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Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency

Changes in canopy architecture traits have been shown to contribute to yield increases. Optimizing both light interception and light interception efficiency of agricultural crop canopies will be essential to meeting the growing food needs. Canopy architecture is inherently three‐dimensional (3D), bu...

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Autores principales: Gaillard, Mathieu, Miao, Chenyong, Schnable, James C., Benes, Bedrich
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7541904/
https://www.ncbi.nlm.nih.gov/pubmed/33073164
http://dx.doi.org/10.1002/pld3.255
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author Gaillard, Mathieu
Miao, Chenyong
Schnable, James C.
Benes, Bedrich
author_facet Gaillard, Mathieu
Miao, Chenyong
Schnable, James C.
Benes, Bedrich
author_sort Gaillard, Mathieu
collection PubMed
description Changes in canopy architecture traits have been shown to contribute to yield increases. Optimizing both light interception and light interception efficiency of agricultural crop canopies will be essential to meeting the growing food needs. Canopy architecture is inherently three‐dimensional (3D), but many approaches to measuring canopy architecture component traits treat the canopy as a two‐dimensional (2D) structure to make large scale measurement, selective breeding, and gene identification logistically feasible. We develop a high throughput voxel carving strategy to reconstruct 3D representations of sorghum from a small number of RGB photos. Our approach builds on the voxel carving algorithm to allow for fully automatic reconstruction of hundreds of plants. It was employed to generate 3D reconstructions of individual plants within a sorghum association population at the late vegetative stage of development. Light interception parameters estimated from these reconstructions enabled the identification of known and previously unreported loci controlling light interception efficiency in sorghum. The approach is generalizable and scalable, and it enables 3D reconstructions from existing plant high throughput phenotyping datasets. We also propose a set of best practices to increase 3D reconstructions’ accuracy.
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spelling pubmed-75419042020-10-16 Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency Gaillard, Mathieu Miao, Chenyong Schnable, James C. Benes, Bedrich Plant Direct Original Research Changes in canopy architecture traits have been shown to contribute to yield increases. Optimizing both light interception and light interception efficiency of agricultural crop canopies will be essential to meeting the growing food needs. Canopy architecture is inherently three‐dimensional (3D), but many approaches to measuring canopy architecture component traits treat the canopy as a two‐dimensional (2D) structure to make large scale measurement, selective breeding, and gene identification logistically feasible. We develop a high throughput voxel carving strategy to reconstruct 3D representations of sorghum from a small number of RGB photos. Our approach builds on the voxel carving algorithm to allow for fully automatic reconstruction of hundreds of plants. It was employed to generate 3D reconstructions of individual plants within a sorghum association population at the late vegetative stage of development. Light interception parameters estimated from these reconstructions enabled the identification of known and previously unreported loci controlling light interception efficiency in sorghum. The approach is generalizable and scalable, and it enables 3D reconstructions from existing plant high throughput phenotyping datasets. We also propose a set of best practices to increase 3D reconstructions’ accuracy. John Wiley and Sons Inc. 2020-10-07 /pmc/articles/PMC7541904/ /pubmed/33073164 http://dx.doi.org/10.1002/pld3.255 Text en © 2020 The Authors. Plant Direct published by American Society of Plant Biologists and the Society for Experimental Biology and John Wiley & Sons Ltd This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.
spellingShingle Original Research
Gaillard, Mathieu
Miao, Chenyong
Schnable, James C.
Benes, Bedrich
Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency
title Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency
title_full Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency
title_fullStr Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency
title_full_unstemmed Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency
title_short Voxel carving‐based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency
title_sort voxel carving‐based 3d reconstruction of sorghum identifies genetic determinants of light interception efficiency
topic Original Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7541904/
https://www.ncbi.nlm.nih.gov/pubmed/33073164
http://dx.doi.org/10.1002/pld3.255
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