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Functional annotation, categorization and integration of the predicted gene sequences and its application in expression analysis

AutorGrimplet, Jérôme ; Carbonell-Bejerano, Pablo ; Díaz-Riquelme, José ; Ibáñez Marcos, Javier ; Martínez-Zapater, José M.
Fecha de publicaciónabr-2013
CitaciónIX International Symposium on Grapevine Physiology and Biotechnology (2013)
ResumenThe complexity of the variables influencing the enological quality of grape berries at harvest can be apprehended by a holistic perspective to study the interactions occurring in this biological system. The aim of system biology is the reconstruction and the modeling of organism physiology and behavior via web of interactions. The sequencing of the geno me and the various DNA or rnRNA sequencing projects performed on the grapevine offer considerable initial information to allow the identification, the census, the structural and the functional annotation of the grapevine genes. In order to unify and retain cultivarspecific genes and to curate gene assembly, we have compared the sequences from ESTs, older genome assembly or gene prediction releases to the latest version of the genome sequencing, considered a milestone. The unified gene set allows to port works performed on previous versions of grapevine sequencing projects (both genome and ESl) to the latest release. From this source of around 50,000 putative genes, tools to facilitate both the gene expression analysis and the genes characterization have been developed. These do include the classification ofthe genes into fruit plant dedicated functional categories and their assignments to networks that can be analyzed through Cytoscape. The application of these tools and the expression analysis pipeline workflow will be depicted with the description of the comparison between genotypes discriminated on parameters influencing bunch compactness.
DescripciónTrabajo presentado en el IX International Symposium on Grapevine Physiology and Biotechnology, celebrado en La Serena (Chile) del 21 al 26 de abril de 2013.
Aparece en las colecciones: (ICVV) Comunicaciones congresos
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