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We evaluated the use of the Green-Red Vegetation Index (GRVI) as a phenological indicator based on multiyear stand-level observations of spectral reflectance and phenology at several representative ecosystems in Japan. The results showed the relationships between GRVI values and the seasonal change of vegetation and ground surface with high temporal resolution. We found that GRVI has the following advantages as a phenological indicator: (1) “GRVI = 0” can be a site-independent single threshold fordetection of the early phase of leaf green-up and the middle phase of autumn coloring, and (2) GRVI can show a distinct response to subtle disturbance and the difference of ecosystem types.

Monitoring the plant’s health and early detection of disease are essential to facilitate effective management, decrease disease spread, and minimize yield loss. Spectroscopic techniques in remote sensing offer less laborious methods and high spatiotemporal scale to monitor diseases in crops. Spectral measurements during the development of disease infection may reveal differences among diseases and determine the stage it can be effectively detected. In this study, spectral analysis was performed over the visible and near-infrared (400–850 nm) portions of the spectrum to detect and differentiate three major rice diseases in the Philippines, namely tungro, BLB, and blast disease. Reflectance of infected rice leaves was recorded repeatedly from inoculation to the late stage of each disease. Results show that spectral reflectance is characteristically affected by each disease, resulting in different spectral, signature sensitivity, and first-order derivatives. Red and red-edge wavelength ranges are the most sensitive to the three diseases. Near-infrared wavelengths decreased as tungro and blast diseases progressed. In addition, the spectral reflectance was resampled to common reflectance sensitivity bands of optical sensors and used in the cluster analysis. It showed that BLB and blast can be detected in the early disease stage on the IRRI Standard Evaluation System (SES) scale of 1 and 3, respectively. Alternatively, tungro was detected in its later stage, with an 11–30% height reduction and no distinct yellow to yellow-orange discoloration (5 SES scale). Three regression techniques, Partial Least Square, Random Forest, and Support Vector Regression were performed separately on each disease to develop models predicting its severity. The validation results of the PLSR and SVR models in tungro and blast show accuracy levels that are promising to be used in estimating the severity of the disease in leaves while RFR shows the best results for BLB. Early disease detection and regression models from spectral measurements and analysis for disease severity estimation can help in disease monitoring and proper disease management implementation.

Accurate estimation of the canopy chlorophyll content (CCC) plays a key role in quantitative remote sensing. Maize (Zea mays L.) is a high-stalk crop with a large leaf area and deep canopy. It has a non-uniform vertical distribution of the leaf chlorophyll content (LCC), which limits remote sensing of CCC. Therefore, it is crucial to understand the vertical heterogeneity of LCC and leaf reflectance spectra to improve the accuracy of CCC monitoring. In this study, CCC, LCC, and leaf spectral reflectance were measured during two consecutive field growing seasons under five nitrogen treatments. The vertical LCC profile showed an asymmetric ‘bell-shaped’ curve structure and was affected by nitrogen application. The leaf reflectance also varied greatly between spatio–temporal conditions, which could indicate the influence of vertical heterogeneity. In the early growth stage, the spectral differences between leaf positions were mainly concentrated in the red-edge (RE) and near-infrared (NIR) regions, whereas differences were concentrated in the visible region during the mid-late filling stage. LCC had a strong linear correlation with vegetation indices (VIs), such as the modified red-edge ratio (mRER, R2 = 0.87), but the VI–chlorophyll models showed significant inversion errors throughout the growth season, especially at the early vegetative growth stage and the late filling stage (rRMSE values ranged from 36% to 87.4%). The vertical distribution of LCC had a strong correlation with the total chlorophyll in canopy, and sensitive leaf positions were identified with a multiple stepwise regression (MSR) model. The LCC of leaf positions L6 in the vegetative stage (R2-adj = 0.9) and L11 + L14 in the reproductive stage (R2-adj = 0.93) could be used to evaluate the canopy chlorophyll status (L12 represents the ear leaf). With a strong relationship between leaf spectral reflectance and LCC, CCC can be estimated directly by leaf spectral reflectance (mRER, rRMSE = 8.97%). Therefore, the spatio–temporal variations of LCC and leaf spectral reflectance were analyzed, and a higher accuracy CCC estimation approach that can avoid the effects of the leaf area was proposed.

Multispectral photometric stereo (MPS) aims at recovering the surface normal of a scene measured under multiple light sources with different wavelengths. While it opens up a capability of a single-shot measurement of surface normal, the problem has been known ill-posed. To make the problem well-posed, existing MPS methods rely on restrictive assumptions, such as shape prior, surfaces having a monochromatic with uniform albedo. This paper alleviates these restrictive assumptions in existing methods. We show that the problem becomes well-posed for surfaces with uniform chromaticity but spatially-varying albedos based on our new formulation. Specifically, if at least three (or two) scene points share the same chromaticity, the proposed method uniquely recovers their surface normals with the illumination of no less than four (or five) spectral lights in a closed-form. In addition, we show that a more general setting of spatially-varying both chromaticities and albedos can become well-posed if the light spectra and camera spectral sensitivity are calibrated. For this general setting, we derive a unique and closed-form solution for MPS using the linear bases extracted from a spectral reflectance database. Experiments on both synthetic and real captured data with spatially-varying reflectance demonstrate the effectiveness of our method and show the potential applicability for multispectral heritage preservation.

Combating the imminent environmental problems associated with plastic litter requires a synergy of monitoring strategies, clean-up efforts, policymaking and interdisciplinary scientific research. Lately, remote sensing technologies have been evolving into a complementary monitoring strategy that might have future applications in the operational detection and tracking of plastic litter at repeated intervals covering wide geospatial areas. We therefore present a dataset of Lambertian-equivalent spectral reflectance measurements from the ultraviolet (UV, 350 nm) to shortwave infrared (SWIR, 2500 nm) of synthetic hydrocarbons (plastics). Spectral reflectance of wet and dry marine-harvested, washed-ashore, and virgin plastics was measured outdoors with a hyperspectral spectroradiometer. Samples were harvested from the major accumulation zones in the Atlantic and Pacific oceans, suggesting a near representation of plastic litter in global oceans. We determined a representative bulk average spectral reflectance for the dry marine-harvested microplastics dataset available at https://doi.org/10.21232/jyxq-1m66 (Garaba and Dierssen, 2019c). Similar absorption features were identified in the dry samples of washed-ashore plastics: dataset available at https://doi.org/10.21232/ex5j-0z25 (Garaba and Dierssen, 2019a). The virgin pellets samples consisted of 11 polymer types typically found in floating aquatic plastic litter: dataset available at https://doi.org/10.21232/C27H34 (Garaba and Dierssen, 2017). Magnitude and shape features of the spectral reflectance collected were also evaluated for two scenarios involving dry and wet marine-harvested microplastics: dataset available at https://doi.org/10.21232/r7gg-yv83 (Garaba and Dierssen, 2019b). Reflectance of wet marine-harvested microplastics was noted to be lower in magnitude but had similar spectral shape to that of dry marine-harvested microplastics. Diagnostic absorption features common in the marine-harvested microplastics and washed-ashore plastics were identified at ∼931, 1215, 1417 and 1732 nm. In addition, we include metrics for a subset of the marine-harvested microplastics related to particle morphology, including sphericity and roundness. These datasets are also expected to improve and expand the scientific evidence-based knowledge of optical characteristics of common plastics found in aquatic litter. Furthermore, these datasets have potential use in radiative transfer simulations exploring the effects of plastics on ocean colour remote sensing and developing algorithms applicable to remote detection of floating plastic litter.

Nested association mapping (NAM) populations emerged as a multi-parental strategy that combines the high statistical power of biparental linkage mapping with greater allelic richness of association mapping. Several statistical models have been developed for marker-trait associations (MTAs) in genome-wide association studies (GWAS), which ranges from simple to increasingly complex models. These statistical models vary in their performance for detecting real association with the avoidance of false positives and false negatives. Furthermore, significant threshold methods play an equally important role for controlling spurious associations. In this study, we compared the performance of seven different statistical models ranging from single to multi-locus models on eight different simulated traits with varied genetic architecture for a NAM population of spring wheat ( Triticum aestivum L.). The best identified model was further used to identify MTAs for 11 different agronomic and spectral reflectance traits, which were collected on the NAM population between 2014 and 2016. The “Bayesian information and linkage disequilibrium iteratively nested keyway (BLINK)” model performed better than all other models observed based on QQ plots and detection of real association in a simulated data set. The results from model comparison suggest that BLINK controls both false positives and false negatives under the different genetic architecture of simulated traits. Comparison of multiple significant threshold methods suggests that Bonferroni correction performed superior for controlling false positives and false negatives and complements the performance of GWAS models. BLINK identified 45 MTAs using Bonferroni correction of 0.05 for 11 different phenotypic traits in the NAM population. This study helps identify the best statistical model and significant threshold method for performing association analysis in subsequent NAM population studies.

The accurate assessment of cotton nitrogen (N) content over a large area using an unmanned aerial vehicle (UAV) and a hyperspectral meter has practical significance for the precise management of cotton N fertilizer. In this study, we tested the feasibility of the use of a UAV equipped with a hyperspectral spectrometer for monitoring cotton leaf nitrogen content (LNC) by analyzing spectral reflectance (SR) data collected by the UAV flying at altitudes of 60, 80, and 100 m. The experiments performed included two cotton varieties and six N treatments, with applications ranging from 0 to 480 kg ha−1. The results showed the following: (i) With the increase in UAV flight altitude, SR at 500–550 nm increases. In the near-infrared range, SR decreases with the increase in UAV flight altitude. The unique characteristics of vegetation comprise a decrease in the “green peak”, a “red valley” increase, and a redshift appearing in the “red edge” position. (ii) We completed the unsupervised classification of images and found that after classification, the SR was significantly correlated to the cotton LNC in both the visible and near-infrared regions. Before classification, the relationship between spectral data and LNC was not significant. (iii) Fusion modeling showed improved performance when UAV data were collected at three different heights. The model established by multiple linear regression (MLR) had the best performance of those tested in this study, where the model-adjusted the coefficient of determination (R2), root-mean-square error (RMSE), and mean absolute error (MAE) reached 0.96, 1.12, and 1.57, respectively. This was followed by support vector regression (SVR), for which the adjusted_R2, RMSE, and MAE reached 0.71, 1.48, and 1.08, respectively. The worst performance was found for principal component regression (PCR), for which the adjusted_R2, RMSE, and MAE reached 0.59, 1.74, and 1.36, respectively. Therefore, we can conclude that taking UAV hyperspectral images at multiple heights results in a more comprehensive reflection of canopy information and, thus, has greater potential for monitoring cotton LNC.

Quickly and efficiently monitoring soil heavy metal content is crucial for protecting the natural environment and for human health. Estimating heavy metal content in soils using hyperspectral data is a cost-efficient method but challenging due to the effects of complex landscapes and soil properties. One of the challenges is how to make a lab-derived model based on soil samples applicable to mapping the contents of heavy metals in soil using air-borne or space-borne hyperspectral imagery at a regional scale. For this purpose, our study proposed a novel method using hyperspectral data from soil samples and the HuanJing-1A (HJ-1A) HyperSpectral Imager (HSI). In this method, estimation models were first developed using optimal relevant spectral variables from dry soil spectral reflectance (DSSR) data and field observations of soil heavy metal content. The relationship of the ratio of DSSR to moisture soil spectral reflectance (MSSR) with soil moisture content was then derived, which built up the linkage of DSSR with MSSR and provided the potential of applying the models developed in the laboratory to map soil heavy metal content at a regional scale using hyperspectral imagery. The optimal relevant spectral variables were obtained by combining the Boruta algorithm with a stepwise regression and variance inflation factor. This method was developed, validated, and applied to estimate the content of heavy metals in soil (As, Cd, and Hg) in Guangdong, China, and the Conghua district of Guangzhou city. The results showed that based on the validation datasets, the content of Cd could be reliably estimated and mapped by the proposed method, with relative root mean square error (RMSE) values of 17.41% for the point measurements of soil samples from Guangdong province and 17.10% for the Conghua district at the regional scale, while the content of heavy metals As and Hg in soil were relatively difficult to predict with the relative RMSE values of 32.27% and 28.72% at the soil sample level and 51.55% and 36.34% at the regional scale. Moreover, the relationship of the DSSR/MSSR ratio with soil moisture content varied greatly before the wavelength of 1029 nm and became stable after that, which linked DSSR with MSSR and provided the possibility of applying the DSSR-based models to map the soil heavy metal content at the regional scale using the HJ-1A images. In addition, it was found that overall there were only a few soil samples with the content of heavy metals exceeding the health standards in Guangdong province, while in Conghua the seriously polluted areas were mainly distributed in the cities and croplands. This study implies that the new approach provides the potential to map the content of heavy metals in soil, but the estimation model of Cd was more accurate than those of As and Hg.

It is well understood that the distribution and quantity of liquid water in snow is relevant for snow hydrology and avalanche forecasting, yet detecting and quantifying liquid water in snow remains a challenge from the micro- to the macro-scale. Using near-infrared (NIR) spectral reflectance measurements, previous case studies have demonstrated the capability to retrieve surface liquid water content (LWC) of wet snow by leveraging shifts in the complex refractive index between ice and water. However, different models to represent mixed-phase optical properties have been proposed, including (1) internally mixed ice and water spheres, (2) internally mixed water-coated ice spheres, and (3) externally mixed interstitial ice and water spheres. Here, from within a controlled laboratory environment, we determined the optimal mixed-phase optical property model for simulating wet snow reflectance using a combination of NIR hyperspectral imaging, radiative transfer simulations (Discrete Ordinate Radiative Transfer model, DISORT), and an independent dielectric LWC measurement (SLF Snow Sensor). Maps of LWC were produced by finding the lowest residual between measured reflectance and simulated reflectance in spectral libraries, generated for each model with varying LWC and grain size, and assessed against the in situ LWC sensor. Our results show that the externally mixed model performed the best, retrieving LWC with an uncertainty of ∼1 %, while the simultaneously retrieved grain size better represented wet snow relative to the established scaled band area method. Furthermore, the LWC retrieval method was demonstrated in the field by imaging a snowpit sidewall during melt conditions and mapping LWC distribution in unprecedented detail, allowing for visualization of pooling water and flow features.

We propose a system of analytical equations to retrieve snow grain size and absorption coefficient of pollutants from snow reflectance or snow albedo measurements in the visible and near-infrared regions of the electromagnetic spectrum, where snow single-scattering albedo is close to 1.0. It is assumed that ice grains and impurities (e.g., dust, black and brown carbon) are externally mixed, and that the snow layer is semi-infinite and vertically and horizontally homogeneous. The influence of close-packing effects on reflected light intensity are assumed to be small and ignored. The system of nonlinear equations is solved analytically under the assumption that impurities have the spectral absorption coefficient, which obey the Ångström power law, and the impurities influence the registered spectra only in the visible and not in the near infrared (and vice versa for ice grains). The theory is validated using spectral reflectance measurements and albedo of clean and polluted snow at various locations (Antarctica Dome C, European Alps). A technique to derive the snow albedo (plane and spherical) from reflectance measurements at a fixed observation geometry is proposed. The technique also enables the simulation of hyperspectral snow reflectance measurements in the broad spectral range from ultraviolet to the near infrared for a given snow surface if the actual measurements are performed at a restricted number of wavelengths (two to four, depending on the type of snow and the measurement system).