A variety test platform for the standardization and data quality improvement of crop variety tests
Variety testing is an indispensable and essential step in the process of creating new improved varieties from breeding to adoption. The performance of the varieties can be compared and evaluated based on multi-trait data from multi-location variety tests in multiple years. Although high-throughput p...
| Main Authors: | , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2023-01-01
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| Series: | Frontiers in Plant Science |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1077196/full |
| _version_ | 1797945010514034688 |
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| author | Feng Yang Zhongqiang Liu Yuxi Wang Xiaofeng Wang Xiaofeng Wang Qiusi Zhang Qiusi Zhang Yanyun Han Yanyun Han Xiangyu Zhao Xiangyu Zhao Shouhui Pan Shouhui Pan Shuo Yang Shufeng Wang Shufeng Wang Qi Zhang Qi Zhang Jun Qiu Kaiyi Wang Kaiyi Wang |
| author_facet | Feng Yang Zhongqiang Liu Yuxi Wang Xiaofeng Wang Xiaofeng Wang Qiusi Zhang Qiusi Zhang Yanyun Han Yanyun Han Xiangyu Zhao Xiangyu Zhao Shouhui Pan Shouhui Pan Shuo Yang Shufeng Wang Shufeng Wang Qi Zhang Qi Zhang Jun Qiu Kaiyi Wang Kaiyi Wang |
| author_sort | Feng Yang |
| collection | DOAJ |
| description | Variety testing is an indispensable and essential step in the process of creating new improved varieties from breeding to adoption. The performance of the varieties can be compared and evaluated based on multi-trait data from multi-location variety tests in multiple years. Although high-throughput phenotypic platforms have been used for observing some specific traits, manual phenotyping is still widely used. The efficient management of large amounts of data is still a significant problem for crop variety testing. This study reports a variety test platform (VTP) that was created to manage the whole workflow for the standardization and data quality improvement of crop variety testing. Through the VTP, the phenotype data of varieties can be integrated and reused based on standardized data elements and datasets. Moreover, the information support and automated functions for the whole testing workflow help users conduct tests efficiently through a series of functions such as test design, data acquisition and processing, and statistical analyses. The VTP has been applied to regional variety tests covering more than seven thousand locations across the whole country, and then a standardized and authoritative phenotypic database covering five crops has been generated. In addition, the VTP can be deployed on either privately or publicly available high-performance computing nodes so that test management and data analysis can be conveniently done using a web-based interface or mobile application. In this way, the system can provide variety test management services to more small and medium-sized breeding organizations, and ensures the mutual independence and security of test data. The application of VTP shows that the platform can make variety testing more efficient and can be used to generate a reliable database suitable for meta-analysis in multi-omics breeding and variety development projects. |
| first_indexed | 2024-04-10T20:48:39Z |
| format | Article |
| id | doaj.art-f94791baf46b4d46b2a4ba4492dbb97a |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-10T20:48:39Z |
| publishDate | 2023-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-f94791baf46b4d46b2a4ba4492dbb97a2023-01-24T05:22:47ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-01-011410.3389/fpls.2023.10771961077196A variety test platform for the standardization and data quality improvement of crop variety testsFeng Yang0Zhongqiang Liu1Yuxi Wang2Xiaofeng Wang3Xiaofeng Wang4Qiusi Zhang5Qiusi Zhang6Yanyun Han7Yanyun Han8Xiangyu Zhao9Xiangyu Zhao10Shouhui Pan11Shouhui Pan12Shuo Yang13Shufeng Wang14Shufeng Wang15Qi Zhang16Qi Zhang17Jun Qiu18Kaiyi Wang19Kaiyi Wang20Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaNational Agro-Tech Extension and Service Center, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaKey Laboratory of Agri-informatics, Ministry of Agriculture, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaKey Laboratory of Agri-informatics, Ministry of Agriculture, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaKey Laboratory of Agri-informatics, Ministry of Agriculture, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaNational Engineering Research Center for Information Technology in Agriculture, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaNational Engineering Research Center for Information Technology in Agriculture, Beijing, ChinaAgChip Science and Technology (Beijing) Co., Ltd., Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaKey Laboratory of Agri-informatics, Ministry of Agriculture, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaKey Laboratory of Agri-informatics, Ministry of Agriculture, Beijing, ChinaNational Agro-Tech Extension and Service Center, Beijing, ChinaInformation Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, ChinaNational Engineering Research Center for Information Technology in Agriculture, Beijing, ChinaVariety testing is an indispensable and essential step in the process of creating new improved varieties from breeding to adoption. The performance of the varieties can be compared and evaluated based on multi-trait data from multi-location variety tests in multiple years. Although high-throughput phenotypic platforms have been used for observing some specific traits, manual phenotyping is still widely used. The efficient management of large amounts of data is still a significant problem for crop variety testing. This study reports a variety test platform (VTP) that was created to manage the whole workflow for the standardization and data quality improvement of crop variety testing. Through the VTP, the phenotype data of varieties can be integrated and reused based on standardized data elements and datasets. Moreover, the information support and automated functions for the whole testing workflow help users conduct tests efficiently through a series of functions such as test design, data acquisition and processing, and statistical analyses. The VTP has been applied to regional variety tests covering more than seven thousand locations across the whole country, and then a standardized and authoritative phenotypic database covering five crops has been generated. In addition, the VTP can be deployed on either privately or publicly available high-performance computing nodes so that test management and data analysis can be conveniently done using a web-based interface or mobile application. In this way, the system can provide variety test management services to more small and medium-sized breeding organizations, and ensures the mutual independence and security of test data. The application of VTP shows that the platform can make variety testing more efficient and can be used to generate a reliable database suitable for meta-analysis in multi-omics breeding and variety development projects.https://www.frontiersin.org/articles/10.3389/fpls.2023.1077196/fullcrop variety testtrait datastandardizationdata quality controlstatistical analysis |
| spellingShingle | Feng Yang Zhongqiang Liu Yuxi Wang Xiaofeng Wang Xiaofeng Wang Qiusi Zhang Qiusi Zhang Yanyun Han Yanyun Han Xiangyu Zhao Xiangyu Zhao Shouhui Pan Shouhui Pan Shuo Yang Shufeng Wang Shufeng Wang Qi Zhang Qi Zhang Jun Qiu Kaiyi Wang Kaiyi Wang A variety test platform for the standardization and data quality improvement of crop variety tests Frontiers in Plant Science crop variety test trait data standardization data quality control statistical analysis |
| title | A variety test platform for the standardization and data quality improvement of crop variety tests |
| title_full | A variety test platform for the standardization and data quality improvement of crop variety tests |
| title_fullStr | A variety test platform for the standardization and data quality improvement of crop variety tests |
| title_full_unstemmed | A variety test platform for the standardization and data quality improvement of crop variety tests |
| title_short | A variety test platform for the standardization and data quality improvement of crop variety tests |
| title_sort | variety test platform for the standardization and data quality improvement of crop variety tests |
| topic | crop variety test trait data standardization data quality control statistical analysis |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1077196/full |
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