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oai:recercat.cat:20.500.12327/31232025-10-22T11:08:19Zcom_2072_4428com_2072_4427col_2072_487898

2025-10-22T11:08:19Z urn:hdl:20.500.12327/3123 Genome-wide BAC-end sequencing of Cucumis melo using two BAC libraries González, Víctor M Rodríguez-Moreno, Luis Centeno, Emilio Benjak, Andrej Garcia-Mas, Jordi Puigdomènech, Pere Aranda, Miguel A Producció Vegetal Genòmica i Biotecnologia Background: Although melon (Cucumis melo L.) is an economically important fruit crop, no genome-wide sequence information is openly available at the current time. We therefore sequenced BAC-ends representing a total of 33,024 clones, half of them from a previously described melon BAC library generated with restriction endonucleases and the remainder from a new random-shear BAC library. Results: We generated a total of 47,140 high-quality BAC-end sequences (BES), 91.7% of which were paired-BES. Both libraries were assembled independently and then cross-assembled to obtain a final set of 33,372 nonredundant, high-quality sequences. These were grouped into 6,411 contigs (4.5 Mb) and 26,961 non-assembled BES (14.4 Mb), representing ~4.2% of the melon genome. The sequences were used to screen genomic databases, identifying 7,198 simple sequence repeats (corresponding to one microsatellite every 2.6 kb) and 2,484 additional repeats of which 95.9% represented transposable elements. The sequences were also used to screen expressed sequence tag (EST) databases, revealing 11,372 BES that were homologous to ESTs. This suggests that ~30% of the melon genome consists of coding DNA. We observed regions of microsynteny between melon paired-BES and six other dicotyledonous plant genomes. Conclusion: The analysis of nearly 50,000 BES from two complementary genomic libraries covered ~4.2% of the melon genome, providing insight into properties such as microsatellite and transposable element distribution, and the percentage of coding DNA. The observed synteny between melon paired-BES and six other plant genomes showed that useful comparative genomic data can be derived through large scale BAC-end sequencing by anchoring a small proportion of the melon genome to other sequenced genomes. 2025-10-22T11:08:19Z 2025-10-22T11:08:19Z 2010-11-05 info:eu-repo/semantics/article González, Víctor M, Luis Rodríguez-Moreno, Emilio Centeno, Andrej Benjak, Jordi Garcia-Mas, Pere Puigdomènech, and Miguel A Aranda. 2010. “Genome-wide BAC-end Sequencing of Cucumis Melo Using Two BAC Libraries.” BMC Genomics 11 (1): 618. doi: 10.1186/1471-2164-11-618 1471-2164 http://hdl.handle.net/20.500.12327/3123 https://doi.org/10.1186/1471-2164-11-618 eng BMC Genomics MEC/Programa nacional de medios de transporte/CSD2007-00036/ES/Centro de Genómica Básica y de orientación Agroalimentaria/ http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess Attribution 4.0 International BMC