22 research outputs found

    Remote Sensing of Biophysical Parameters

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    Vegetation plays an essential role in the study of the environment through plant respiration and photosynthesis. Therefore, the assessment of the current vegetation status is critical to modeling terrestrial ecosystems and energy cycles. Canopy structure (LAI, fCover, plant height, biomass, leaf angle distribution) and biochemical parameters (leaf pigmentation and water content) have been employed to assess vegetation status and its dynamics at scales ranging from kilometric to decametric spatial resolutions thanks to methods based on remote sensing (RS) data.Optical RS retrieval methods are based on the radiative transfer processes of sunlight in vegetation, determining the amount of radiation that is measured by passive sensors in the visible and infrared channels. The increased availability of active RS (radar and LiDAR) data has fostered their use in many applications for the analysis of land surface properties and processes, thanks to their insensitivity to weather conditions and the ability to exploit rich structural and texture information. Optical and radar data fusion and multi-sensor integration approaches are pressing topics, which could fully exploit the information conveyed by both the optical and microwave parts of the electromagnetic spectrum.This Special Issue reprint reviews the state of the art in biophysical parameters retrieval and its usage in a wide variety of applications (e.g., ecology, carbon cycle, agriculture, forestry and food security)

    Quantifying Vegetation Biophysical Variables from Imaging Spectroscopy Data: A Review on Retrieval Methods

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    An unprecedented spectroscopic data stream will soon become available with forthcoming Earth-observing satellite missions equipped with imaging spectroradiometers. This data stream will open up a vast array of opportunities to quantify a diversity of biochemical and structural vegetation properties. The processing requirements for such large data streams require reliable retrieval techniques enabling the spatiotemporally explicit quantification of biophysical variables. With the aim of preparing for this new era of Earth observation, this review summarizes the state-of-the-art retrieval methods that have been applied in experimental imaging spectroscopy studies inferring all kinds of vegetation biophysical variables. Identified retrieval methods are categorized into: (1) parametric regression, including vegetation indices, shape indices and spectral transformations; (2) nonparametric regression, including linear and nonlinear machine learning regression algorithms; (3) physically based, including inversion of radiative transfer models (RTMs) using numerical optimization and look-up table approaches; and (4) hybrid regression methods, which combine RTM simulations with machine learning regression methods. For each of these categories, an overview of widely applied methods with application to mapping vegetation properties is given. In view of processing imaging spectroscopy data, a critical aspect involves the challenge of dealing with spectral multicollinearity. The ability to provide robust estimates, retrieval uncertainties and acceptable retrieval processing speed are other important aspects in view of operational processing. Recommendations towards new-generation spectroscopy-based processing chains for operational production of biophysical variables are given

    Quantifying Vegetation Biophysical Variables from Imaging Spectroscopy Data: A Review on Retrieval Methods

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    An unprecedented spectroscopic data stream will soon become available with forthcoming Earth-observing satellite missions equipped with imaging spectroradiometers. This data stream will open up a vast array of opportunities to quantify a diversity of biochemical and structural vegetation properties. The processing requirements for such large data streams require reliable retrieval techniques enabling the spatiotemporally explicit quantification of biophysical variables. With the aim of preparing for this new era of Earth observation, this review summarizes the state-of-the-art retrieval methods that have been applied in experimental imaging spectroscopy studies inferring all kinds of vegetation biophysical variables. Identified retrieval methods are categorized into: (1) parametric regression, including vegetation indices, shape indices and spectral transformations; (2) nonparametric regression, including linear and nonlinear machine learning regression algorithms; (3) physically based, including inversion of radiative transfer models (RTMs) using numerical optimization and look-up table approaches; and (4) hybrid regression methods, which combine RTM simulations with machine learning regression methods. For each of these categories, an overview of widely applied methods with application to mapping vegetation properties is given. In view of processing imaging spectroscopy data, a critical aspect involves the challenge of dealing with spectral multicollinearity. The ability to provide robust estimates, retrieval uncertainties and acceptable retrieval processing speed are other important aspects in view of operational processing. Recommendations towards new-generation spectroscopy-based processing chains for operational production of biophysical variables are given

    Methods and Applications of 3D Ground Crop Analysis Using LiDAR Technology: A Survey

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    Light Detection and Ranging (LiDAR) technology is positioning itself as one of the most effective non-destructive methods to collect accurate information on ground crop fields, as the analysis of the three-dimensional models that can be generated with it allows for quickly measuring several key parameters (such as yield estimations, aboveground biomass, vegetation indexes estimation, perform plant phenotyping, and automatic control of agriculture robots or machinery, among others). In this survey, we systematically analyze 53 research papers published between 2005 and 2022 that involve significant use of the LiDAR technology applied to the three-dimensional analysis of ground crops. Different dimensions are identified for classifying the surveyed papers (including application areas, crop species under study, LiDAR scanner technologies, mounting platform technologies, and the use of additional instrumentation and software tools). From our survey, we draw relevant conclusions about the use of LiDAR technologies, such as identifying a hierarchy of different scanning platforms and their frequency of use as well as establishing the trade-off between the economic costs of deploying LiDAR and the agronomically relevant information that effectively can be acquired. We also conclude that none of the approaches under analysis tackles the problem associated with working with multiple species with the same setup and configuration, which shows the need for instrument calibration and algorithmic fine tuning for an effective application of this technology.Fil: Micheletto, Matías Javier. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Centro de Investigaciones y Transferencia Golfo San Jorge. Centro de Investigaciones y Transferencia Golfo San Jorge: Sede Caleta Olivia - Santa Cruz | Universidad Nacional de la Patagonia Austral. Centro de Investigaciones y Transferencia Golfo San Jorge. Centro de Investigaciones y Transferencia Golfo San Jorge: Sede Caleta Olivia - Santa Cruz | Universidad Nacional de la Patagonia "san Juan Bosco". Centro de Investigaciones y Transferencia Golfo San Jorge. Centro de Investigaciones y Transferencia Golfo San Jorge: Sede Caleta Olivia - Santa Cruz; ArgentinaFil: Chesñevar, Carlos Iván. Universidad Nacional del Sur. Departamento de Ciencias e Ingeniería de la Computación; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Instituto de Ciencias e Ingeniería de la Computación. Universidad Nacional del Sur. Departamento de Ciencias e Ingeniería de la Computación. Instituto de Ciencias e Ingeniería de la Computación; ArgentinaFil: Santos, Rodrigo Martin. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Instituto de Ciencias e Ingeniería de la Computación. Universidad Nacional del Sur. Departamento de Ciencias e Ingeniería de la Computación. Instituto de Ciencias e Ingeniería de la Computación; Argentina. Universidad Nacional del Sur. Departamento de Ingeniería Eléctrica y de Computadoras; Argentin

    Modélisation 3D du transfert raidatif pour simuler les images et données de spectroradiomètres et Lidars satellites et aéroportés de couverts végétaux et urbains

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    Les mesures de télédétection (MT) dépendent de l'interaction du rayonnement avec les paysages terrestres et l'atmosphère ainsi que des configurations instrumentales (bande spectrale, résolution spatiale, champ de vue: FOV,...) et expérimentales (structure et propriétés optiques du paysage et atmosphère,...). L'évolution rapide des techniques de télédétection requiert des outils appropriés pour valider leurs principes et améliorer l'emploi des MT. Les modèles de transfert radiatif (RTM) simulent des quantités (fonctions de distribution de la réflectance (BRDF) et température (BTDF), forme d'onde LiDAR, etc.) plus ou moins proches des MT. Ils constituent l'outil de référence pour simuler les MT, pour diverses applications : préparation et validation des systèmes d'observation, inversion de MT,... DART (Discrete Anisotropic Radiative Transfer) est reconnu comme le RTM le plus complet et efficace. J'ai encore nettement amélioré son réalisme via les travaux de modélisation indiqués ci-dessous. 1. Discrétisation de l'espace des directions de propagation des rayons. DART simule la propagation des rayons dans les paysages terrestres et l'atmosphère selon des directions discrètes. Les méthodes classiques définissent mal le centroïde et forme des angles solides de ces directions, si bien que le principe de conservation de l'énergie n'est pas vérifié et que l'obtention de résultats précis exige un grand nombre de directions. Pour résoudre ce problème, j'ai conçu une méthode originale qui crée des directions discrètes de formes définies. 2. Simulation d'images de spectroradiomètre avec FOV fini (caméra, pushbroom,...). Les RTMs sont de type "pixel" ou "image". Un modèle "pixel" calcule une quantité unique (BRDF, BTDF) de toute la scène simulée via sa description globale (indice foliaire, fraction d'ombre,...). Un modèle "image" donne une distribution spatiale de quantités (BRDF,...) par projection orthographique des rayons sur un plan image. Tous les RTMs supposent une acquisition monodirectionnelle (FOV nul), ce qui peut être très imprécis. Pour pouvoir simuler des capteurs à FOV fini (caméra, pushbroom,...), j'ai conçu un modèle original de suivi de rayons convergents avec projection perspective. 3. Simulation de données LiDAR. Beaucoup de RTMs simulent le signal LiDAR de manière rapide mais imprécise (paysage très simplifié, pas de diffusions multiples,...) ou de manière précis mais avec de très grands temps de calcul (e.g., modèles Monte-Carlo: MC). DART emploie une méthode "quasi-MC" originale, à la fois précise et rapide, adaptée à toute configuration instrumentale (altitude de la plateforme, attitude du LiDAR, taille de l'empreinte,...). Les acquisitions multi-impulsions LiDAR (satellite, avion, terrestre) sont simulées pour toute configuration (position du LiDAR, trajectoire de la plateforme,...). Elles sont converties dans un format industriel pour être traitées par des logiciels dédiés. Un post-traitement convertit les formes d'onde LiDAR simulées en données LiDAR de comptage de photons. 4. Bruit solaire et fusion de données LiDAR et d'images de spectroradiomètre. DART peut combiner des simulations de LiDAR multi-impulsions et d'image de spectro-radiomètre (capteur hyperspectral,...). C'est une configuration à 2 sources (soleil, laser LiDAR) et 1 capteur (télescope du LiDAR). Les régions mesurées par le LiDAR, dans le plan image du sol, sont segmentées dans l'image du spectro-radiomètre, elle aussi projetée sur le plan image du sol. Deux applications sont présentées : bruit solaire dans le signal LiDAR, et fusion de données LiDAR et d'images de spectro-radiomètre. Des configurations d'acquisition (trajectoire de plateforme, angle de vue par pixel du spectro-radiomètre et par impulsion LiDAR) peuvent être importées pour encore améliorer le réalisme des MT simulées, De plus, j'ai introduit la parallélisation multi-thread, ce qui accélère beaucoup les calculsRemote Sensing (RS) data depend on radiation interaction in Earth landscapes and atmosphere, and also on instrumental (spectral band, spatial resolution, field of view (FOV),...) and experimental (landscape/atmosphere architecture and optical properties,...) conditions. Fast developments in RS techniques require appropriate tools for validating their working principles and improving RS operational use. Radiative Transfer Models (RTM) simulate quantities (bidirectional reflectance; BRDF, directional brightness temperature: BTDF, LiDAR waveform...) that aim to approximate actual RS data. Hence, they are celebrated tools to simulate RS data for many applications: preparation and validation of RS systems, inversion of RS data... Discrete Anisotropic Radiative Transfer (DART) model is recognized as the most complete and efficient RTM. During my PhD work, I further improved its modeling in terms of accuracy and functionalities through the modeling work mentioned below. 1. Discretizing the space of radiation propagation directions.DART simulates radiation propagation along a finite number of directions in Earth/atmosphere scenes. Classical methods do not define accurately the solid angle centroids and geometric shapes of these directions, which results in non-conservative energy or imprecise modeling if few directions are used. I solved this problem by developing a novel method that creates discrete directions with well-defined shapes. 2. Simulating images of spectroradiometers with finite FOV.Existing RTMs are pixel- or image-level models. Pixel-level models use abstract landscape (scene) description (leaf area index, overall fraction of shadows,...) to calculate quantities (BRDF, BTDF,...) for the whole scene. Image-level models generate scene radiance, BRDF or BTDF images, with orthographic projection of rays that exit the scene onto an image plane. All models neglect the multi-directional acquisition in the sensor finite FOV, which is unrealistic. Hence, I implemented a sensor-level model, called converging tracking and perspective projection (CTPP), to simulate camera and cross-track sensor images, by coupling DART with classical perspective and parallel-perspective projection. 3. Simulating LiDAR data.Many RTMs simulate LiDAR waveform, but results are inaccurate (abstract scene description, account of first-order scattering only...) or require tremendous computation time for obtaining accurate results (e.g., Monte-Carlo (MC) models). With a novel quasi-MC method, DART can provide accurate results with fast processing speed, for any instrumental configuration (platform altitude, LiDAR orientation, footprint size...). It simulates satellite, airborne and terrestrial multi-pulse laser data for realistic configurations (LiDAR position, platform trajectory, scan angle range...). These data can be converted into industrial LiDAR format for being processed by LiDAR processing software. A post-processing method converts LiDAR waveform into photon counting LiDAR data, through modeling single photon detector acquisition. 4. In-flight Fusion of LiDAR and imaging spectroscopy.DART can combine multi-pulse LiDAR and cross-track imaging spectroscopy (hyperspectral sensor...). It is a 2 sources (sun, LiDAR laser) and 1 sensor (LiDAR telescope) system. First, a LiDAR multi-pulse acquisition and a sun-induced spectro-radiometer radiance image are simulated. Then, the LiDAR FOV regions projected onto the ground image plane are segmented in the spectro-radiometer image, which is also projected on the ground image plane. I applied it to simulate solar noise in LiDAR signal, and to the fusion of LiDAR data and spectro-radiometer images. To further improve accuracy when simulating actual LiDAR and spectro-radiometer, DART can also import actual acquisition configuration (platform trajectory, view angle per spectro-radiometer pixel / LiDAR pulse). Moreover, I introduced multi-thread parallelization, which greatly accelerates DART simulation

    Assessing the contribution of understory sun-induced chlorophyll fluorescence through 3-D radiative transfer modelling and field data

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    A major international effort has been made to monitor sun-induced chlorophyll fluorescence (SIF) from space as a proxy for the photosynthetic activity of terrestrial vegetation. However, the effect of spatial heterogeneity on the SIF retrievals from canopy radiance derived from images with medium and low spatial resolution remains uncharacterised. In images from forest and agricultural landscapes, the background comprises a mixture of soil and understory and can generate confounding effects that limit the interpretation of the SIF at the canopy level. This paper aims to improve the understanding of SIF from coarse spatial resolutions in heterogeneous canopies by considering the separated contribution of tree crowns, understory and background components, using a modified version of the FluorFLIGHT radiative transfer model (RTM). The new model is compared with others through the RAMI model intercomparison framework and is validated with airborne data. The airborne campaign includes high-resolution data collected over a tree-grass ecosystem with the HyPlant imaging spectrometer within the FLuorescence EXplorer (FLEX) preparatory missions. Field data measurements were collected from plots with a varying fraction of tree and understory vegetation cover. The relationship between airborne SIF calculated from pure tree crowns and aggregated pixels shows the effect of the understory at different resolutions. For a pixel size smaller than the mean crown size, the impact of the background was low (R2 > 0.99; NRMSE 0.2). This study demonstrates that using a 3D RTM model improves the calculation of SIF significantly (R2 = 0.83, RMSE = 0.03 mW m−2 sr−1 nm−1) when the specific contribution of the soil and understory layers are accounted for, in comparison with the SIF calculated from mixed pixels that considers only one layer as background (R2 = 0.4, RMSE = 0.28 mW m−2 sr−1 nm−1). These results demonstrate the need to account for the contribution of SIF emitted by the understory in the quantification of SIF within tree crowns and within the canopy from aggregated pixels in heterogeneous forest canopies

    Quantitative estimation of vegetation traits and temporal dynamics using 3-D radiative transfer models, high-resolution hyperspectral images and satellite imagery

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    Large-scale monitoring of vegetation dynamics by remote sensing is key to detecting early signs of vegetation decline. Spectral-based indicators of phys-iological plant traits (PTs) have the potential to quantify variations in pho-tosynthetic pigments, chlorophyll fluorescence emission, and structural changes of vegetation as a function of stress. However, the specific response of PTs to disease-induced decline in heterogeneous canopies remains largely unknown, which is critical for the early detection of irreversible damage at different scales. Four specific objectives were defined in this research: i) to assess the feasibility of modelling the incidence and severity of Phytophthora cinnamomi and Xylella fastidiosa based on PTs and biophysical properties of vegetation; ii) to assess non-visual early indicators, iii) to retrieve PT using radiative transfer models (RTM), high-resolution imagery and satellite observations; and iv) to establish the basis for scaling up PTs at different spatial resolutions using RTM for their retrieval in different vegetation co-vers. This thesis integrates different approaches combining field data, air- and space-borne imagery, and physical and empirical models that allow the retrieval of indicators and the evaluation of each component’s contribution to understanding temporal variations of disease-induced symptoms in heter-ogeneous canopies. Furthermore, the effects associated with the understory are introduced, showing not only their impact but also providing a compre-hensive model to account for it. Consequently, a new methodology has been established to detect vegetation health processes and the influence of biotic and abiotic factors, considering different components of the canopy and their impact on the aggregated signal. It is expected that, using the presented methods, existing remote sensors and future developments, the ability to detect and assess vegetation health globally will have a substantial impact not only on socio-economic factors, but also on the preservation of our eco-system as a whole

    Three dimensional estimation of vegetation moisture content using dual-wavelength terrestrial laser scanning

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    PhD ThesisLeaf Equivalent Water Thickness (EWT) is a water status metric widely used in vegetation health monitoring. Optical Remote Sensing (RS) data, spaceborne and airborne, can be used to estimate canopy EWT at landscape level, but cannot provide information about EWT vertical heterogeneity, or estimate EWT predawn. Dual-wavelength Terrestrial Laser Scanning (TLS) can overcome these limitations, as TLS intensity data, following radiometric corrections, can be used to estimate EWT in three dimensions (3D). In this study, a Normalized Difference Index (NDI) of 808 nm wavelength, utilized in the Leica P20 TLS instrument, and 1550 nm wavelength, employed in the Leica P40 and P50 TLS systems, was used to produce 3D EWT estimates at canopy level. Intensity correction models were developed, and NDI was found to be able to minimize the incidence angle and leaf internal structure effects. Multiple data collection campaigns were carried out. An indoors dry-down experiment revealed a strong correlation between NDI and EWT at leaf level. At canopy level, 3D EWT estimates were generated with a relative error of 3 %. The method was transferred to a mixed-species broadleaf forest plot and 3D EWT estimates were generated with relative errors < 7 % across four different species. Next, EWT was estimated in six short-rotation willow plots during leaf senescence with relative errors < 8 %. Furthermore, a broadleaf mixed-species urban tree plot was scanned during and two months after a heatwave, and EWT temporal changes were successfully detected. Relative error in EWT estimates was 6 % across four tree species. The last step in this research was to study the effects of EWT vertical heterogeneity on forest plot reflectance. Two virtual forest plots were reconstructed in the Discrete Anisotropic Radiative Transfer (DART) model. 3D EWT estimates from TLS were utilized in the model and Sentinel-2A bands were simulated. The simulations revealed that the top four to five metres of canopy dominated the plot reflectance. The satellite sensor was not able to detect severe water stress that started in the lower canopy layers. This study showed the potential of using dual-wavelength TLS to provide important insights into the EWT distribution within the canopy, by mapping the EWT at canopy level in 3D. EWT was found to vary vertically within the canopy, with EWT and Leaf Mass per Area (LMA) being highly correlated, suggesting that sun leaves were able to hold more moisture than shade leaves. The EWT vertical profiles varied between species, and trees reacted in different ways during drought conditions, losing moisture from different canopy layers. The proposed method can provide time series of the change in EWT at very high spatial and temporal resolutions, as TLS instruments are active sensors, independent of the solar illumination. It also has the potential to provide EWT estimates at the landscape level, if coupled with automatic tree ii segmentation and leaf-wood separation techniques, and thus filling the gaps in the time series produced from satellite data. In addition, the technique can potentially allow the characterisation of whole-tree leaf water status and total water content, by combining the EWT estimates with Leaf Area Index (LAI) measurements, providing new insights into forest health and tree physiology.Egyptian Ministry of Higher Educatio

    Monitoring the incidence of Xylella fastidiosa infection in olive orchards using ground-based evaluations, airborne imaging spectroscopy and Sentinel-2 time series through 3-D radiative transfer modelling

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    Outbreaks of Xylella fastidiosa (Xf) in Europe generate considerable economic and environmental damage, and this plant pest continues to spread. Detecting and monitoring the spatio-temporal dynamics of the disease symptoms caused by Xf at a large scale is key to curtailing its expansion and mitigating its impacts. Here, we combined 3-D radiative transfer modelling (3D-RTM), which accounts for the seasonal background variations, with passive optical satellite data to assess the spatio-temporal dynamics of Xf infections in olive orchards. We developed a 3D-RTM approach to predict Xf infection incidence in olive orchards, integrating airborne hyperspectral imagery and freely available Sentinel-2 satellite data with radiative transfer modelling and field observations. Sentinel-2A time series data collected over a two-year period were used to assess the temporal trends in Xf-infected olive orchards in the Apulia region of southern Italy. Hyperspectral images spanning the same two-year period were used for validation, along with field surveys; their high resolution also enabled the extraction of soil spectrum variations required by the 3D-RTM to account for canopy background effect. Temporal changes were validated with more than 3000 trees from 16 orchards covering a range of disease severity (DS) and disease incidence (DI) levels. Among the wide range of structural and physiological vegetation indices evaluated from Sentinel-2 imagery, the temporal variation of the Atmospherically Resistant Vegetation Index (ARVI) and Optimized Soil-Adjusted Vegetation Index (OSAVI) showed superior performance for DS and DI estimation (r2VALUES>0.7, p < 0.001). When seasonal understory changes were accounted for using modelling methods, the error of DI prediction was reduced 3-fold. Thus, we conclude that the retrieval of DI through model inversion and Sentinel-2 imagery can form the basis for operational vegetation damage monitoring worldwide. Our study highlight the value of interpreting temporal variations in model retrievals to detect anomalies in vegetation health.Data collection was partially supported by the European Union's Horizon 2020 research and innovation programme through grant agreements POnTE (635646) and XF-ACTORS (727987). A. Hornero was supported by research fellowship DTC GEO 29 “Detection of global photosynthesis and forest health from space” from the Science Doctoral Training Centre (Swansea University, UK). The authors would also like to thank QuantaLab-IAS-CSIC (Spain) for laboratory assistance and the support provided during the airborne campaigns and image processing. B. Landa, C. Camino, M. Montes-Borrego, M. Morelli, M. Saponari and L. Susca are acknowledged for their support during the field campaigns, as well as IPSP-CNR and Dipartimento di Scienze del Suolo (Università di Bari, Italy) as host institutions
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