An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)

Background: Melon (Cucumis melo) is a horticultural specie of significant nutritional value, which belongs to the Cucurbitaceae family, whose economic importance is second only to the Solanaceae. Its small genome of approx. 450 Mb coupled to the high genetic diversity has prompted the development of...

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Autores: Mascarell-Creus, Albert, Cañizares, Joaquin, Vilarrasa-Blasi, Josep, Mora-García, Santiago, Blanca, José, Gonzalez-Ibeas, Daniel, Saladié, Montserrat, Roig, Cristina, Deleu, Wim, Picó-Silvent, Belén, López-Bigas, Nuria, Aranda, Miguel A, Garcia-Mas, Jordi, Nuez, Fernando, Puigdomènech, Pere, Caño-Delgado, Ana I
Tipo de recurso: artículo
Fecha de publicación:2009
País:España
Institución:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:20.500.12327/3134
Acceso en línea:http://hdl.handle.net/20.500.12327/3134
https://doi.org/10.1186/1471-2164-10-467
Access Level:acceso abierto
Palabra clave:575
633
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spelling An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)Mascarell-Creus, AlbertCañizares, JoaquinVilarrasa-Blasi, JosepMora-García, SantiagoBlanca, JoséGonzalez-Ibeas, DanielSaladié, MontserratRoig, CristinaDeleu, WimPicó-Silvent, BelénLópez-Bigas, NuriaAranda, Miguel AGarcia-Mas, JordiNuez, FernandoPuigdomènech, PereCaño-Delgado, Ana I575633Background: Melon (Cucumis melo) is a horticultural specie of significant nutritional value, which belongs to the Cucurbitaceae family, whose economic importance is second only to the Solanaceae. Its small genome of approx. 450 Mb coupled to the high genetic diversity has prompted the development of genetic tools in the last decade. However, the unprecedented existence of a transcriptomic approaches in melon, highlight the importance of designing new tools for high-throughput analysis of gene expression. Results: We report the construction of an oligo-based microarray using a total of 17,510 unigenes derived from 33,418 high-quality melon ESTs. This chip is particularly enriched with genes that are expressed in fruit and during interaction with pathogens. Hybridizations for three independent experiments allowed the characterization of global gene expression profiles during fruit ripening, as well as in response to viral and fungal infections in plant cotyledons and roots, respectively. Microarray construction, statistical analyses and validation together with functional-enrichment analysis are presented in this study. Conclusion: The platform validation and enrichment analyses shown in our study indicate that this oligo-based microarray is amenable for future genetic and functional genomic studies of a wide range of experimental conditions in melon.We acknowledge A. Alibés for critical reading of the manuscript. This work was supported by grants from the Spanish Ministry of Education and Science (BIO2005/007 to A.C-D; GEN2003-20237-C06 and AGL2006-08069/ AGR to M.A.A.). W.D., C.R. and D. G-I. are recipients of CRAG and "Juan de la Cierva" postdoctoral contracts from the Spanish Ministry of Education and Science. S.M-G was funded by PIV2 program (AGAUR; Generalitat de Catalunya, Spain). A.M-C and J.V. are PhD students funded by I3P program (CSIC; Spain) in A.I. C-D laboratory. A.I. C-D is funded by a HFSPO/Career Development Award (CDA2004/007). A.I. C-D is a "Ramón y Cajal" researcher from the Spanish Ministry of Education and Science.info:eu-repo/semantics/publishedVersionBMCProducció VegetalGenòmica i Biotecnologia2009info:eu-repo/semantics/article15http://hdl.handle.net/20.500.12327/3134https://doi.org/10.1186/1471-2164-10-467reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésBMC GenomicsMEC/ /GEN2003-20237-C06/ES/ /MEC/Programa nacional de recursos y tecnologías agroalimentarias/AGL2006-08069/ES/Dianas para la mejora de las resistencias del melón a virus de importancia agronómica/AGRAttribution 4.0 Internationalhttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:recercat.cat:20.500.12327/31342026-05-29T05:05:01Z
dc.title.none.fl_str_mv An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
title An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
spellingShingle An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
Mascarell-Creus, Albert
575
633
title_short An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
title_full An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
title_fullStr An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
title_full_unstemmed An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
title_sort An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)
dc.creator.none.fl_str_mv Mascarell-Creus, Albert
Cañizares, Joaquin
Vilarrasa-Blasi, Josep
Mora-García, Santiago
Blanca, José
Gonzalez-Ibeas, Daniel
Saladié, Montserrat
Roig, Cristina
Deleu, Wim
Picó-Silvent, Belén
López-Bigas, Nuria
Aranda, Miguel A
Garcia-Mas, Jordi
Nuez, Fernando
Puigdomènech, Pere
Caño-Delgado, Ana I
author Mascarell-Creus, Albert
author_facet Mascarell-Creus, Albert
Cañizares, Joaquin
Vilarrasa-Blasi, Josep
Mora-García, Santiago
Blanca, José
Gonzalez-Ibeas, Daniel
Saladié, Montserrat
Roig, Cristina
Deleu, Wim
Picó-Silvent, Belén
López-Bigas, Nuria
Aranda, Miguel A
Garcia-Mas, Jordi
Nuez, Fernando
Puigdomènech, Pere
Caño-Delgado, Ana I
author_role author
author2 Cañizares, Joaquin
Vilarrasa-Blasi, Josep
Mora-García, Santiago
Blanca, José
Gonzalez-Ibeas, Daniel
Saladié, Montserrat
Roig, Cristina
Deleu, Wim
Picó-Silvent, Belén
López-Bigas, Nuria
Aranda, Miguel A
Garcia-Mas, Jordi
Nuez, Fernando
Puigdomènech, Pere
Caño-Delgado, Ana I
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Producció Vegetal
Genòmica i Biotecnologia
dc.subject.none.fl_str_mv 575
633
topic 575
633
description Background: Melon (Cucumis melo) is a horticultural specie of significant nutritional value, which belongs to the Cucurbitaceae family, whose economic importance is second only to the Solanaceae. Its small genome of approx. 450 Mb coupled to the high genetic diversity has prompted the development of genetic tools in the last decade. However, the unprecedented existence of a transcriptomic approaches in melon, highlight the importance of designing new tools for high-throughput analysis of gene expression. Results: We report the construction of an oligo-based microarray using a total of 17,510 unigenes derived from 33,418 high-quality melon ESTs. This chip is particularly enriched with genes that are expressed in fruit and during interaction with pathogens. Hybridizations for three independent experiments allowed the characterization of global gene expression profiles during fruit ripening, as well as in response to viral and fungal infections in plant cotyledons and roots, respectively. Microarray construction, statistical analyses and validation together with functional-enrichment analysis are presented in this study. Conclusion: The platform validation and enrichment analyses shown in our study indicate that this oligo-based microarray is amenable for future genetic and functional genomic studies of a wide range of experimental conditions in melon.
publishDate 2009
dc.date.none.fl_str_mv 2009
dc.type.none.fl_str_mv info:eu-repo/semantics/article
format article
dc.identifier.none.fl_str_mv http://hdl.handle.net/20.500.12327/3134
https://doi.org/10.1186/1471-2164-10-467
url http://hdl.handle.net/20.500.12327/3134
https://doi.org/10.1186/1471-2164-10-467
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv BMC Genomics
MEC/ /GEN2003-20237-C06/ES/ /
MEC/Programa nacional de recursos y tecnologías agroalimentarias/AGL2006-08069/ES/Dianas para la mejora de las resistencias del melón a virus de importancia agronómica/AGR
dc.rights.none.fl_str_mv Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 15
dc.publisher.none.fl_str_mv BMC
publisher.none.fl_str_mv BMC
dc.source.none.fl_str_mv reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,811543

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