title: The banana genome hub.
abstract: Banana is one of the world's favorite fruits and one of the most important crops for developing countries. The banana reference genome sequence (Musa acuminata) was recently released. Given the taxonomic position of Musa, the completed genomic sequence has particular comparative value to provide fresh insights about the evolution of the monocotyledons. The study of the banana genome has been enhanced by a number of tools and resources that allows harnessing its sequence. First, we set up essential tools such as a Community Annotation System, phylogenomics resources and metabolic pathways. Then, to support post-genomic efforts, we improved banana existing systems (e.g. web front end, query builder), we integrated available Musa data into generic systems (e.g. markers and genetic maps, synteny blocks), we have made interoperable with the banana hub, other existing systems containing Musa data (e.g. transcriptomics, rice reference genome, workflow manager) and finally, we generated new results from sequence analyses (e.g. SNP and polymorphism analysis). Several uses cases illustrate how the Banana Genome Hub can be used to study gene families. Overall, with this collaborative effort, we discuss the importance of the interoperability toward data integration between existing information systems. Database URL: http://banana-genome.cirad.fr/
authors.affiliation: CIRAD, UMR AGAP, Montpellier F-34398, France. gaetan.droc@cirad.fr
authors.forename: Gaëtan
authors.initials: G
authors.lastname: Droc
authors.forename: Delphine
authors.initials: D
authors.lastname: Larivière
authors.forename: Valentin
authors.initials: V
authors.lastname: Guignon
authors.forename: Nabila
authors.initials: N
authors.lastname: Yahiaoui
authors.forename: Dominique
authors.initials: D
authors.lastname: This
authors.forename: Olivier
authors.initials: O
authors.lastname: Garsmeur
authors.forename: Alexis
authors.initials: A
authors.lastname: Dereeper
authors.forename: Chantal
authors.initials: C
authors.lastname: Hamelin
authors.forename: Xavier
authors.initials: X
authors.lastname: Argout
authors.forename: Jean-François
authors.initials: JF
authors.lastname: Dufayard
authors.forename: Juliette
authors.initials: J
authors.lastname: Lengelle
authors.forename: Franc-Christophe
authors.initials: FC
authors.lastname: Baurens
authors.forename: Alberto
authors.initials: A
authors.lastname: Cenci
authors.forename: Bertrand
authors.initials: B
authors.lastname: Pitollat
authors.forename: Angélique
authors.initials: A
authors.lastname: D'Hont
authors.forename: Manuel
authors.initials: M
authors.lastname: Ruiz
authors.forename: Mathieu
authors.initials: M
authors.lastname: Rouard
authors.forename: Stéphanie
authors.initials: S
authors.lastname: Bocs
mesh_terms: D002874:Chromosome Mapping; D004251:DNA Transposable Elements / Q000235:genetics; D030541:Databases, Genetic; D020440:Gene Duplication / Q000235:genetics; D017343:Genes, Plant / Q000235:genetics; D018745:Genome, Plant / Q000235:genetics*; D016013:Likelihood Functions; D053858:Metabolic Networks and Pathways / Q000235:genetics; D058977:Molecular Sequence Annotation; D005810:Multigene Family / Q000235:genetics; D028521:Musa / Q000235:genetics*; D012275:Oryza / Q000235:genetics; D010802:Phylogeny; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D012689:Sequence Homology, Nucleic Acid; D059467:Transcriptome / Q000235:genetics
chemical_list: D004251:DNA Transposable Elements