The Banana Genome Hub: A community database for genomics in the Musaceae
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...
| Autores principales: | , , , , , , , , , , , , , , , , |
|---|---|
| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Oxford University Press
2022
|
| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/122025 |
| _version_ | 1855532881500176384 |
|---|---|
| author | Droc, Gaëtan Martin, Guillaume Guignon, Valentin Summo, Marilyne Sempéré, Guilhem Durant, Eloi Soriano, Alexandre Baurens, Franc-Christophe Cenci, Alberto Breton, Catherine Shah, Trushar Aury, Jean-Marc Ge, Xue-Jun Heslop-Harrison, J.S. Yahiaoui, Nabila D’Hont, Angélique Rouard, Mathieu |
| author_browse | Aury, Jean-Marc Baurens, Franc-Christophe Breton, Catherine Cenci, Alberto Droc, Gaëtan Durant, Eloi D’Hont, Angélique Ge, Xue-Jun Guignon, Valentin Heslop-Harrison, J.S. Martin, Guillaume Rouard, Mathieu Sempéré, Guilhem Shah, Trushar Soriano, Alexandre Summo, Marilyne Yahiaoui, Nabila |
| author_facet | Droc, Gaëtan Martin, Guillaume Guignon, Valentin Summo, Marilyne Sempéré, Guilhem Durant, Eloi Soriano, Alexandre Baurens, Franc-Christophe Cenci, Alberto Breton, Catherine Shah, Trushar Aury, Jean-Marc Ge, Xue-Jun Heslop-Harrison, J.S. Yahiaoui, Nabila D’Hont, Angélique Rouard, Mathieu |
| author_sort | Droc, Gaëtan |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | 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. The Banana Genome Hub aims at supporting the banana scientific community for basic, translational, and applied research and can be accessed at https://banana-genome-hub.southgreen.fr |
| format | Journal Article |
| id | CGSpace122025 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Oxford University Press |
| publisherStr | Oxford University Press |
| record_format | dspace |
| spelling | CGSpace1220252025-11-11T19:00:10Z The Banana Genome Hub: A community database for genomics in the Musaceae Droc, Gaëtan Martin, Guillaume Guignon, Valentin Summo, Marilyne Sempéré, Guilhem Durant, Eloi Soriano, Alexandre Baurens, Franc-Christophe Cenci, Alberto Breton, Catherine Shah, Trushar Aury, Jean-Marc Ge, Xue-Jun Heslop-Harrison, J.S. Yahiaoui, Nabila D’Hont, Angélique Rouard, Mathieu databases genome annotation information systems evolution biodiversity bases de datos anotación del genoma sistemas de información 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. The Banana Genome Hub aims at supporting the banana scientific community for basic, translational, and applied research and can be accessed at https://banana-genome-hub.southgreen.fr 2022-01-05 2022-10-05T09:32:37Z 2022-10-05T09:32:37Z Journal Article https://hdl.handle.net/10568/122025 en Open Access application/pdf Oxford University Press Droc, G.; Martin, G.; Guignon, V.; Summo, M.; Sempéré, G.; Durant, E.; Soriano, A.; Baurens, F.-C.; Cenci, A.; Breton, C.; Shah, T.; Aury, J.-M.; Ge, X.-J.; Heslop Harrison, P.; Yahiaoui, N.; D’Hont, A.; Rouard, M. (2022) The Banana Genome Hub: A community database for genomics in the Musaceae. Horticulture Research 9: uhac221. ISSN: 2662-6810 |
| spellingShingle | databases genome annotation information systems evolution biodiversity bases de datos anotación del genoma sistemas de información Droc, Gaëtan Martin, Guillaume Guignon, Valentin Summo, Marilyne Sempéré, Guilhem Durant, Eloi Soriano, Alexandre Baurens, Franc-Christophe Cenci, Alberto Breton, Catherine Shah, Trushar Aury, Jean-Marc Ge, Xue-Jun Heslop-Harrison, J.S. Yahiaoui, Nabila D’Hont, Angélique Rouard, Mathieu The Banana Genome Hub: A community database for genomics in the Musaceae |
| title | The Banana Genome Hub: A community database for genomics in the Musaceae |
| title_full | The Banana Genome Hub: A community database for genomics in the Musaceae |
| title_fullStr | The Banana Genome Hub: A community database for genomics in the Musaceae |
| title_full_unstemmed | The Banana Genome Hub: A community database for genomics in the Musaceae |
| title_short | The Banana Genome Hub: A community database for genomics in the Musaceae |
| title_sort | banana genome hub a community database for genomics in the musaceae |
| topic | databases genome annotation information systems evolution biodiversity bases de datos anotación del genoma sistemas de información |
| url | https://hdl.handle.net/10568/122025 |
| work_keys_str_mv | AT drocgaetan thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT martinguillaume thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT guignonvalentin thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT summomarilyne thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT sempereguilhem thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT duranteloi thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT sorianoalexandre thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT baurensfrancchristophe thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT cencialberto thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT bretoncatherine thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT shahtrushar thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT auryjeanmarc thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT gexuejun thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT heslopharrisonjs thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT yahiaouinabila thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT dhontangelique thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT rouardmathieu thebananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT drocgaetan bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT martinguillaume bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT guignonvalentin bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT summomarilyne bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT sempereguilhem bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT duranteloi bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT sorianoalexandre bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT baurensfrancchristophe bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT cencialberto bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT bretoncatherine bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT shahtrushar bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT auryjeanmarc bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT gexuejun bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT heslopharrisonjs bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT yahiaouinabila bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT dhontangelique bananagenomehubacommunitydatabaseforgenomicsinthemusaceae AT rouardmathieu bananagenomehubacommunitydatabaseforgenomicsinthemusaceae |