence for low polymorphism, Silvae Genetica 46: 201-207.Search in Google Scholar

FELSENSTEIN, J. (2004): PHYLIP (Phylogeny Inference Package). Distributed by the author, Department of Genetics, University of Washington, Seattle.Search in Google Scholar

GÓMEZ, A. (1998): Variabilidade genética de Pinus halepensis en España mediante el uso de marcadores de ADN: RAPDs e Cp-microsatélites, PhD thesis, Universidad Politécnica de Madrid, Madrid, 162 p.Search in Google Scholar

GÓMEZ, A., E. AGUIRIANO, R. ALIÁ and M. A. BUENO (2002): Análisis de los recursos genéticos de Pinus pinea L. en España mediante microsatélites de cloroplasto, Investigación Agraria: Sistemas y Recursos Forestales 11: 145-154.Search in Google Scholar

HAMRICK, J., M. GODT and S. SHERMAN-BROYLES (1992): Factors influencing levels of genetic diversity in woody plant species, New Forests 6: 95-124.10.1007/BF00120641Open DOISearch in Google Scholar

KREMER, A. and S. MARIETTE (2003): Molecular markers in population genetics. In: DE VIENNE, D. (ed. Molecular Markers in Plant Genetics and Biotechnology, pp. 126-149. Science Publishers, Inc., New York.Search in Google Scholar

KUMAR, A. (1996): The adventures of Ty1-copia group of retrotransposons in plants, Trends in Genetics 12, 41-43.10.1016/0168-9525(96)81393-XSearch in Google Scholar

KUMAR, A. and H. HIROCHIKA (2001): Application of retrotransposons as genetic tools in plant biology, Trends in Plant Sciences 6: 127-113.10.1016/S1360-1385(00)01860-4Search in Google Scholar

KUMAR, A., S. R. PEARCE, K. MCLEAN, G. Harrison, J. S. HESLOP-HARRISON, R. WAUGH and A. J. FAVELL (1997): The Ty1-copia group of retrotransposons in plants: genomic organisation, evolution, and use as molecular markers, Genetica 100: 205-217.10.1007/978-94-011-4898-6_21Search in Google Scholar

KUMAR, S. and A. RZHETSKY (1996): Evolutionary relationships of eukaryotic kingdoms, Journal of Molecular Evolution 42: 183-193.10.1007/BF02198844Open DOISearch in Google Scholar

LEDIG, F. T. (1992): Human impacts on genetic diversity in forest ecosystems, Oikos 63: 87-108.10.2307/3545518Search in Google Scholar

LYNCH, M. and B. G. MILLIGAN (1994): Analysis of population genetic structure with RAPD markers, Molecular Ecology 3: 91-99.10.1111/j.1365-294X.1994.tb00109.xOpen DOISearch in Google Scholar

MANTEL, N. A. (1967): The detection of disease clustering and a generalized regression approach, Cancer Research 27: 209-220.Search in Google Scholar

MARIETTE, S., D. CHAGNE, C. LEZIER, P. PASTUSZKA, A. RAFFIN, C. PLOMION, and A. KREMER (2001): Genetic diversity within and among Pinus pinaster populations: comparison between AFLP and microsatellite markers, Heredity 86: 469-479.10.1046/j.1365-2540.2001.00852.xOpen DOISearch in Google Scholar

MARIETTE, S., V. LE CORRE, F. AUSTERLITZ and A. KREMER (2002): Sampling within the genome for measuring within-population diversity: trade-offs between markers, Molecular Ecology 11: 1145-1156. MAY TAM, S., C. MHIRI, A. VOGELAAR, M. KERVELD, S. R. PEARCE and M. A. GRANDBASTIEN (2005): Comparative analyses of genetic diversities within tomato and pepper collections detected by retrotransposon-based SSAP, AFLP and SSR, Theoretical and Applied Genetics 110: 819-831.Search in Google Scholar

MIROV, N. T. (1967): The genus Pinus. The Ronald Press Company, New York, 602 p.Search in Google Scholar

MUELLER, U. G. and L. L. WOLFENBARGER (1999): AFLP genotyping and fingerprinting, Trends in Ecology and Evolution 14: 389-394.10.1016/S0169-5347(99)01659-6Open DOISearch in Google Scholar

MUTKE, S., J. GORDO and L. GIL (2000): The stone pine (Pinus pinea L.) breeding programme in Castile-Leon (Central Spain), FAO-CIHEAM NUCIS-Newsletter 9: 50-55.Search in Google Scholar

MYBURG, A. A. and D. L. REMINGTON (2000): Protocol for high throughput AFLP analysis using LI CORIR2 automated sequencer. In: NC State forest biotech AFLP protocol. North Carolina State University Forestry Department, Raleigh.Search in Google Scholar

NEI, M. (1987): Molecular evolutionary genetics Columbia University Press, New York, 512 p.10.7312/nei-92038Search in Google Scholar

NYBOM, H. (2004): Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants, Molecular Ecology 13: 1143-1155.10.1111/j.1365-294X.2004.02141.x15078452Open DOISearch in Google Scholar

PEARCE, S. R., G. HARRISON, D. LI, J. S. HESLOP-HARRISON, A. KUMAR and A. J. FLAVELL (1996): The Ty1-copia group retrotransposons in Vicia species: copy number, sequence heterogeneity and chromosomal localisation, Molecular General Genetics 250: 305-315.10.1007/BF021743888602145Search in Google Scholar

PEARCE, S. R., C. M. STUART-ROGERS, A. KUMAR, T. H. N. ELLIS and A. J. FLAVELL (1999): Rapid isolation of plant Ty1-copia group retrotransposon LTR sequences for molecular marker studies., Plant Journal 19: 711-717.10.1046/j.1365-313x.1999.00556.x10571856Open DOISearch in Google Scholar

PETIT, R. J., N. BAHMAN and P. BARADAT (1995): Comparison of genetic differentiation in maritime pine (Pinus pinaster Ait.) estimated using isozyme, total protein and terpenic loci, Heredity 75: 382-389.10.1038/hdy.1995.150Open DOISearch in Google Scholar

QUEEN, R. A., B. M. GRIBBON, C. JAMES, P. JACK and A. J. FLAVELL (2004): Retrotransposon-based molecular markers for linkage and genetic diversity analysis in wheat, Molecular Genetics and Genomics 271: 91-97.10.1007/s00438-003-0960-x14652738Search in Google Scholar

QUEZÉL, P. (1980): Biogéographie et écologie des conifères sur le pourtour méditerranéen. In: Actualités d’ecologie forestière. Sol, flore, faune PESSON, P. (ed.), pp. 205-255. Gauthiers-Villars, Paris.Search in Google Scholar

RIBEIRO, M. M., C., PLOMION, R. PETIT, G. G.VENDRAMIN and A. E. SZMIDT (2001): Variation of chloroplast simplesequence repeats in Portuguese maritime pine (Pinus pinaster Ait.), Theoretical and Applied Genetics 102: 97-103.10.1007/s001220051623Open DOISearch in Google Scholar

ROCHETA, M., J. CORDEIRO, M. OLIVEIRA and C. MIGUEL (2006): PpRT1 (Pinus pinaster retrotransposon 1): the first gypsy-like retrotransposon isolated in Pinus pinaster, Planta 225: 551-562.10.1007/s00425-006-0370-517008993Search in Google Scholar

ROHLF, F. J. (1993): NTSYSpc: Numerical Taxonomy and Multivariate Analysis System (V 2.1.) Exeter Publisher, New York p.Search in Google Scholar

SALVADOR, L., R. ALÍA, D. AGÚNDEZ and L. GIL, (2000): Genetic variation and migration pathways of maritime pine (Pinus pinaster Ait.) in the Iberian Peninsula, Theoretical and Applied Genetics 100: 89-95.10.1007/s001220050013Open DOISearch in Google Scholar

SCHULMAN, A. H., A. J. FLAVELL and N. T. H. ELLIS (2004): The application of LTR retrotransposons as molecular markers in plants. In: MILLER, W. J., CAPY, P. (eds). Mobile genetic elements protocols and genomic applications, pp. 145-158. Humana Press Inc., Totowa.10.1385/1-59259-755-6:145Search in Google Scholar

SOKAL, R. R. and F. J. ROHLF (1995): Biometry, 3rd ed. edn. W. H. FREEMAN and Co., San Francisco, 887 p.Search in Google Scholar

STEVENSON, A. C. (1985): Studies in the vegetational history of SW Spain. II. Palynological investigations at Laguna de Las Madres, SW Spain, Journal of Biogeography 12: 293-314.10.2307/2844863Open DOISearch in Google Scholar

SYED, N. H., M. J. SURESHSUNDAR, B. S. Bhau, J. J. V. CAVALCANTI and A. J. FLAVELL (2005): Ty1-copia retrotransposon- based SSAP marker development in cashew (Anacardium occidentale L.), Theoretical and Applied Genetics 110: 1195-1202.10.1007/s00122-005-1948-115761718Search in Google Scholar

VEKEMANS, X., T. BEAUWENS, M. LEMAIRE and I. ROLDANRUIZ (2002): Data from amplified fragment polymorphism (AFLP) markers show indication of size homoplasy and of a relationship between degree of homoplasy and fragment size, Molecular Ecology 11: 139-151.10.1046/j.0962-1083.2001.01415.x11903911Open DOISearch in Google Scholar

VENDRAMIN, G. G., M. ANZIDEI, A. MADAGHIELE and G. BUCCI (1998): Distribution of genetic diversity in Pinus pinaster Ait. as revealed by chloroplast microsatellites, Theoretical and Applied Genetics 97: 456-463.10.1007/s001220050917Open DOISearch in Google Scholar

VOS, P., R. HOGERS, M. BLEEKER, M. REIJANS, T. VANDELEE, M. HOMES, A. FRIJTERS, J. POT, J. PELEMAN, M. KUIPER and M. ZABEAU (1995): AFLP: A new technique for DNA fingerprinting, Nucleic Acids Research 23: 4407-4414.10.1093/nar/23.21.44073073977501463Open DOISearch in Google Scholar

WAUGH, R., K. MCLEAN, A. J. FLAVELL, S. R. PEARCE, A. KUMAR, B. B. T. THOMAS and W. POWELL (1997): Genetic distribution of Bare-1-like retrotransposable elements in barley genome revealed by sequence specific amplification polymorphisms (SSAP), Molecular General Genetics 253: 687-694.10.1007/s0043800503729079879Search in Google Scholar

YU, G. X. and R. P. WISE (2000): An anchored AFLP- and retrotransposon-based map of diploid Avena., Genome Research 43: 736-749.10.1139/g00-037Open DOISearch in Google Scholar

ZHIVOTOVSKY, L. A. (1999): Estimating population structure in diploids with multilocus dominant DNA markers, Molecular Ecology 8: 907-913.10.1046/j.1365-294x.1999.00620.x10434412Search in Google Scholar