Bridging the genotype–phenotype gap in 3D

Struik, P.C.

doi:10.1093/jxb/erw264

Cited by 5 publications

(3 citation statements)

References 15 publications

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“…FSPMs combine the performance of 3D plant and canopy structure over time with specific physiological behavior [ 55 ] and have become important tools for studying relationships between structure and function [ 117 ]. While there is an increasing interest in using FSPMs to compare plants derived from different genetic sources, accurately modeling 3D architecture is paramount as this significantly affects the light distribution and interception, and the subsequent physiological processes such as canopy photosynthesis and transpiration [ 113 , 117 ]. However, constructing and assessing the 3D structural of virtual plants is still methodologically complex [ 118 ].…”

Section: Challenges In Fspms + Plant Phenomicsmentioning

confidence: 99%

Crop/Plant Modeling Supports Plant Breeding: II. Guidance of Functional Plant Phenotyping for Trait Discovery

Zhang,

Huang,

et al. 2023

Plant Phenomics

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Observable morphological traits are widely employed in plant phenotyping for breeding use, which are often the external phenotypes driven by a chain of functional actions in plants. Identifying and phenotyping inherently functional traits for crop improvement toward high yields or adaptation to harsh environments remains a major challenge. Prediction of whole-plant performance in functional–structural plant models (FSPMs) is driven by plant growth algorithms based on organ scale wrapped up with micro-environments. In particular, the models are flexible for scaling down or up through specific functions at the organ nexus, allowing the prediction of crop system behaviors from the genome to the field. As such, by virtue of FSPMs, model parameters that determine organogenesis, development, biomass production, allocation, and morphogenesis from a molecular to the whole plant level can be profiled systematically and made readily available for phenotyping. FSPMs can provide rich functional traits representing biological regulatory mechanisms at various scales in a dynamic system, e.g., Rubisco carboxylation rate, mesophyll conductance, specific leaf nitrogen, radiation use efficiency, and source–sink ratio apart from morphological traits. High-throughput phenotyping such traits is also discussed, which provides an unprecedented opportunity to evolve FSPMs. This will accelerate the co-evolution of FSPMs and plant phenomics, and thus improving breeding efficiency. To expand the great promise of FSPMs in crop science, FSPMs still need more effort in multiscale, mechanistic, reproductive organ, and root system modeling. In summary, this study demonstrates that FSPMs are invaluable tools in guiding functional trait phenotyping at various scales and can thus provide abundant functional targets for phenotyping toward crop improvement.

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Section: Challenges In Fspms + Plant Phenomicsmentioning

confidence: 99%

Crop/Plant Modeling Supports Plant Breeding: II. Guidance of Functional Plant Phenotyping for Trait Discovery

Zhang,

Huang,

et al. 2023

Plant Phenomics

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“…The eXtra Botany section is of central importance in the mission of the journal to reach out to the plant science community, showcasing not only outstanding research but also the breadth of plant science presented in the articles we publish, which together characterize the journal ( Raines, 2016 ). Over the past year, topics highlighted have ranged across the journal’s research themes, from architecture and morphogenesis, whether at the whole plant level ( Perez et al , 2016 ; Struik, 2016 ), in the leaf ( Routier-Kierzkowska and Kierzkowski, 2016 ; Sahaf and Sharon, 2016 ) or in the roots ( Kircher and Schopfer, 2016 ; Scheres and Laskowski, 2016 ) to the plant cell ( Pedrazzini et al , 2016 ; Strasser, 2016 ); and from metabolism ( Hanson, 2016 ; Young et al , 2016 ), biochemistry ( Kosma and Rowland, 2016 ; Schneider et al , 2016 ) and transport ( Sack et al , 2016 ; Trifiló et al , 2016 ) to plant defence ( Agut et al , 2016 ; Groen, 2016 ). Research involving crops continues to be extremely important, from phenotyping in the field ( Christopher et al , 2016 ; Rebetzke et al , 2016 ) to epigenetics ( Giovannoni, 2016 ; Gouil et al , 2016 ).…”

Section: Research Themes Across Plant Sciencementioning

confidence: 99%

Experimental botany in 2017

Raines

Traynor

Ingram

2017

Journal of Experimental Botany

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“…Meanwhile, the morphology and structure of maize is comparatively simple, which make it easy to describe and study. Rapid and accurate 3D morphological data acquisition, analysis and reconstruction [5] of maize is of great significance for maize genotype-phenotype analysis [6], canopy photosynthetic productivity calculation [7] and plant type or density optimization [8].…”

Section: Introductionmentioning

confidence: 99%

Multi-scale 3D Data Acquisition of Maize

Wen

Guo

et al. 2019

IFIP Advances in Information and Communication Technology

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In recent years, three-dimensional (3D) data acquisition and model reconstruction of plants have been developed as a hot topic of plant scientific researches. However, the morphological structure of plants is very complex and it is hard to describe the details. The data acquisition approaches are diverse for different parts of plants. This study introduces the data acquisition methods of different scales of maize. The grain, leaf and ear, individual plant and maize colony represents the target models for different scales. 3D data acquisition instruments are used to acquire the morphometric of each target. It is found that the organ scale is the simplest to obtain and process. The smallest grain needs high-resolution scanner to acquire the morphological details, while the plant canopy is the hardest one for point cloud process and modeling. The data and reconstructed models are oriented to digital plant, phenotyping analysis, FSPMs research, and popular science education application.

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Bridging the genotype–phenotype gap in 3D

Cited by 5 publications

References 15 publications

Crop/Plant Modeling Supports Plant Breeding: II. Guidance of Functional Plant Phenotyping for Trait Discovery

Crop/Plant Modeling Supports Plant Breeding: II. Guidance of Functional Plant Phenotyping for Trait Discovery

Experimental botany in 2017

Multi-scale 3D Data Acquisition of Maize

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