Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies
Background and Aims Diurnal changes in solar position and intensity combined with the structural complexity of plant architecture result in highly variable and dynamic light patterns within the plant canopy. This affects productivity through the complex ways that photosynthesis responds to changes i...
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Oxford University Press
2018
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| Online Access: | https://eprints.nottingham.ac.uk/51334/ |
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| author | Retkute, Renata Townsend, Alexandra J. Murchie, Erik H. Jensen, Oliver E. Preston, Simon P. |
| author_facet | Retkute, Renata Townsend, Alexandra J. Murchie, Erik H. Jensen, Oliver E. Preston, Simon P. |
| author_sort | Retkute, Renata |
| building | Nottingham Research Data Repository |
| collection | Online Access |
| description | Background and Aims Diurnal changes in solar position and intensity combined with the structural complexity of plant architecture result in highly variable and dynamic light patterns within the plant canopy. This affects productivity through the complex ways that photosynthesis responds to changes in light intensity. Current methods to characterise light dynamics, such as ray-tracing, are able to produce data with excellent spatio-temporal resolution but are computationally intensive and the resultant data are complex and high dimensional. This necessitates development of more economical models for summarising the data and for simulating realistic light patterns over the course of a day.
Methods High-resolution reconstructions of field-grown plants are assembled in various configurations to form canopies, and a forward ray-tracing algorithm is applied to the canopies to compute light dynamics at high (1 minute) temporal resolution. From the ray-tracer output, the sunlit or shaded state for each patch on the plants is determined, and these data are used to develop a novel stochastic model for the sunlit-shaded patterns. The model is designed to be straightforward to fit to data using maximum likelihood estimation, and fast to simulate from.
Key Results For a wide range of contrasting 3D canopies, the stochastic model is able to summarise, and replicate in simulations, key features of the light dynamics. When light patterns simulated from the stochastic model are used as input to a model of photoinhibition, the predicted reduction in carbon gain is similar to that from calculations based on the (extremely costly) ray-tracer data.
Conclusions The model provides a way to summarise highly complex data in a small number of parameters, and a cost-effective way to simulate realistic light patterns. Simulations from the model will be particularly useful for feeding into larger-scale photosynthesis models for calculating how light dynamics affects the photosynthetic productivity of canopies. |
| first_indexed | 2025-11-14T20:20:19Z |
| format | Article |
| id | nottingham-51334 |
| institution | University of Nottingham Malaysia Campus |
| institution_category | Local University |
| last_indexed | 2025-11-14T20:20:19Z |
| publishDate | 2018 |
| publisher | Oxford University Press |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | nottingham-513342020-05-04T19:37:44Z https://eprints.nottingham.ac.uk/51334/ Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies Retkute, Renata Townsend, Alexandra J. Murchie, Erik H. Jensen, Oliver E. Preston, Simon P. Background and Aims Diurnal changes in solar position and intensity combined with the structural complexity of plant architecture result in highly variable and dynamic light patterns within the plant canopy. This affects productivity through the complex ways that photosynthesis responds to changes in light intensity. Current methods to characterise light dynamics, such as ray-tracing, are able to produce data with excellent spatio-temporal resolution but are computationally intensive and the resultant data are complex and high dimensional. This necessitates development of more economical models for summarising the data and for simulating realistic light patterns over the course of a day. Methods High-resolution reconstructions of field-grown plants are assembled in various configurations to form canopies, and a forward ray-tracing algorithm is applied to the canopies to compute light dynamics at high (1 minute) temporal resolution. From the ray-tracer output, the sunlit or shaded state for each patch on the plants is determined, and these data are used to develop a novel stochastic model for the sunlit-shaded patterns. The model is designed to be straightforward to fit to data using maximum likelihood estimation, and fast to simulate from. Key Results For a wide range of contrasting 3D canopies, the stochastic model is able to summarise, and replicate in simulations, key features of the light dynamics. When light patterns simulated from the stochastic model are used as input to a model of photoinhibition, the predicted reduction in carbon gain is similar to that from calculations based on the (extremely costly) ray-tracer data. Conclusions The model provides a way to summarise highly complex data in a small number of parameters, and a cost-effective way to simulate realistic light patterns. Simulations from the model will be particularly useful for feeding into larger-scale photosynthesis models for calculating how light dynamics affects the photosynthetic productivity of canopies. Oxford University Press 2018-05-25 Article PeerReviewed Retkute, Renata, Townsend, Alexandra J., Murchie, Erik H., Jensen, Oliver E. and Preston, Simon P. (2018) Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies. Annals of Botany . ISSN 1095-8290 3D architecture crop canopy ray-tracing light dynamics photosynthesis https://academic.oup.com/aob/advance-article/doi/10.1093/aob/mcy067/5004660 doi:10.1093/aob/mcy067 doi:10.1093/aob/mcy067 |
| spellingShingle | 3D architecture crop canopy ray-tracing light dynamics photosynthesis Retkute, Renata Townsend, Alexandra J. Murchie, Erik H. Jensen, Oliver E. Preston, Simon P. Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies |
| title | Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies |
| title_full | Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies |
| title_fullStr | Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies |
| title_full_unstemmed | Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies |
| title_short | Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies |
| title_sort | three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies |
| topic | 3D architecture crop canopy ray-tracing light dynamics photosynthesis |
| url | https://eprints.nottingham.ac.uk/51334/ https://eprints.nottingham.ac.uk/51334/ https://eprints.nottingham.ac.uk/51334/ |