Hyperspectral Reflectance Measurements Research Articles

Hyperspectral Characterization of Coffee Leaf Miner (Leucoptera coffeella) (Lepidoptera: Lyonetiidae) Infestation Levels: A Detailed Analysis

Brazil is the largest coffee producer in the world. However, it has been a challenge to manage the main pest affecting the plant’s foliar part, the Coffee Leaf Miner (CLM) Leucoptera coffeella (Lepidoptera: Lyonetiidae). To mitigate this, remote sensing has been employed to spectrally characterize various stresses on coffee trees. This study establishes the groundwork for efficient pest detection by investigating the spectral characteristics of CLM infestation at different levels. This research aims to characterize the spectral signature of leaves at different CLM levels of infestation and identify the optimal spectral regions for discriminating these levels. To achieve this, hyperspectral reflectance measurements were made of healthy and infested leaves, and the classes of infested leaves were grouped into minimally, moderately, and severely infested. As the infestation level rises, the 700 nm region becomes increasingly suitable for distinguishing between infestation levels, with the visible region also proving significant, particularly during severe infestations. Reflectance thresholds established in this study provide a foundation for agronomic references related to CLM. These findings lay the essential groundwork for enhancing monitoring and early detection systems and underscore the value of terrestrial hyperspectral data for developing sustainable pest management strategies in coffee crops.

HAMSTER: Hyperspectral Albedo Maps dataset with high Spatial and TEmporal Resolution

Abstract. Surface albedo is an important parameter in radiative-transfer simulations of the Earth's system as it is fundamental for correctly calculating the energy budget of the planet. The Moderate Resolution Imaging Spectroradiometer (MODIS) instruments on NASA's Terra and Aqua satellites continuously monitor daily and yearly changes in reflection at the planetary surface. The MODIS Surface Reflectance Black-Sky Albedo dataset (version 6.1 of MCD43D) provides detailed albedo maps for seven spectral bands in the visible and near-infrared range. These albedo maps allow us to classify different Lambertian surface types and their seasonal and yearly variability and change, albeit only into seven spectral bands. However, a complete set of albedo maps covering the entire wavelength range is required to simulate radiance spectra and correctly retrieve atmospheric and cloud properties from remote sensing observations of the Earth. We use a principal component analysis (PCA) regression algorithm to generate hyperspectral albedo maps of the Earth. By combining different datasets containing laboratory measurements of hyperspectral reflectance for various dry soils, vegetation surfaces, and mixtures of both, we reconstruct albedo maps across the entire wavelength range from 400 to 2500 nm. The PCA method is trained with a 10-year average of MODIS data for each day of the year. We obtain hyperspectral albedo maps with a spatial resolution of 0.05° in latitude and longitude, a spectral resolution of 10 nm, and a temporal resolution of 1 d (day). Using the hyperspectral albedo maps, we estimate the spectral profiles of different land surfaces, such as forests, deserts, cities, and icy surfaces, and study their seasonal variability. These albedo maps will enable us to refine calculations of the Earth's energy budget and its seasonal variability and improve climate simulations.

Deep Learning-Enabled Dynamic Model for Nutrient Status Detection of Aquaponically Grown Plants

Developing models to assess the nutrient status of plants at various growth stages is challenging due to the dynamic nature of plant development. Hence, this study encoded spatiotemporal information of plants within a single time-series model to precisely assess the nutrient status of aquaponically cultivated lettuce. In particular, the long short-term memory (LSTM) and deep autoencoder (DAE) approaches were combined to classify aquaponically grown lettuce plants according to their nutrient status. The proposed approach was validated using extensive sequential hyperspectral reflectance measurements acquired from lettuce leaves at different growth stages across the growing season. A DAE was used to extract distinct features from each sequential spectral dataset time step. These features were used as input to an LSTM model to classify lettuce grown across a gradient of nutrient levels. The results demonstrated that the LSTM outperformed the convolutional neural network (CNN) and multi-class support vector machine (MCSVM) approaches. Also, features selected by the DAE showed better performance compared to features extracted using both genetic algorithms (GAs) and sequential forward selection (SFS). The hybridization of deep autoencoder and long short-term memory (DAE-LSTM) obtained the highest overall classification accuracy of 94%. The suggested methodology presents a pathway to automating the process of nutrient status diagnosis throughout the entire plant life cycle, with the LSTM technique poised to assume a pivotal role in forthcoming time-series analyses for precision agriculture.

WATERHYPERNET: a prototype network of automated in situ measurements of hyperspectral water reflectance for satellite validation and water quality monitoring

This paper describes a prototype network of automated in situ measurements of hyperspectral water reflectance suitable for satellite validation and water quality monitoring. Radiometric validation of satellite-derived water reflectance is essential to ensure that only reliable data, e.g., for estimating water quality parameters such as chlorophyll a concentration, reach end-users. Analysis of the differences between satellite and in situ water reflectance measurements, particularly unmasked outliers, can provide recommendations on where satellite data processing algorithms need to be improved. In a massively multi-mission context, including Newspace constellations, hyperspectral missions and missions with broad spectral bands not designed for “water colour”, the advantage of hyperspectral over multispectral in situ measurements is clear. Two hyperspectral measurement systems, PANTHYR (based on the mature TRIOS/RAMSES radiometer) and HYPSTAR® (a newly designed radiometer), have been integrated here in the WATERHYPERNET network with SI-traceable calibration and characterisation. The systems have common data acquisition protocol, data processing and quality control. The choice of validation site and viewing geometry and installation considerations are described in detail. Three demonstration cases are described: 1. PANTHYR data from two sites are used to validate Sentinel-2/MSI (A&B); 2. HYPSTAR® data at six sites are used to validate Sentinel-3/OLCI (A&B); 3. PANTHYR and HYPSTAR® data in Belgian North Sea waters are used to monitor phytoplankton parameters, including Phaeocystis globosa, over two 5 month periods. Conclusion are drawn regarding the quality of Sentinel-2/MSI and Sentinel-3/OLCI data, including indications where improvements could be made. For example, a positive bias (mean difference) is found for ACOLITE_DSF processing of Sentinel-2 in clear waters (Acqua Alta) and clues are provided on how to improve this processing. The utility of these in situ measurements, even without accompanying hyperspectral satellite data, is demonstrated for phytoplankton monitoring. The future evolution of the WATERHYPERNET network is outlined, including geographical expansion, improvements to hardware reliability and to the measurement method (including uncertainty estimation) and plans for daily distribution of near real-time data.

Hyperspectral Imaging Predicts Differences in Carbon and Nitrogen Status Among Representative Biocrust Functional Groups of the Colorado Plateau

AbstractBiological soil crusts (biocrusts) are widespread soil photosynthetic communities covering about 12% of Earth's land surface, and play crucial roles in terrestrial carbon (C) and nitrogen (N) cycles, yet scalable quantifications of biocrusts and their biogeochemical contributions are notably lacking. While remote sensing has enormous potential to assess, scale, and contextualize biocrusts and their functions, the applicability of hyperspectral data in predicting C‐ and N‐related biocrust traits remains largely unexplored. We address this issue by evaluating the potential of in situ hyperspectral data to predict C and N across a range of biocrust species and different environmental conditions. We found that in situ hyperspectral reflectance measurements can be used to predict biocrust tissue C/N ratios and N concentrations with relatively high accuracy but to a lesser extent for potential biocrust N2 fixation rates. Critical wavelength domains included the visible region of the spectrum from roughly 490–600 nm, which most effectively captured variations in biocrust tissue C, and the shortwave infrared region from 1,150 to 1,350 nm and 1,550–1,650 nm, which most effectively captured biocrust tissue N and N2 fixation potential. Finally, we provide evidence that multi‐ and hyperspectral missions with targeted band placement, such as the proposed 26‐band Landsat Next, could be effective in predicting biocrust traits. This work provides a critical step in understanding how to apply data from new and upcoming satellite missions to the monitoring of biocrusts.

Supercontinuum laser-based gonio-scatterometer for in and out-of-plane spectral BRDF measurements.

The hyperspectral component of bidirectional reflectance measurements, namely from several hundred wavelengths upwards, is attracting growing interest for numerous applications in both optics and computer graphics. In this paper, we present a motorized hyperspectral bidirectional reflectance measurement bench that performs in-plane and out-of-plane measurements for isotropic materials using a supercontinuum laser covering the visible and near infrared range, with a sub-nanometer spectral accuracy. We describe the complete data processing chain, including a method for assessing the alignment error of the measurement bench. From these measurements, we verify the principles of non-negativity, energy conservation and Helmholtz reciprocity. We introduce criteria also to evaluate the validity of the Lambertian hypothesis for the bidirectional reflectance and its deviation from reciprocity, obtained from the measurements directly. We show the need for spectral bidirectional reflectance measurements for certain materials, rejecting the separable function approximation.

Estimation of soil moisture and organic matter content in saline alkali farmland by using CARS algorithm combined with covariates

Rapid acquisition of the data of soil moisture content (SMC) and soil organic matter (SOM) content is crucial for the improvement and utilization of saline alkali farmland soil. Based on field measurements of hyperspectral reflectance and soil properties of farmland soil in the Hetao Plain, we used a competitive adaptive reweighted sampling algorithm (CARS) to screen sensitive bands after transforming the original spectral reflectance (Ref) into a standard normal variable (SNV). Strategies Ⅰ, Ⅱ, and Ⅲ were used to model the input variables of Ref, Ref SNV, Ref-SNV+ soil covariate (SC), and digital elevation model (DEM). We constructed SMC and SOM estimation models based on random forest (RF) and light gradient boosting machine (LightGBM), and then verified and compared the accuracy of the models. The results showed that after CARS screening, the sensitive bands of SMC and SOM were compressed to below 3.3% of the entire band, which effectively optimized band selection and reduced redundant spectral information. Compared with the LightGBM model, the RF model had higher accuracy in SMC and SOM estimation, and the input variable strategy Ⅲ was better than Ⅱ and Ⅰ. The introduction of auxiliary variables effectively improved the estimation ability of the model. Based on comprehensive analysis, the coefficient of determination (Rp2), root mean square error (RMSE), and relative analysis error (RPD) of the SMC estimation model validation based on strategy Ⅲ-RF were 0.63, 3.16, and 2.01, respectively. The SOM estimation models based on strategy Ⅲ-RF had Rp2, RMSE, and RPD of 0.93, 1.15, and 3.52, respectively. The strategy Ⅲ-RF model was an effective method for estimating SMC and SOM. Our results could provide a new method for the rapid estimation of soil moisture and organic matter content in saline alkali farmland.

Mapping Leaf Area Index at Various Rice Growth Stages in Southern India Using Airborne Hyperspectral Remote Sensing

Globally, rice is one of the most important staple food crops. The most significant metric for evaluating the rice growth and productivity is the Leaf Area Index (LAI), which can be effectively monitored using remote sensing data. Hyperspectral remote sensing provides contiguous bands at narrow wavelengths for mapping LAI at various rice phenological stages, and it is functionally related to canopy spectral reflectance. Hyperspectral signatures for different phases of rice crop growth was recorded using Airborne Visible Near-Infrared Imaging Spectrometer-Next Generation (AVIRIS-NG) along with corresponding ground based observations. Ground-based hyperspectral canopy spectral reflectance measurements were recorded with FieldSpec 3 Hi-Res spectroradiometer (ASD Inc., Forsyth County, GA, USA; spectral range: 350–2500 nm) and LAI data from 132 farmer’s fields in Southern India. Among 29 hyperspectral vegetation indices tested, 8 were found promising for mapping rice LAI at various phenological stages. Among all the growth stages, the elongation stage was the most accurately estimated using vegetation indices that exhibited a significant correlation with the airborne hyperspectral reflectance. The validation of hyperspectral vegetation indices revealed that the best fit model for estimating rice LAI was mND705 (red-edge, blue, and NIR bands) at seedling and elongation, SAVI (red and NIR bands) at tillering and WDRVI (red and NIR bands) at booting stage.

High-Throughput Analysis of Leaf Chlorophyll Content in Aquaponically Grown Lettuce Using Hyperspectral Reflectance and RGB Images

Chlorophyll content reflects plants’ photosynthetic capacity, growth stage, and nitrogen status and is, therefore, of significant importance in precision agriculture. This study aims to develop a spectral and color vegetation indices-based model to estimate the chlorophyll content in aquaponically grown lettuce. A completely open-source automated machine learning (AutoML) framework (EvalML) was employed to develop the prediction models. The performance of AutoML along with four other standard machine learning models (back-propagation neural network (BPNN), partial least squares regression (PLSR), random forest (RF), and support vector machine (SVM) was compared. The most sensitive spectral (SVIs) and color vegetation indices (CVIs) for chlorophyll content were extracted and evaluated as reliable estimators of chlorophyll content. Using an ASD FieldSpec 4 Hi-Res spectroradiometer and a portable red, green, and blue (RGB) camera, 3600 hyperspectral reflectance measurements and 800 RGB images were acquired from lettuce grown across a gradient of nutrient levels. Ground measurements of leaf chlorophyll were acquired using an SPAD-502 m calibrated via laboratory chemical analyses. The results revealed a strong relationship between chlorophyll content and SPAD-502 readings, with an R2 of 0.95 and a correlation coefficient (r) of 0.975. The developed AutoML models outperformed all traditional models, yielding the highest values of the coefficient of determination in prediction (Rp2) for all vegetation indices (VIs). The combination of SVIs and CVIs achieved the best prediction accuracy with the highest Rp2 values ranging from 0.89 to 0.98, respectively. This study demonstrated the feasibility of spectral and color vegetation indices as estimators of chlorophyll content. Furthermore, the developed AutoML models can be integrated into embedded devices to control nutrient cycles in aquaponics systems.

Utilizing Hyperspectral Reflectance and Machine Learning Algorithms for Non-Destructive Estimation of Chlorophyll Content in Citrus Leaves

To address the demands of precision agriculture and the measurement of plant photosynthetic response and nitrogen status, it is necessary to employ advanced methods for estimating chlorophyll content quickly and non-destructively at a large scale. Therefore, we explored the utilization of both linear regression and machine learning methodology to improve the prediction of leaf chlorophyll content (LCC) in citrus trees through the analysis of hyperspectral reflectance data in a field experiment. And the relationship between phenology and LCC estimation was also tested in this study. The LCC of citrus tree leaves at five growth seasons (May, June, August, October, and December) were measured alongside measurements of leaf hyperspectral reflectance. The measured LCC data and spectral parameters were used for evaluating LCC using univariate linear regression (ULR), multivariate linear regression (MLR), random forest regression (RFR), K-nearest neighbor regression (KNNR), and support vector regression (SVR). The results revealed the following: the MLR and machine learning models (RFR, KNNR, SVR), in both October and December, performed well in LCC estimation with a coefficient of determination (R2) greater than 0.70. In August, the ULR model performed the best, achieving an R2 of 0.69 and root mean square error (RMSE) of 8.92. However, the RFR model demonstrated the highest predictive power for estimating LCC in May, June, October, and December. Furthermore, the prediction accuracy was the best with the RFR model with parameters VOG2 and Carte4 in October, achieving an R2 of 0.83 and RMSE of 6.67. Our findings revealed that using just a few spectral parameters can efficiently estimate LCC in citrus trees, showing substantial promise for implementation in large-scale orchards.

Early detection of Solanum lycopersicum diseases from temporally-aggregated hyperspectral measurements using machine learning

Some plant diseases can significantly reduce harvest, but their early detection in cultivation may prevent those consequential losses. Conventional methods of diagnosing plant diseases are based on visual observation of crops, but the symptoms of various diseases may be similar. It increases the difficulty of this task even for an experienced farmer and requires detailed examination based on invasive methods conducted in laboratory settings by qualified personnel. Therefore, modern agronomy requires the development of non-destructive crop diagnosis methods to accelerate the process of detecting plant infections with various pathogens. This research pathway is followed in this paper, and an approach for classifying selected Solanum lycopersicum diseases (anthracnose, bacterial speck, early blight, late blight and septoria leaf) from hyperspectral data captured on consecutive days post inoculation (DPI) is presented. The objective of that approach was to develop a technique for detecting infection in less than seven days after inoculation. The dataset used in this study included hyperspectral measurements of plants of two cultivars of S. lycopersicum: Benito and Polfast, which were infected with five different pathogens. Hyperspectral reflectance measurements were performed using a high-spectral-resolution field spectroradiometer (350–2500 nm range) and they were acquired for 63 days after inoculation, with particular emphasis put on the first 17 day-by-day measurements. Due to a significant data imbalance and low representation of measurements on some days, the collective datasets were elaborated by combining measurements from several days. The experimental results showed that machine learning techniques can offer accurate classification, and they indicated the practical utility of our approaches.

Use of Hyperspectral Reflectance and Water Quality Indices to Assess Groundwater Quality for Drinking in Arid Regions, Saudi Arabia

Combining hydrogeochemical characterization and a hyperspectral reflectance measurement can provide knowledge for groundwater security under different conditions. In this study, comprehensive examinations of 173 groundwater samples were carried out in Makkah Al-Mukarramah Province, Saudi Arabia. Physicochemical parameters, water quality indices (WQIs), and spectral reflectance indices (SRIs) were combined to investigate water quality and controlling factors using multivariate modeling techniques, such as partial least-square regression (PLSR) and principal component regression (PCR). To measure water quality status, the drinking water quality index (DWQI), total dissolved solids (TDS), heavy metal index (HPI), contamination degree (Cd), and pollution index (PI) were calculated. Standard analytical methods were used to assess nineteen physicochemical parameters. The typical values of ions and metals were as follows: Na2+ > Ca2+ > Mg2+ > K+, Cl− > SO42− > HCO3− > NO3− > CO32−; and Cu > Fe > Al > Zn > Mn > Ni, respectively. The hydrogeochemical characteristics of the examined groundwater samples revealed that Ca-HCO3, Na-Cl, mixed Ca-Mg-Cl-SO4, and Na-Ca-HCO3 were the main mechanisms governing groundwater chemistry and quality under the load of seawater intrusion, weathering, and water-rock interaction. According to the WQIs results, the DWQI values revealed that 2.5% of groundwater samples were categorized as excellent, 18.0% as good, 28.0% as poor, 21.5% as extremely poor, and 30.0% as unfit for drinking. The HPI and Cd values revealed that all groundwater samples had a low degree of contamination and better quality. Furthermore, the PI values showed that the groundwater resources were not affected by metals but were slightly affected by Mn in Wadi Fatimah due to rock–water interaction. Linear regression models demonstrated the significant relationships for the majority of SRIs paired with DWQI (R varied from −0.40 to 0. 75), and with TDS (R varied from 0.46 to 0.74) for the studied wadies. In general, the PLSR and PCR models provide better estimations for DWQI and TDS than the individual SRI. In conclusion, the grouping of WQIs, SRIs, PLSR, PCR, and GIS tools provides a clear image of groundwater suitability for drinking and its controlling elements.

High-throughput screening of soybean di-nitrogen fixation and seed nitrogen content using spectral sensing

Symbiotic di-nitrogen fixation of grain legumes has a substantial impact on crop performance, harvest product quality, and nitrogen (N) balance of crop rotations, particularly under organic management regimes. In soybean breeding, selection for increased nitrogen fixation is desirable for improving seed protein content and N balance of cropping systems. However, the lack of high-throughput screening methods for direct measurement of N2 fixation rates prohibits practical breeding efforts. Therefore, hyperspectral canopy reflectance measurement as a field-based phenotyping method was evaluated in three environments for indirect estimation of N fixation and uptake of soil nitrogen in a set of early maturity soybean genotypes exhibiting a wide range in seed protein content. Reflectance spectra were collected in repeated measurements during flowering and early seed filling stages. Subsequently, various spectral reflectance indices (SRIs) were calculated for characterizing nitrogen accumulation of individual genotypes. Moreover, prediction models for seed protein content as an end-of-season target trait were developed utilizing full spectral information in partial-least-square regression (PLSR) models. A number of N-related SRIs calculated from spectral reflectance data recorded at the beginning of the seed filling stage were significantly correlated to seed protein content. The best prediction of seed protein content, however, was achieved in PLSR models (validation R2 = 0.805 across all three environments). Environments lower in initial soil mineral N content appeared as more favorable selection sites in terms of prediction accuracy, because N fixation is not masked by soil N uptake in such environments. Hyperspectral reflectance data proved to be a valuable method for determining genetic variation in crop N accumulation, which might be implemented in high-throughput screening protocols for N fixation in plant breeding programs.

Top-of-atmosphere hyper and multispectral signatures of submerged plastic litter with changing water clarity and depth.

The exploitation of satellite remote sensing is expected to be a critical asset in monitoring floating and submerged plastic litter in all aquatic environments. However, robust retrieval algorithms still havel to be developed based on a full understanding of light interaction with plastic litter and the other optically active constituents of the atmosphere-water system. To this end, we performed laboratory-based hyperspectral reflectance measurements of submerged macroplastics under varying water clarity conditions (clear - 0 mg/L, moderate - 75 mg/L, very turbid - 321.3 mg/L) and submersion depths. This comprehensive optical dataset was used (i) to relate the plastic-related signal to submersion depth and turbidity parameters, and (ii) to investigate the top-of-atmosphere signal through full radiative transfer calculations. Simulated TOA radiation was used to explore the nominal pixel and spectral requirements based on WorldView-3, Sentinel-2, and Sentinel-3 missions with very high to moderate geo-spatial resolutions. Results showed that plastics remained detectable when submerged in the top ∼1 m of the water column regardless of water clarity conditions. At TOA, uncertainties attached to atmospheric correction were shown to be reasonable and acceptable for plastic detection purposes in the infrared part of the spectrum (> 700 nm). The impact of aerosols on the TOA signal was found to be complex as (i) over large plastic patches. The aerosols produced little impact on satellite observations mostly due to adjacency effects and (ii) optical signature from isolated/small extent plastic patches was critically altered suggesting the atmospheric transmittance should be accurately corrected for in plastic detection algorithms. The sensitivity analyses also revealed that the narrow band widths of Sentinel-3 did not improve detection performance compared to the WorldView-3 coarser band widths. It is proposed that high spatial resolution wavebands such as the pan-chromatic could be advantageously explored for submerged plastic monitoring applications.

The Optical Response of a Mediterranean Shrubland to Climate Change: Hyperspectral Reflectance Measurements during Spring.

Remote sensing techniques in terms of monitoring plants’ responses to environmental constraints have gained much attention during recent decades. Among these constraints, climate change appears to be one of the major challenges in the Mediterranean region. In this study, the main goal was to determine how field spectrometry could improve remote sensing study of a Mediterranean shrubland submitted to climate aridification. We provided the spectral signature of three common plants of the Mediterranean garrigue: Cistus albidus, Quercus coccifera, and Rosmarinus officinalis. The pattern of these spectra changed depending on the presence of a neighboring plant species and water availability. Indeed, the normalized water absorption reflectance (R975/R900) tended to decrease for each species in trispecific associations (11–26%). This clearly indicates that multispecific plant communities will better resist climate aridification compared to monospecific stands. While Q. coccifera seemed to be more sensible to competition for water resources, C. albidus exhibited a facilitation effect on R. officinalis in trispecific assemblage. Among the 17 vegetation indices tested, we found that the pigment pheophytinization index (NPQI) was a relevant parameter to characterize plant–plant coexistence. This work also showed that some vegetation indices known as indicators of water and pigment contents could also discriminate plant associations, namely RGR (Red Green Ratio), WI (Water Index), Red Edge Model, NDWI1240 (Normalized Difference Water Index), and PRI (Photochemical Reflectance Index). The latter was shown to be linearly and negatively correlated to the ratio of R975/R900, an indicator of water status.

Wheat physiology predictor: predicting physiological traits in wheat from hyperspectral reflectance measurements using deep learning

BackgroundThe need for rapid in-field measurement of key traits contributing to yield over many thousands of genotypes is a major roadblock in crop breeding. Recently, leaf hyperspectral reflectance data has been used to train machine learning models using partial least squares regression (PLSR) to rapidly predict genetic variation in photosynthetic and leaf traits across wheat populations, among other species. However, the application of published PLSR spectral models is limited by a fixed spectral wavelength range as input and the requirement of separate custom-built models for each trait and wavelength range. In addition, the use of reflectance spectra from the short-wave infrared region requires expensive multiple detector spectrometers. The ability to train a model that can accommodate input from different spectral ranges would potentially make such models extensible to more affordable sensors. Here we compare the accuracy of prediction of PLSR with various deep learning approaches and an ensemble model, each trained and tested using previously published data sets.ResultsWe demonstrate that the accuracy of PLSR to predict photosynthetic and related leaf traits in wheat can be improved with deep learning-based and ensemble models without overfitting. Additionally, these models can be flexibly applied across spectral ranges without significantly compromising accuracy.ConclusionThe method reported provides an improved prediction of wheat leaf and photosynthetic traits from leaf hyperspectral reflectance and do not require a full range, high cost leaf spectrometer. We provide a web service for deploying these algorithms to predict physiological traits in wheat from a variety of spectral data sets, with important implications for wheat yield prediction and crop breeding.

Hyperspectral reflectance measurements from UAS under intermittent clouds: Correcting irradiance measurements for sensor tilt

One great advantage of optical hyperspectral remote sensing from unmanned aerial systems (UAS) compared to satellite missions is the possibility to fly and collect data below clouds. The most typical scenario is flying below intermittent clouds and under turbulent conditions, which causes tilting of the platform. This study aims to advance hyperspectral imaging from UAS in most weather conditions by addressing two challenges: (i) the radiometric and spectral calibrations of miniaturized hyperspectral sensors; and (ii) tilting effects on measured downwelling irradiance. We developed a novel method to correct the downwelling irradiance data for tilting effects. It uses a hybrid approach of minimizing measured irradiance variations for constant irradiance periods and spectral unmixing, to calculate the spectral diffuse irradiance fraction for all irradiance measurements within a flight. It only requires the platform's attitude data and a standard incoming light sensor. We demonstrated the method at the Palo Verde National Park wetlands in Costa Rica, a highly biodiverse area. Our results showed that the downwelling irradiance correction method reduced systematic shifts caused by a change in flight direction of the UAS, by 87% and achieving a deviation of 2.78% relative to a on ground reference in terms of broadband irradiance. High frequency (< 3 s) irradiance variations caused by high-frequency tilting movements of the UAS were reduced by up to 71%. Our complete spectral and radiometric calibration and irradiance correction can significantly remove typical striped illumination artifacts in the surface reflectance-factor map product. The possibility of collecting precise hyperspectral reflectance-factor data from UAS under varying cloud cover makes it more operational for environmental monitoring or precision agriculture applications, being an important step in advancing hyperspectral imaging from UAS.

Improving Soil Moisture Assessment of Turfgrass Systems Utilizing Field Radiometry

The need for water conservation continues to increase as global freshwater resources dwindle. Turfgrass mangers are adapting to these concerns by implementing new tools to reduce water consumption. Time-domain reflectometer (TDR) soil moisture sensors can decrease water usage when scheduling irrigation, but nonuniformity across unsampled locations creates irrigation inefficiencies. Remote sensing data have been used to estimate soil moisture stress in turfgrass systems through the normalized difference vegetation index (NDVI). However, numerous stressors other than moisture constraints impact NDVI values. The water band index (WBI) is an alternative index that uses narrowband, near-infrared light reflectance to estimate moisture limitations within the plant canopy. The green-to-red ratio index (GRI) is a vegetation index that has been proposed as a cheaper alternative to WBI as it can be measured using digital values of visible light instead of relying on more costly hyperspectral reflectance measurements. A replicated 2 × 3 factorial experimental design was used to repeatedly measure turf canopy reflectance and soil moisture over time as soils dried. Pots of ‘007’ creeping bentgrass (CBG) and ‘Latitude 36’ hybrid bermudagrass (HBG) were grown on three soil textures: United States Golf Association (USGA) 90:10 sand, loam, and clay. Reflectance data were collected hourly between 07:00 and 19:00 using a hyperspectral radiometer and volumetric water content (VWC) data were collected continuously using an embedded soil moisture sensor from soil saturation until complete turf necrosis by drought stress. The WBI had the strongest relationship to VWC (r = 0.62) compared to GRI (r = 0.56) and NDVI (r = 0.47). The WBI and GRI identified significant moisture stress approximately 28 h earlier than NDVI (p = 0.0010). Those metrics also predicted moisture stress prior to fifty percent visual estimation of wilt (p = 0.0317), with lead times of 12 h (WBI) and 9 h (GRI). By contrast, NDVI provided 2 h of prediction time. Nonlinear regression analysis showed that WBI and GRI can be useful for predicting moisture stress of CBG and HBG grown on three different soil textures in a controlled environment.

Evaluating the Precision and Accuracy of Proximal Soil vis–NIR Sensors for Estimating Soil Organic Matter and Texture

Measuring soil texture and soil organic matter (SOM) is essential given the way they affect the availability of crop nutrients and water during the growing season. Among the different proximal soil sensing (PSS) technologies, diffuse reflectance spectroscopy (DRS) has been deployed to conduct rapid soil measurements in situ. This technique is indirect and, therefore, requires site- and data-specific calibration. The quality of soil spectra is affected by the level of soil preparation and can be accessed through the repeatability (precision) and predictability (accuracy) of unbiased measurements and their combinations. The aim of this research was twofold: First, to develop a novel method to improve data processing, focusing on the reproducibility of individual soil reflectance spectral elements of the visible and near-infrared (vis–NIR) kind, obtained using a commercial portable soil profiling tool, and their direct link with a selected set of soil attributes. Second, to assess both the precision and accuracy of the vis–NIR hyperspectral soil reflectance measurements and their derivatives, while predicting the percentages of sand, clay and SOM content, in situ as well as in laboratory conditions. Nineteen locations in three agricultural fields were identified to represent an extensive range of soils, varying from sand to clay loam. All measurements were repeated three times and a ratio spread over error (RSE) was used as the main indicator of the ability of each spectral parameter to distinguish among field locations with different soil attributes. Both simple linear regression (SLR) and partial least squares regression (PLSR) models were used to define the predictability of % SOM, % sand, and % clay. The results indicated that when using a SLR, the standard error of prediction (SEP) for sand was about 10–12%, with no significant difference between in situ and ex situ measurements. The percentage of clay, on the other hand, had 3–4% SEP and 1–2% measurement precision (MP), indicating both the reproducibility of the spectra and the ability of a SLR to accurately predict clay. The SEP for SOM was only a quarter lower than the standard deviation of laboratory measurements, indicating that SLR is not an appropriate model for this soil property for the given set of soils. In addition, the MPs of around 2–4% indicated relatively strong spectra reproducibility, which indicated the need for more expanded models. This was apparent since the SEP of PLSR was always 2–3 times smaller than that of SLR. However, the relatively small number of test locations limited the ability to develop widely applicable calibration models. The most important finding in this study is that the majority of vis–NIR spectral measurements were sufficiently reproducible to be considered for distinguishing among diverse soil samples, while certain parts of the spectra indicate the capability to achieve this at α = 0.05. Therefore, the innovative methodology of evaluating both the precision and accuracy of DRS measurements will help future developers evaluate the robustness and applicability of any PSS instrument.

Evaluating the Performance of Hyperspectral Leaf Reflectance to Detect Water Stress and Estimation of Photosynthetic Capacities

Advanced techniques capable of early, rapid, and nondestructive detection of the impacts of drought on fruit tree and the measurement of the underlying photosynthetic traits on a large scale are necessary to meet the challenges of precision farming and full prediction of yield increases. We tested the application of hyperspectral reflectance as a high-throughput phenotyping approach for early identification of water stress and rapid assessment of leaf photosynthetic traits in citrus trees by conducting a greenhouse experiment. To this end, photosynthetic CO2 assimilation rate (Pn), stomatal conductance (Cond) and transpiration rate (Trmmol) were measured with gas-exchange approaches alongside measurements of leaf hyperspectral reflectance from citrus grown across a gradient of soil drought levels six times, during 20 days of stress induction and 13 days of rewatering. Water stress caused Pn, Cond, and Trmmol rapid and continuous decline throughout the entire drought period. The upper layer was more sensitive to drought than middle and lower layers. Water stress could also bring continuous and dynamic changes of the mean spectral reflectance and absorptance over time. After trees were rewatered, these differences were not obvious. The original reflectance spectra of the four water stresses were surprisingly of low diversity and could not track drought responses, whereas specific hyperspectral spectral vegetation indices (SVIs) and absorption features or wavelength position variables presented great potential. The following machine-learning algorithms: random forest (RF), support vector machine (SVM), gradient boost (GDboost), and adaptive boosting (Adaboost) were used to develop a measure of photosynthesis from leaf reflectance spectra. The performance of four machine-learning algorithms were assessed, and RF algorithm yielded the highest predictive power for predicting photosynthetic parameters (R2 was 0.92, 0.89, and 0.88 for Pn, Cond, and Trmmol, respectively). Our results indicated that leaf hyperspectral reflectance is a reliable and stable method for monitoring water stress and yield increase, with great potential to be applied in large-scale orchards.