BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community
Population growth and the impacts of climate change are placing increasing pressure on global agriculture and breeding programmes. Recent advancements in phenotyping techniques, genotyping technologies, and predictive modelling are accelerating genetic gains in breeding programmes, helping researche...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Oxford University Press
2025
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/176764 |
| _version_ | 1855525351890878464 |
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| author | Selby, Peter Abbeloos, Rafael Adam-Blondon, Anne-Francoise Agosto-Pérez, Francisco J. Alaux, Michael Alic, Isabelle Al-Shamaa, Khaled Aparicio, Johan Steven Backlund, Jan Erik Batac, Aldrin Beier, Sebastian Besombes, Gabriel Boizet, Alice Brouwer, Matthijs Casstevens, Terry Charleroy, Arnaud Corak, Keo Courtney, Chaney Crimi, Mariano Davuluri, Gouripriya de Sousa, Kauê Destin, Jeremy Dhondt, Stijn Dhungana, Ajay Droesbeke, Bert Feser, Manuel Flores-Gonzalez, Mirella Guignon, Valentin Habito, Corina Hallab, Asis Hershberger, Jenna Hok, Puthick Hulse-Kemp, Amanda M Johnson, Lynn Carol Jung, Sook Kersey, Paul Kilian, Andrzej König, Patrick Kumar, Suman Lamos-Sweeney, Josh Lang, Laszlo Lange, Matthias Laporte, Marie-angelique Lee, Taein Le Floch, Erwan López, Francisco Madriz, Brandon Main, Dorrie Marsella, Marco Marty, Maud Michotey, Célia Miller, Zachary Milne, Iain Mueller, Lukas A Nderitu, Moses Neveu, Pascal Palladino, Nick Parsons, Tim Pommier, Cyril Rami, Jean-François Raubach, Sebastian Rife, Trevor Robbins, Kelly Rouard, Mathieu Ruff, Joseph Sempéré, Guilhem Shah, Romil Mayank Shaw, Paul Smith, Becky Soldevilla, Nahuel Tireau, Anne Tovar, Clarysabel Uszynski, Grzegorz Vega, Vivian Bass Weise, Stephan Yarnes, Shawn C The BrAPI Consortium |
| author_browse | Abbeloos, Rafael Adam-Blondon, Anne-Francoise Agosto-Pérez, Francisco J. Al-Shamaa, Khaled Alaux, Michael Alic, Isabelle Aparicio, Johan Steven Backlund, Jan Erik Batac, Aldrin Beier, Sebastian Besombes, Gabriel Boizet, Alice Brouwer, Matthijs Casstevens, Terry Charleroy, Arnaud Corak, Keo Courtney, Chaney Crimi, Mariano Davuluri, Gouripriya Destin, Jeremy Dhondt, Stijn Dhungana, Ajay Droesbeke, Bert Feser, Manuel Flores-Gonzalez, Mirella Guignon, Valentin Habito, Corina Hallab, Asis Hershberger, Jenna Hok, Puthick Hulse-Kemp, Amanda M Johnson, Lynn Carol Jung, Sook Kersey, Paul Kilian, Andrzej Kumar, Suman König, Patrick Lamos-Sweeney, Josh Lang, Laszlo Lange, Matthias Laporte, Marie-angelique Le Floch, Erwan Lee, Taein López, Francisco Madriz, Brandon Main, Dorrie Marsella, Marco Marty, Maud Michotey, Célia Miller, Zachary Milne, Iain Mueller, Lukas A Nderitu, Moses Neveu, Pascal Palladino, Nick Parsons, Tim Pommier, Cyril Rami, Jean-François Raubach, Sebastian Rife, Trevor Robbins, Kelly Rouard, Mathieu Ruff, Joseph Selby, Peter Sempéré, Guilhem Shah, Romil Mayank Shaw, Paul Smith, Becky Soldevilla, Nahuel The BrAPI Consortium Tireau, Anne Tovar, Clarysabel Uszynski, Grzegorz Vega, Vivian Bass Weise, Stephan Yarnes, Shawn C de Sousa, Kauê |
| author_facet | Selby, Peter Abbeloos, Rafael Adam-Blondon, Anne-Francoise Agosto-Pérez, Francisco J. Alaux, Michael Alic, Isabelle Al-Shamaa, Khaled Aparicio, Johan Steven Backlund, Jan Erik Batac, Aldrin Beier, Sebastian Besombes, Gabriel Boizet, Alice Brouwer, Matthijs Casstevens, Terry Charleroy, Arnaud Corak, Keo Courtney, Chaney Crimi, Mariano Davuluri, Gouripriya de Sousa, Kauê Destin, Jeremy Dhondt, Stijn Dhungana, Ajay Droesbeke, Bert Feser, Manuel Flores-Gonzalez, Mirella Guignon, Valentin Habito, Corina Hallab, Asis Hershberger, Jenna Hok, Puthick Hulse-Kemp, Amanda M Johnson, Lynn Carol Jung, Sook Kersey, Paul Kilian, Andrzej König, Patrick Kumar, Suman Lamos-Sweeney, Josh Lang, Laszlo Lange, Matthias Laporte, Marie-angelique Lee, Taein Le Floch, Erwan López, Francisco Madriz, Brandon Main, Dorrie Marsella, Marco Marty, Maud Michotey, Célia Miller, Zachary Milne, Iain Mueller, Lukas A Nderitu, Moses Neveu, Pascal Palladino, Nick Parsons, Tim Pommier, Cyril Rami, Jean-François Raubach, Sebastian Rife, Trevor Robbins, Kelly Rouard, Mathieu Ruff, Joseph Sempéré, Guilhem Shah, Romil Mayank Shaw, Paul Smith, Becky Soldevilla, Nahuel Tireau, Anne Tovar, Clarysabel Uszynski, Grzegorz Vega, Vivian Bass Weise, Stephan Yarnes, Shawn C The BrAPI Consortium |
| author_sort | Selby, Peter |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Population growth and the impacts of climate change are placing increasing pressure on global agriculture and breeding programmes. Recent advancements in phenotyping techniques, genotyping technologies, and predictive modelling are accelerating genetic gains in breeding programmes, helping researchers and breeders develop improved crops more efficiently. However, these advancements have also led to an overwhelming torrent of fragmented data, creating significant challenges in data integration and management. To address this issue, the Breeding Application Programming Interface (BrAPI) project was established as a standardized data model for breeding data. BrAPI is an international, community-driven effort that facilitates interoperability among databases and tools, improving the sharing and interpretation of breeding-related data. This open-source standard is software-agnostic and can be used by anyone interested in breeding, phenotyping, germplasm, genotyping, and agronomy data management. This manuscript provides an overview of the BrAPI project, highlighting the significant progress made in the development of the data standard and the expansion of its community. It also presents a showcase of the wide variety of BrAPI-compatible tools that have been built to enhance breeding and research activities, demonstrating how the project is advancing agricultural innovation and data management practices. |
| format | Journal Article |
| id | CGSpace176764 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2025 |
| publishDateRange | 2025 |
| publishDateSort | 2025 |
| publisher | Oxford University Press |
| publisherStr | Oxford University Press |
| record_format | dspace |
| spelling | CGSpace1767642025-12-08T09:54:28Z BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community Selby, Peter Abbeloos, Rafael Adam-Blondon, Anne-Francoise Agosto-Pérez, Francisco J. Alaux, Michael Alic, Isabelle Al-Shamaa, Khaled Aparicio, Johan Steven Backlund, Jan Erik Batac, Aldrin Beier, Sebastian Besombes, Gabriel Boizet, Alice Brouwer, Matthijs Casstevens, Terry Charleroy, Arnaud Corak, Keo Courtney, Chaney Crimi, Mariano Davuluri, Gouripriya de Sousa, Kauê Destin, Jeremy Dhondt, Stijn Dhungana, Ajay Droesbeke, Bert Feser, Manuel Flores-Gonzalez, Mirella Guignon, Valentin Habito, Corina Hallab, Asis Hershberger, Jenna Hok, Puthick Hulse-Kemp, Amanda M Johnson, Lynn Carol Jung, Sook Kersey, Paul Kilian, Andrzej König, Patrick Kumar, Suman Lamos-Sweeney, Josh Lang, Laszlo Lange, Matthias Laporte, Marie-angelique Lee, Taein Le Floch, Erwan López, Francisco Madriz, Brandon Main, Dorrie Marsella, Marco Marty, Maud Michotey, Célia Miller, Zachary Milne, Iain Mueller, Lukas A Nderitu, Moses Neveu, Pascal Palladino, Nick Parsons, Tim Pommier, Cyril Rami, Jean-François Raubach, Sebastian Rife, Trevor Robbins, Kelly Rouard, Mathieu Ruff, Joseph Sempéré, Guilhem Shah, Romil Mayank Shaw, Paul Smith, Becky Soldevilla, Nahuel Tireau, Anne Tovar, Clarysabel Uszynski, Grzegorz Vega, Vivian Bass Weise, Stephan Yarnes, Shawn C The BrAPI Consortium germplasm data collection plant breeding phenotyping genotyping bioinformatics Population growth and the impacts of climate change are placing increasing pressure on global agriculture and breeding programmes. Recent advancements in phenotyping techniques, genotyping technologies, and predictive modelling are accelerating genetic gains in breeding programmes, helping researchers and breeders develop improved crops more efficiently. However, these advancements have also led to an overwhelming torrent of fragmented data, creating significant challenges in data integration and management. To address this issue, the Breeding Application Programming Interface (BrAPI) project was established as a standardized data model for breeding data. BrAPI is an international, community-driven effort that facilitates interoperability among databases and tools, improving the sharing and interpretation of breeding-related data. This open-source standard is software-agnostic and can be used by anyone interested in breeding, phenotyping, germplasm, genotyping, and agronomy data management. This manuscript provides an overview of the BrAPI project, highlighting the significant progress made in the development of the data standard and the expansion of its community. It also presents a showcase of the wide variety of BrAPI-compatible tools that have been built to enhance breeding and research activities, demonstrating how the project is advancing agricultural innovation and data management practices. 2025-01-18 2025-10-01T10:20:55Z 2025-10-01T10:20:55Z Journal Article https://hdl.handle.net/10568/176764 en Open Access application/pdf Oxford University Press Selby, P.; Abbeloos, R.; Adam-Blondon, A-F.; Agosto-Pérez, F.J.; Alaux, M.; Alic, I.; Al-Shamaa, K.; Aparicio, J.S.; Backlund, J.E.; Batac, A.; Beier, S.; Besombes, G.; Boizet, A.; Brouwer, M.; Casstevens, T.; Charleroy, A.; Corak, K.; Courtney, C.; Crimi, M.; Davuluri, G.; De-Sousa, K.; Destin, J.; Dhondt, S.; Dhungana, A.; Droesbeke, B.; Feser, M.; Flores-Gonzalez, M.; Guignon, V.; Habito, C.; Hallab, A.; Hershberger, J.; Hok, P.; Hulse-Kemp, A.M.; Johnson, L.C.; Jung, S.; Kersey, P.; Kilian, A.; König, P.; Kumar, S.; Lamos-Sweeney, J.; Lang, L.; Lange, M.; Laporte, M-A.; Lee, T.; Le Floch, E.; López, F.; Madriz, B.; Main, D.; Marsella, M.; Marty, M.; Michotey, C.; Miller, Z.; Milne, I.; Mueller, L.A.; Nderitu, M.; Neveu, P.; Palladino, N.; Parsons, T.; Pommier, C.; Rami, J-F.; Raubach, S.; Rife, T.; Robbins, K.; Rouard, M.; Ruff, J.; Sempéré, G.; Shah, R.M.; Shaw, P.; Smith, B.; Soldevilla, N.; Tireau, A.; Tovar, C.; Uszynski, G.; Vega, V.B.; Weise, S.; Yarnes, S.C.; The BrAPI Consortium (2025) BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community. Database 2025: baaf048. ISSN: 1758-0463 |
| spellingShingle | germplasm data collection plant breeding phenotyping genotyping bioinformatics Selby, Peter Abbeloos, Rafael Adam-Blondon, Anne-Francoise Agosto-Pérez, Francisco J. Alaux, Michael Alic, Isabelle Al-Shamaa, Khaled Aparicio, Johan Steven Backlund, Jan Erik Batac, Aldrin Beier, Sebastian Besombes, Gabriel Boizet, Alice Brouwer, Matthijs Casstevens, Terry Charleroy, Arnaud Corak, Keo Courtney, Chaney Crimi, Mariano Davuluri, Gouripriya de Sousa, Kauê Destin, Jeremy Dhondt, Stijn Dhungana, Ajay Droesbeke, Bert Feser, Manuel Flores-Gonzalez, Mirella Guignon, Valentin Habito, Corina Hallab, Asis Hershberger, Jenna Hok, Puthick Hulse-Kemp, Amanda M Johnson, Lynn Carol Jung, Sook Kersey, Paul Kilian, Andrzej König, Patrick Kumar, Suman Lamos-Sweeney, Josh Lang, Laszlo Lange, Matthias Laporte, Marie-angelique Lee, Taein Le Floch, Erwan López, Francisco Madriz, Brandon Main, Dorrie Marsella, Marco Marty, Maud Michotey, Célia Miller, Zachary Milne, Iain Mueller, Lukas A Nderitu, Moses Neveu, Pascal Palladino, Nick Parsons, Tim Pommier, Cyril Rami, Jean-François Raubach, Sebastian Rife, Trevor Robbins, Kelly Rouard, Mathieu Ruff, Joseph Sempéré, Guilhem Shah, Romil Mayank Shaw, Paul Smith, Becky Soldevilla, Nahuel Tireau, Anne Tovar, Clarysabel Uszynski, Grzegorz Vega, Vivian Bass Weise, Stephan Yarnes, Shawn C The BrAPI Consortium BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community |
| title | BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community |
| title_full | BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community |
| title_fullStr | BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community |
| title_full_unstemmed | BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community |
| title_short | BrAPI v2: Real-world applications for data integration and collaboration in the breeding and genetics community |
| title_sort | brapi v2 real world applications for data integration and collaboration in the breeding and genetics community |
| topic | germplasm data collection plant breeding phenotyping genotyping bioinformatics |
| url | https://hdl.handle.net/10568/176764 |
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