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Abstract Background The leaf angle distribution (LAD) is an important structural parameter of agricultural crops that influences light interception, radiation fluxes and consequently plant performance. Therefore, LAD and its parametrized form, the Beta distribution, is used in many photosynthesis models. However, in field cultivations, these parameters are difficult to assess and cereal crops in particular pose challenges since their leaves are thin, flexible, and often bent and twisted around their own axis. To our knowledge, there is only a very limited set of methods currently available to calculate LADs of field-grown cereal crops that explicitly takes these special morphological properties into account. Results In this study, a new processing pipeline is introduced that allows for the generation of realistic leaf surface models and the analysis of LADs of field-grown cereal crops from 3D point clouds. The data acquisition is based on a convenient stereo imaging setup. The approach was validated with different artificial targets and results on the accuracy of the 3D reconstruction, leaf surface modeling and calculated LAD are given. The mean error of the 3D reconstruction was below 1 mm for an inclination angle range between 0° and 75° and the leaf surface could be quantified with an average accuracy of 90%. The concordance correlation coefficient (CCC) of 99.6% (p-value = $$1.5* {10}^{-29}$$ 1.5 ∗ 10 - 29 ) indicated a high correlation between the reconstructed inclination angle and the identity line. The LADs for bent leaves were reconstructed with a mean error of 0.21° and a standard deviation of 1.55°. As an additional parameter, the insertion angle was reconstructed for the artificial leaf model with an average error

Leaf pigments are critical indicators of plant photosynthesis, stress, and physiological conditions. Inversion of radiative transfer models (RTMs) is a promising method for robustly retrieving leaf biochemical traits from canopy observations, and adding prior information has been effective in alleviating the “ill-posed” problem, a major challenge in model inversion. Canopy structure parameters, such as leaf area index (LAI) and average leaf inclination angle (ALA), can serve as prior information for leaf pigment retrieval. Using canopy spectra simulated from the PROSAIL model, we estimated the effects of uncertainty in LAI and ALA used as prior information for lookup table-based inversions of leaf chlorophyll (Cab) and carotenoid (Car). The retrieval accuracies of the two pigments were increased by use of the priors of LAI (RMSE of Cab from 7.67 to 6.32 μg cm−2, Car from 2.41 to 2.28 μg cm−2) and ALA (RMSE of Cab from 7.67 to 5.72 μg cm−2, Car from 2.41 to 2.23 μg cm−2). However, this improvement deteriorated with an increase of additive and multiplicative uncertainties, and when 40% and 20% noise was added to LAI and ALA respectively, these priors ceased to increase retrieval accuracy. Validation using an experimental winter wheat dataset also showed that compared with Car, the estimation accuracy of Cab increased more or deteriorated less with uncertainty in prior canopy structure. This study demonstrates possible limitations of using prior information in RTM inversions for retrieval of leaf biochemistry, when large uncertainties are present.

Accurate estimation of canopy chlorophyll content (CCC) is critically important for agricultural production management. However, vegetation indices derived from canopy reflectance are influenced by canopy structure, which limits their application across species and seasonality. For horizontally homogenous canopies such as field crops, LAI and leaf inclination angle distribution or leaf mean tilt angle (MTA) are two biophysical characteristics determining canopy structure. Since CCC is relevant to LAI, MTA is the only structural parameter affecting the correlation between CCC and vegetation indices. To date, there are few vegetation indices designed to minimize MTA effects for CCC estimation. Herein, in this study, CCC-sensitive and MTA-insensitive satellite broadband vegetation indices are developed for crop canopy chlorophyll content estimation. The most efficient broadband vegetation indices for four satellite sensors (Sentinel-2, RapidEye, WorldView-2 and GaoFen-6) with red edge channels were identified (in the context of various vegetation index types) using simulated satellite broadband reflectance based on field measurements and validated with PROSAIL model simulations. The results indicate that developed vegetation indices present strong correlations with CCC and weak correlations with MTA, with overall R2 of 0.76–0.80 and 0.84–0.95 for CCC and R2 of 0.00 and 0.00–0.04 in the field measured data and model simulations, respectively. The best vegetation indices identified in this study are the soil-adjusted index type index SAI (B6, B7) for Sentinel-2, Verrelts’s three-band spectral index type index BSI-V (NIR1, Red, Red Edge) for WorldView-2, Tian’s three-band spectral index type index BSI-T (Red Edge, Green, NIR) for RapidEye and difference index type index DI (B6, B4) for GaoFen-6. The identified indices can potentially be used for crop CCC estimation across species and seasonality. However, real satellite datasets and more crop species need to be tested in further studies.

Leaf angle distribution (LAD), or the leaf mean tilt angle (MTA) capturing its central value, is used to quantify the direction of the leaf surface in a canopy and is one of the most important canopy structuraltraits. Combined with the other important structure parameter, leaf area index (LAI), LAD determines the light interception of a crop canopy. However, unlike LAI, only few studies have addressed the direct retrieval of LAD or MTA from remote sensing data. Recently, it has been shown that the red edge is a key spectral region where the effect of leaf angle on crop spectral reflectance can be separated from that of other structural variables. The Multispectral imager (MSI) onboard the Sentinel-2 (S2) satellite has two specially designed red-edge channels in this spectral region and thus can potentially be used for large-scale mapping of MTA at high spatial and temporal resolutions. Unfortunately, no field data on leaf angles at the scale of S2 pixel are available. Therefore, we simulated 5000 observations of different crops using the PROSAIL canopy reflectance model. Further, we used the MTA and LAI data of six crop species growing in 162 experimental plots in Finland and simulated their reflectance signal in S2 bands by resampling AISA airborne imaging spectroscopy data. Four common machine learning regression algorithms (random forest, support vector machine, multilayer perceptron network and partial least squares regression) were examined for retrieving canopy structure parameters, including leaf angle, from the simulated reflectances. Further, we analyzed the utility of 12 vegetation indices (VIs) well known to be sensitive to canopy structure for canopy structure estimation. Six of the studied indices used information from the visible part of the spectrum and the near infrared (NIR) while another six were selected to also utilize the red edge bands specific to S2. We found that S2 band 6 in the red edge had a strong correlation with MTA (R2 = 0.79 in model simulation and R2 = 0.87 in field measurements) but a low correlation with LAI (R2 = 0.07 in model simulation and R2= 0.06 in field measurements). Of the six red edge-based VIs, four (NDVIRE, CIRE, WDRVIRE and MSRRE) depended less on MTA than the visible NIR-based VIs and thus could be useful for estimating LAI for any LAD. The other two red edge-based VIs, IRECI and S2REP, had stronger correlations with MTA (R2 = 0.67 and 0.52, respectively) than LAI (R2 = 0.24 and 0.19, respectively). Additionally, MTA was accurately estimated (RMSE = 1.1–2.4° in model simulations and RMSE = 2.2–3.9° in field measurements) using the four 10 m spatial resolution bands with the RF, SVM and MLP algorithms, without information in the red edge. These promising results indicate the capability of S2 in accurately mapping the MTA of field crops on a large scale.

The quantity and quality of light captured by a plant’s canopy control many of its growth and development processes. However, light quality-related processes are not very well represented in most traditional and functional–structural crop models, which has been a major barrier to furthering crop model improvement and to better capturing the genetic control and environment modification of plant growth and development. A main challenge is the difficulty in obtaining dynamic data on plant canopy architectural characteristics. Current approaches on the measurement of 3D traits often relies on technologies that are either costly, excessively complicated, or impractical for field use. This study presents a methodology to estimate plant 3D traits using smart mobile app and data modeling. Leaf architecture data on 16 genotypes of rice were collected during two crop seasons using the smart-app PocketPlant3D. Quadratic Bézier curves were fitted to leaf lamina for estimation of insertion angle, elevation angle, and curve height. Leaf azimuth angle distribution, leaf phyllotaxis, canopy leaf angle distribution, and light extinction coefficients were also analyzed. The results could be used for breeding line selection or for parameterizing or evaluating rice 3D architectural models. The methodology opens new opportunities for strengthening the integration of plant 3D architectural traits in crop modeling, better capturing the genetic control and environment modification of plant growth and development, and for improving ideotype-based plant breeding.

Leaf angle distribution (LAD) is an important attribute of forest canopy architecture and affects the solar radiation regime within the canopy. Terrestrial laser scanning (TLS) has been increasingly used in LAD estimation. The point clouds data suffer from the occlusion effect, which leads to incomplete scanning and depends on measurement strategies such as the number of scans and scanner location. Evaluating these factors is important to understand how to improve LAD, which is still lacking. Here, we introduce an easy way of estimating the LAD using open source software. Importantly, the influence of the occlusion effect on the LAD was evaluated by combining the proposed complete point clouds (CPCs) with the simulated data of 3D tree models of Aspen, Pin Oak and White Oak. We analyzed the effects of the point density, the number of scans and the scanner height on the LAD and G-function. Results show that: (1) the CPC can be used to evaluate the TLS-based normal vector reconstruction accuracy without an occlusion effect; (2) the accuracy is slightly affected by the normal vector reconstruction method and is greatly affected by the point density and the occlusion effect. The higher the point density (with a number of points per unit leaf area of 0.2 cm−2 to 27 cm−2 tested), the better the result is; (3) the performance is more sensitive to the scanner location than the number of scans. Increasing the scanner height improves LAD estimation, which has not been seriously considered in previous studies. It is worth noting that relatively tall trees suffer from a more severe occlusion effect, which deserves further attention in further study.

It is critical to take the variability of leaf angle distribution into account in a remote sensing analysis of a canopy system. Due to the physical limitations of field measurements, it is difficult to obtain leaf angles quickly and accurately, especially with a complicated canopy structure. An application of terrestrial LiDAR (Light Detection and Ranging) is a common solution for the purposes of leaf angle estimation, and it allows for the measurement and reconstruction of 3D canopy models with an arbitrary volume of leaves. However, in most cases, the leaf angle is estimated incorrectly due to inaccurate leaf segmentation. Therefore, the objective of this study was an emphasis on the development of efficient segmentation algorithms for accurate leaf angle estimation. Our study demonstrates a leaf segmentation approach based on a k-means algorithm coupled with an octree structure and the subsequent application of plane-fitting to estimate the leaf angle. Furthermore, the accuracy of the segmentation and leaf angle estimation was verified. The results showed average segmentation accuracies of 95% and 90% and absolute angular errors of 3° and 6° in the leaves sampled from mochi and Japanese camellia trees, respectively. It is our conclusion that our method of leaf angle estimation has high potential and is expected to make a significant contribution to future plant and forest research.

Leaf inclination angle distribution is an important canopy structure characteristic which directly impacts the fraction of the intercepted solar radiation. Together with the leaf area index (LAI) it determines the structure and fractional cover of a homogeneous crop canopy. Unfortunately, this key canopy parameter has usually been ignored when applying common multispectral vegetation indices to the mapping of LAI, although its impact is known from model simulations. Therefore, we measured leaf angles and determined their distribution (quantified using the leaf mean tilt angle, MTA) for six crop species with different structures growing on 162 plots with a broad range of LAI (1.1–5.0) and leaf chlorophyll content (26–94 μg cm−2). Next, we calculated six vegetation indices widely used for LAI monitoring—the normalized difference vegetation index (NDVI), the enhanced vegetation index (EVI), the two band enhanced vegetation index (EVI2), the modified triangular vegetation index (MTVI2), the optimized soil adjusted vegetation index (OSAVI) and the wide dynamic range vegetation index (WDRVI)—from airborne imaging spectroscopy data. We calculated the Spearman’s correlation coefficient R s , a non-parametric statistic chosen because of the non-normal distribution of canopy parameters. All studied indices depended on the LAI ( 0.50 ≤ R s ≤ 0.71 ) , but the dependence on the MTA was of similar magnitude ( − 0.83 ≤ R s ≤ − 0.53 ) with EVI, EVI2, OSAVI and MTVI2 depending more strongly on MTA than on LAI. All studied indices were good proxies ( 0.78 ≤ R s ≤ 0.88 ) for vegetation fractional cover (Fcover) which, for homogeneous crop canopies, is a nonlinear function of LAI and MTA. EVI2 and MTVI2 were the most strongly correlated with Fcover, although the difference to the other studied indices was small. This first study involving a large range of crop structures confirms the results from canopy reflectance simulations and emphasizes the necessity of leaf angle information for the successful mapping of LAI with Earth observation data.