The Banana Genome Hub: A community database for genomics in the Musaceae

Droc Gaëtan, Martin Guillaume, Guignon Valentin, Summo Marilyne, Sempere Guilhem, Durant Eloi, Soriano Alexandre, Baurens Franc-Christophe, Cenci Alberto, Breton Catherine, Shah Trushar, Aury Jean-Marc, Ge Xue-Jun, Harrison Pat Heslop, Yahiaoui Nabila, D'Hont Angélique, Rouard Mathieu. 2022. The Banana Genome Hub: A community database for genomics in the Musaceae. Horticulture Research, 9:uhac221, 10 p.

https://doi.org/10.1093/hr/uhac221

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Url - jeu de données - Entrepôt autre : https://banana-genome-hub.southgreen.fr

Résumé : The Banana Genome Hub provides centralized access for genome assemblies, annotations, and the extensive related omics resources available for bananas and banana relatives. A series of tools and unique interfaces are implemented to harness the potential of genomics in bananas, leveraging the power of comparative analysis, while recognizing the differences between datasets. Besides effective genomic tools like BLAST and the JBrowse genome browser, additional interfaces enable advanced gene search and gene family analyses including multiple alignments and phylogenies. A synteny viewer enables the comparison of genome structures between chromosome-scale assemblies. Interfaces for differential expression analyses, metabolic pathways and GO enrichment were also added. A catalogue of variants spanning the banana diversity is made available for exploration, filtering, and export to a wide variety of software. Furthermore, we implemented new ways to graphically explore gene presence-absence in pangenomes as well as genome ancestry mosaics for cultivated bananas. Besides, to guide the community in future sequencing efforts, we provide recommendations for nomenclature of locus tags and a curated list of public genomic resources (assemblies, resequencing, high density genotyping) and upcoming resources—planned, ongoing or not yet public.

Mots-clés Agrovoc : génomique, génome, base de données sur le matériel génétique, Musaceae, variation génétique

Mots-clés libres : Banana, Database, Genome assemblies, Pangenome, SNP, Visualization, Gene annotations, Biodiversity, Genomes, Plantain, Evolution

Classification Agris : F30 - Génétique et amélioration des plantes

Champ stratégique Cirad : CTS 1 (2019-) - Biodiversité

Auteurs et affiliations

Droc Gaëtan, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-1849-1269 - auteur correspondant
Martin Guillaume, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0002-1801-7500
Guignon Valentin, Bioversity International (FRA)
Summo Marilyne, CIRAD-BIOS-UMR AGAP (FRA)
Sempere Guilhem, CIRAD-BIOS-UMR INTERTRYP (FRA)
Durant Eloi, IFB (FRA)
Soriano Alexandre, CIRAD-BIOS-UMR AGAP (FRA)
Baurens Franc-Christophe, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0002-5219-8771
Cenci Alberto, Bioversity International (ITA)
Breton Catherine, Bioversity International (FRA)
Shah Trushar, IITA (KEN)
Aury Jean-Marc, CEA (FRA)
Ge Xue-Jun, CAS (CHN)
Harrison Pat Heslop, CAS (CHN)
Yahiaoui Nabila, CIRAD-BIOS-UMR AGAP (FRA)
D'Hont Angélique, CIRAD-BIOS-UMR AGAP (FRA)
Rouard Mathieu, Bioversity International (FRA) - auteur correspondant