GNPAnnot community annotation system applied to sugarcane bac clone sequences (W572)

Guignon Valentin, Droc Gaëtan, Garsmeur Olivier, Charron Carine, D'Hont Angélique, Bocs Stéphanie. 2011. GNPAnnot community annotation system applied to sugarcane bac clone sequences (W572). In : Abstracts of Plant and Animal Genomes XIXth Conference, San Diego, CA (USA), January 15-19, 2011. s.l. : s.n., Résumé Plant and Animal Genomes Conference. 19, San Diego, États-Unis, 15 Janvier 2011/19 Janvier 2011.

Résumé : A large amount of data is being produced by current genome sequencing projects. Sequence annotations and analyses need to be organized into databases and widely accessible. Like other species, sugarcane would benefit from centralized and innovative systems to study its genome. The GNPAnnot community annotation system (CAS) could be particularly relevant to the SUGESI sequencing project. It consists in a system for structural and functional annotations supported by comparative genomics allowing both automatic predictions and manual curations of genes and transposable elements. The core of the GNPAnnot CAS dedicated to tropical plants is made of GMOD components.The Chado database can be browsed using the Generic Genome Browser (GBrowse) which provides links to genome editors (ie. Artemis and Apollo). We developed the Chado controller in order to manage public and private annotation projects. It also provides an annotation history page for each gene or transposable element and an annotation inspector that automates several tasks and reports annotation mistakes. GNPAnnot CAS has already been used to annotate sugarcane BAC clones sequences and could be useful to facilitate the annotation of novel sugarcane sequences.

Mots-clés Agrovoc : système d'information, génome, banque de données, application des ordinateurs, Saccharum officinarum

Mots-clés complémentaires : Séquencage

Classification Agris : F30 - Génétique et amélioration des plantes

Auteurs et affiliations

• Guignon Valentin
• Droc Gaëtan, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-1849-1269
• Garsmeur Olivier, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-8869-3689
• Charron Carine, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-0281-9936
• D'Hont Angélique, CIRAD-BIOS-UMR AGAP (FRA)
• Bocs Stéphanie, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-7850-4426

Source : Cirad - Agritrop (https://agritrop.cirad.fr/559955/)

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