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In this work, we have isolated and characterized several AFLP fragments obtained from Quercus rotundifolia Lam. through homology searches in available databases. Genomic polymorphisms involving some of these sequences were evaluated in two species of Quercus , one of Castanea , and one of Fagus with specific primers. Comparative FISH analysis with generated sequences was performed in interphase nuclei of the four species, and the co-immunolocalization of 5-methylcytosine was also studied. Some of the sequences isolated proved to be genus-specific, while others were present in all the genera. Retroelements, either gypsy-like of the Tat\/Athila clade or copia-like, are well represented, and most are dispersed in euchromatic regions of these species with no DNA methylation associated, pointing to an interspersed arrangement of these retroelements with potential gene-rich regions. A particular gypsy-sequence is dispersed in oaks and chestnut nuclei, but its confinement to chromocenters in beech evidences genome restructuring events during evolution of Fagaceae. Several sequences generated in this study proved to be good tools to comparatively study Fagaceae genome organization.<\/jats:p>","DOI":"10.1139\/g2012-020","type":"journal-article","created":{"date-parts":[[2012,5,8]],"date-time":"2012-05-08T18:24:18Z","timestamp":1336501458000},"page":"348-359","source":"Crossref","is-referenced-by-count":8,"title":["Genomic organization and dynamics of repetitive DNA sequences in representatives of three Fagaceae genera"],"prefix":"10.1139","volume":"55","author":[{"given":"Sofia","family":"Alves","sequence":"first","affiliation":[{"name":"Centro de Bot\u00e2nica Aplicada \u00e0 Agricultura, Instituto Superior de Agronomia, Technical University of Lisbon, Tapada da Ajuda, 1349\u2013017 Lisboa, Portugal."}]},{"given":"Teresa","family":"Ribeiro","sequence":"additional","affiliation":[{"name":"Centro de Bot\u00e2nica Aplicada \u00e0 Agricultura, Instituto Superior de Agronomia, Technical University of Lisbon, Tapada da Ajuda, 1349\u2013017 Lisboa, Portugal."},{"name":"Centro de Biotecnologia Agr\u00edcola e Agro-Alimentar do Baixo Alentejo e Litoral, Escola Superior Agr\u00e1ria, Rua Pedro Soares, 7801-908 Beja, Portugal."},{"name":"Centre for Research in Ceramics & Composite Materials, University of Aveiro, Campus Universit\u00e1rio de Santiago, 3810-193 Aveiro, Portugal."}]},{"given":"Vera","family":"In\u00e1cio","sequence":"additional","affiliation":[{"name":"Centro de Bot\u00e2nica Aplicada \u00e0 Agricultura, Instituto Superior de Agronomia, Technical University of Lisbon, Tapada da Ajuda, 1349\u2013017 Lisboa, Portugal."}]},{"given":"Margarida","family":"Rocheta","sequence":"additional","affiliation":[{"name":"Centro de Bot\u00e2nica Aplicada \u00e0 Agricultura, Instituto Superior de Agronomia, Technical University of Lisbon, Tapada da Ajuda, 1349\u2013017 Lisboa, Portugal."}]},{"given":"Leonor","family":"Morais-Cec\u00edlio","sequence":"additional","affiliation":[{"name":"Centro de Bot\u00e2nica Aplicada \u00e0 Agricultura, Instituto Superior de Agronomia, Technical University of Lisbon, Tapada da Ajuda, 1349\u2013017 Lisboa, Portugal."}]}],"member":"155","reference":[{"key":"refg1\/ref1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-294X.2005.02646.x"},{"key":"refg2\/ref2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/25.17.3389"},{"key":"refg3\/ref3","doi-asserted-by":"publisher","DOI":"10.1002\/cyto.10030"},{"key":"refg4\/ref4","doi-asserted-by":"publisher","DOI":"10.1105\/tpc.12.7.1021"},{"key":"refg5\/ref5","doi-asserted-by":"publisher","DOI":"10.1007\/BF03208875"},{"key":"refg6\/ref6","doi-asserted-by":"publisher","DOI":"10.1534\/genetics.105.048439"},{"issue":"23","key":"refg7\/ref7","doi-asserted-by":"crossref","first-page":"4397","DOI":"10.1242\/jcs.112.23.4397","volume":"112","author":"Castilho A.","year":"1999","journal-title":"J. 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