The Coffee Genome Hub : [W185]

Dereeper Alexis, Droc Gaëtan, Bocs Stéphanie, Ravel Sébastien, Guignon Valentin, This Dominique, Cotta Michelle G., Lashermes Philippe. 2014. The Coffee Genome Hub : [W185]. In : Plant and Animal Genomes Conference XXII Conference, San diego, United States, San Diego, United States, January 11-15, 2014. s.l. : s.n., Résumé Plant and Animal Genome Conference. 22, San Diego, États-Unis, 11 Janvier 2014/15 Janvier 2014.

Résumé : The whole genome sequence of Coffea canephora, the perennial diploid species known as Robusta, has been recently obtained and portends to be published and released in the coming months. In the context of the C.canephora genome sequence project and to support post-genomics efforts, we developed the Coffee Genome Hub, an integrative genome information system accessible through the South Green Bioinformatics Platform, providing centralized access to coffee community to genomics, genetics and breeding data and analysis tools to facilitate basic, translational and applied research in coffee. Available data are the complete genome sequence of C.canephora along with gene structure, gene product information, metabolism, gene families, transcriptomics (ESTs, RNA-Seq), syntenic blocs, genetic markers and genetic maps. The hub provides also generic softwares (e.g. GMOD tools) for easy querying, visualizing and downloading research data. Notably, the Coffee Genome Hub includes a Genome Browser for the C.canephora genome sequence, enhanced by a Community Annotation System (CAS) enabling the improvement of automatic gene annotation through an annotation editor and facilitating the study of gene families, and a chromosome viewer displaying the distribution of genomics feature along the chromosomes. In addition, the hub aims at developing interoperability between other existing South Green tools managing Coffee data (phylogenomics resources, SNPs) and/or allowing data analyses (workflow manager). The Coffee Genome Hub can be accessed at http://coffee-genome.org/. (Texte intégral)

Classification Agris : F30 - Génétique et amélioration des plantes

Auteurs et affiliations

• Dereeper Alexis, IRD (FRA)
• Droc Gaëtan, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-1849-1269
• Bocs Stéphanie, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-7850-4426
• Ravel Sébastien, IRD (FRA) ORCID: 0000-0001-6663-782X
• Guignon Valentin, Bioversity International (FRA)
• This Dominique, Montpellier SupAgro (FRA)
• Cotta Michelle G.
• Lashermes Philippe, IRD (FRA)

Source : Cirad - Agritrop (https://agritrop.cirad.fr/573261/)

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