A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral Imaging
Salinity stress has significant adverse effects on crop productivity and yield. The primary goal of this study was to quantitatively rank salt tolerance in wheat using hyperspectral imaging. Four wheat lines were assayed in a hydroponic system with control and salt treatments (0 and 200 mM NaCl). Hy...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2018-08-01
|
| Series: | Frontiers in Plant Science |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fpls.2018.01182/full |
| _version_ | 1818147570542706688 |
|---|---|
| author | Ali Moghimi Ce Yang Marisa E. Miller Marisa E. Miller Shahryar F. Kianian Shahryar F. Kianian Peter M. Marchetto |
| author_facet | Ali Moghimi Ce Yang Marisa E. Miller Marisa E. Miller Shahryar F. Kianian Shahryar F. Kianian Peter M. Marchetto |
| author_sort | Ali Moghimi |
| collection | DOAJ |
| description | Salinity stress has significant adverse effects on crop productivity and yield. The primary goal of this study was to quantitatively rank salt tolerance in wheat using hyperspectral imaging. Four wheat lines were assayed in a hydroponic system with control and salt treatments (0 and 200 mM NaCl). Hyperspectral images were captured one day after salt application when there were no visual symptoms. Subsequent to necessary preprocessing tasks, two endmembers, each representing one of the treatment, were identified in each image using successive volume maximization. To simplify image analysis and interpretation, similarity of all pixels to the salt endmember was calculated by a technique proposed in this study, referred to as vector-wise similarity measurement. Using this approach allowed high-dimensional hyperspectral images to be reduced to one-dimensional gray-scale images while retaining all relevant information. Two methods were then utilized to analyze the gray-scale images: minimum difference of pair assignments and Bayesian method. The rankings of both methods were similar and consistent with the expected ranking obtained by conventional phenotyping experiments and historical evidence of salt tolerance. This research highlights the application of machine learning in hyperspectral image analysis for phenotyping of plants in a quantitative, interpretable, and non-invasive manner. |
| first_indexed | 2024-12-11T12:37:21Z |
| format | Article |
| id | doaj.art-b6f1e4bbc62e4239ba0d0b7ee60eb339 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-11T12:37:21Z |
| publishDate | 2018-08-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-b6f1e4bbc62e4239ba0d0b7ee60eb3392022-12-22T01:07:04ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2018-08-01910.3389/fpls.2018.01182365085A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral ImagingAli Moghimi0Ce Yang1Marisa E. Miller2Marisa E. Miller3Shahryar F. Kianian4Shahryar F. Kianian5Peter M. Marchetto6Department of Bioproducts and Biosystems Engineering, University of Minnesota, Minneapolis, MN, United StatesDepartment of Bioproducts and Biosystems Engineering, University of Minnesota, Minneapolis, MN, United StatesCereal Disease Laboratory, USDA-ARS, Saint Paul, MN, United StatesDepartment of Plant Pathology, University of Minnesota, Minneapolis, MN, United StatesCereal Disease Laboratory, USDA-ARS, Saint Paul, MN, United StatesDepartment of Plant Pathology, University of Minnesota, Minneapolis, MN, United StatesDepartment of Bioproducts and Biosystems Engineering, University of Minnesota, Minneapolis, MN, United StatesSalinity stress has significant adverse effects on crop productivity and yield. The primary goal of this study was to quantitatively rank salt tolerance in wheat using hyperspectral imaging. Four wheat lines were assayed in a hydroponic system with control and salt treatments (0 and 200 mM NaCl). Hyperspectral images were captured one day after salt application when there were no visual symptoms. Subsequent to necessary preprocessing tasks, two endmembers, each representing one of the treatment, were identified in each image using successive volume maximization. To simplify image analysis and interpretation, similarity of all pixels to the salt endmember was calculated by a technique proposed in this study, referred to as vector-wise similarity measurement. Using this approach allowed high-dimensional hyperspectral images to be reduced to one-dimensional gray-scale images while retaining all relevant information. Two methods were then utilized to analyze the gray-scale images: minimum difference of pair assignments and Bayesian method. The rankings of both methods were similar and consistent with the expected ranking obtained by conventional phenotyping experiments and historical evidence of salt tolerance. This research highlights the application of machine learning in hyperspectral image analysis for phenotyping of plants in a quantitative, interpretable, and non-invasive manner.https://www.frontiersin.org/article/10.3389/fpls.2018.01182/fullBayesian inferencehistogram distancehyperspectral imagingimage processingmachine learningplant phenotyping |
| spellingShingle | Ali Moghimi Ce Yang Marisa E. Miller Marisa E. Miller Shahryar F. Kianian Shahryar F. Kianian Peter M. Marchetto A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral Imaging Frontiers in Plant Science Bayesian inference histogram distance hyperspectral imaging image processing machine learning plant phenotyping |
| title | A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral Imaging |
| title_full | A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral Imaging |
| title_fullStr | A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral Imaging |
| title_full_unstemmed | A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral Imaging |
| title_short | A Novel Approach to Assess Salt Stress Tolerance in Wheat Using Hyperspectral Imaging |
| title_sort | novel approach to assess salt stress tolerance in wheat using hyperspectral imaging |
| topic | Bayesian inference histogram distance hyperspectral imaging image processing machine learning plant phenotyping |
| url | https://www.frontiersin.org/article/10.3389/fpls.2018.01182/full |
| work_keys_str_mv | AT alimoghimi anovelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT ceyang anovelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT marisaemiller anovelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT marisaemiller anovelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT shahryarfkianian anovelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT shahryarfkianian anovelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT petermmarchetto anovelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT alimoghimi novelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT ceyang novelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT marisaemiller novelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT marisaemiller novelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT shahryarfkianian novelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT shahryarfkianian novelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging AT petermmarchetto novelapproachtoassesssaltstresstoleranceinwheatusinghyperspectralimaging |