Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic Stimulation
Image analysis is widely applied in plant science for phenotyping and monitoring botanic and agricultural species. Although a lot of software is available, tools integrating image analysis and statistical assessment of seedling growth in large groups of plants are limited or absent, and do not cover...
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| Format: | Article |
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MDPI AG
2023-08-01
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| Series: | Agronomy |
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| Online Access: | https://www.mdpi.com/2073-4395/13/8/2134 |
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| author | Daria D. Emekeeva Tomiris T. Kusainova Lev I. Levitsky Elizaveta M. Kazakova Mark V. Ivanov Irina P. Olkhovskaya Mikhail L. Kuskov Alexey N. Zhigach Nataliya N. Glushchenko Olga A. Bogoslovskaya Irina A. Tarasova |
| author_facet | Daria D. Emekeeva Tomiris T. Kusainova Lev I. Levitsky Elizaveta M. Kazakova Mark V. Ivanov Irina P. Olkhovskaya Mikhail L. Kuskov Alexey N. Zhigach Nataliya N. Glushchenko Olga A. Bogoslovskaya Irina A. Tarasova |
| author_sort | Daria D. Emekeeva |
| collection | DOAJ |
| description | Image analysis is widely applied in plant science for phenotyping and monitoring botanic and agricultural species. Although a lot of software is available, tools integrating image analysis and statistical assessment of seedling growth in large groups of plants are limited or absent, and do not cover the needs of researchers. In this study, we developed Morley, a free, open-source graphical user interface written in Python. Morley automates the following workflow: (1) group-wise analysis of a few thousand seedlings from multiple images; (2) recognition of seeds, shoots, and roots in seedling images; (3) calculation of shoot and root lengths and surface area; (4) evaluation of statistically significant differences between plant groups; (5) calculation of germination rates; and (6) visualization and interpretation. Morley is designed for laboratory studies of biotic effects on seedling growth, when the molecular mechanisms underlying the morphometric changes are analyzed. The performance was tested using cultivars of <i>Triticum aestivum</i> and <i>Pisum sativum</i> on seedlings of up to 1 week old. The accuracy of the measured morphometric parameters was comparable with that obtained using ImageJ and manual measurements. Possible applications of Morley include dose-dependent laboratory tests for germination affected by new bioactive compounds and fertilizers. |
| first_indexed | 2024-03-11T00:11:59Z |
| format | Article |
| id | doaj.art-df9b2b073c6a4b2289e9b2a977af084e |
| institution | Directory Open Access Journal |
| issn | 2073-4395 |
| language | English |
| last_indexed | 2024-03-11T00:11:59Z |
| publishDate | 2023-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Agronomy |
| spelling | doaj.art-df9b2b073c6a4b2289e9b2a977af084e2023-11-18T23:55:28ZengMDPI AGAgronomy2073-43952023-08-01138213410.3390/agronomy13082134Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic StimulationDaria D. Emekeeva0Tomiris T. Kusainova1Lev I. Levitsky2Elizaveta M. Kazakova3Mark V. Ivanov4Irina P. Olkhovskaya5Mikhail L. Kuskov6Alexey N. Zhigach7Nataliya N. Glushchenko8Olga A. Bogoslovskaya9Irina A. Tarasova10V. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaV. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Sciences, 38 Leninsky Prospekt, Bld. 2, 119334 Moscow, RussiaImage analysis is widely applied in plant science for phenotyping and monitoring botanic and agricultural species. Although a lot of software is available, tools integrating image analysis and statistical assessment of seedling growth in large groups of plants are limited or absent, and do not cover the needs of researchers. In this study, we developed Morley, a free, open-source graphical user interface written in Python. Morley automates the following workflow: (1) group-wise analysis of a few thousand seedlings from multiple images; (2) recognition of seeds, shoots, and roots in seedling images; (3) calculation of shoot and root lengths and surface area; (4) evaluation of statistically significant differences between plant groups; (5) calculation of germination rates; and (6) visualization and interpretation. Morley is designed for laboratory studies of biotic effects on seedling growth, when the molecular mechanisms underlying the morphometric changes are analyzed. The performance was tested using cultivars of <i>Triticum aestivum</i> and <i>Pisum sativum</i> on seedlings of up to 1 week old. The accuracy of the measured morphometric parameters was comparable with that obtained using ImageJ and manual measurements. Possible applications of Morley include dose-dependent laboratory tests for germination affected by new bioactive compounds and fertilizers.https://www.mdpi.com/2073-4395/13/8/2134computer visionfertilizersgerminationmorphometryseedlingswheat |
| spellingShingle | Daria D. Emekeeva Tomiris T. Kusainova Lev I. Levitsky Elizaveta M. Kazakova Mark V. Ivanov Irina P. Olkhovskaya Mikhail L. Kuskov Alexey N. Zhigach Nataliya N. Glushchenko Olga A. Bogoslovskaya Irina A. Tarasova Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic Stimulation Agronomy computer vision fertilizers germination morphometry seedlings wheat |
| title | Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic Stimulation |
| title_full | Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic Stimulation |
| title_fullStr | Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic Stimulation |
| title_full_unstemmed | Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic Stimulation |
| title_short | Morley: Image Analysis and Evaluation of Statistically Significant Differences in Geometric Sizes of Crop Seedlings in Response to Biotic Stimulation |
| title_sort | morley image analysis and evaluation of statistically significant differences in geometric sizes of crop seedlings in response to biotic stimulation |
| topic | computer vision fertilizers germination morphometry seedlings wheat |
| url | https://www.mdpi.com/2073-4395/13/8/2134 |
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