CropSight: a scalable and open-source information management system for distributed plant phenotyping and IoT-based crop management.
CropSight
IoT-based crop management
distributed plant phenotyping
information system
phenomics
Journal
GigaScience
ISSN: 2047-217X
Titre abrégé: Gigascience
Pays: United States
ID NLM: 101596872
Informations de publication
Date de publication:
01 03 2019
01 03 2019
Historique:
received:
23
10
2018
revised:
18
12
2018
accepted:
15
01
2019
pubmed:
5
2
2019
medline:
19
7
2019
entrez:
5
2
2019
Statut:
ppublish
Résumé
High-quality plant phenotyping and climate data lay the foundation for phenotypic analysis and genotype-environment interaction, providing important evidence not only for plant scientists to understand the dynamics between crop performance, genotypes, and environmental factors but also for agronomists and farmers to closely monitor crops in fluctuating agricultural conditions. With the rise of Internet of Things technologies (IoT) in recent years, many IoT-based remote sensing devices have been applied to plant phenotyping and crop monitoring, which are generating terabytes of biological datasets every day. However, it is still technically challenging to calibrate, annotate, and aggregate the big data effectively, especially when they were produced in multiple locations and at different scales. CropSight is a PHP Hypertext Pre-processor and structured query language-based server platform that provides automated data collation, storage, and information management through distributed IoT sensors and phenotyping workstations. It provides a two-component solution to monitor biological experiments through networked sensing devices, with interfaces specifically designed for distributed plant phenotyping and centralized data management. Data transfer and annotation are accomplished automatically through an hypertext transfer protocol-accessible RESTful API installed on both device side and server side of the CropSight system, which synchronize daily representative crop growth images for visual-based crop assessment and hourly microclimate readings for GxE studies. CropSight also supports the comparison of historical and ongoing crop performance while different experiments are being conducted. As a scalable and open-source information management system, CropSight can be used to maintain and collate important crop performance and microclimate datasets captured by IoT sensors and distributed phenotyping installations. It provides near real-time environmental and crop growth monitoring in addition to historical and current experiment comparison through an integrated cloud-ready server system. Accessible both locally in the field through smart devices and remotely in an office using a personal computer, CropSight has been applied to field experiments of bread wheat prebreeding since 2016 and speed breeding since 2017. We believe that the CropSight system could have a significant impact on scalable plant phenotyping and IoT-style crop management to enable smart agricultural practices in the near future.
Sections du résumé
BACKGROUND
High-quality plant phenotyping and climate data lay the foundation for phenotypic analysis and genotype-environment interaction, providing important evidence not only for plant scientists to understand the dynamics between crop performance, genotypes, and environmental factors but also for agronomists and farmers to closely monitor crops in fluctuating agricultural conditions. With the rise of Internet of Things technologies (IoT) in recent years, many IoT-based remote sensing devices have been applied to plant phenotyping and crop monitoring, which are generating terabytes of biological datasets every day. However, it is still technically challenging to calibrate, annotate, and aggregate the big data effectively, especially when they were produced in multiple locations and at different scales.
FINDINGS
CropSight is a PHP Hypertext Pre-processor and structured query language-based server platform that provides automated data collation, storage, and information management through distributed IoT sensors and phenotyping workstations. It provides a two-component solution to monitor biological experiments through networked sensing devices, with interfaces specifically designed for distributed plant phenotyping and centralized data management. Data transfer and annotation are accomplished automatically through an hypertext transfer protocol-accessible RESTful API installed on both device side and server side of the CropSight system, which synchronize daily representative crop growth images for visual-based crop assessment and hourly microclimate readings for GxE studies. CropSight also supports the comparison of historical and ongoing crop performance while different experiments are being conducted.
CONCLUSIONS
As a scalable and open-source information management system, CropSight can be used to maintain and collate important crop performance and microclimate datasets captured by IoT sensors and distributed phenotyping installations. It provides near real-time environmental and crop growth monitoring in addition to historical and current experiment comparison through an integrated cloud-ready server system. Accessible both locally in the field through smart devices and remotely in an office using a personal computer, CropSight has been applied to field experiments of bread wheat prebreeding since 2016 and speed breeding since 2017. We believe that the CropSight system could have a significant impact on scalable plant phenotyping and IoT-style crop management to enable smart agricultural practices in the near future.
Identifiants
pubmed: 30715329
pii: 5304887
doi: 10.1093/gigascience/giz009
pmc: PMC6423370
pii:
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : Biotechnology and Biological Sciences Research Council
ID : BBS/E/J/000CA393
Pays : United Kingdom
Organisme : Biotechnology and Biological Sciences Research Council
ID : BBS/E/T/000PR9785
Pays : United Kingdom
Organisme : Biotechnology and Biological Sciences Research Council
ID : BB/CSP17270/1
Pays : United Kingdom
Organisme : Biotechnology and Biological Sciences Research Council
ID : BB/P016855/1
Pays : United Kingdom
Organisme : Biotechnology and Biological Sciences Research Council
ID : BBS/E/J/000PR9781
Pays : United Kingdom
Informations de copyright
© The Author(s) 2019. Published by Oxford University Press.
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