Effects of woody elements on simulated canopy reflectance: Implications for forest chlorophyll content retrieval

An important bio-indicator of actual plant health status, the foliar content of chlorophyll a and b (Cab), can be estimated using imaging spectroscopy. For forest canopies, however, the relationship between the spectral response and leaf chemistry is confounded by factors such as background (e.g. understory), canopy structure, and the presence of non-photosynthetic vegetation (NPV, e.g. woody elements)—particularly the appreciable amounts of standing and fallen dead wood found in older forests. We present a sensitivity analysis for the estimation of chlorophyll content in woody coniferous canopies using radiative transfer modeling, and use the modeled top-of-canopy reflectance data to analyze the contribution of woody elements, leaf area index (LAI), and crown cover (CC) to the retrieval of foliar Cab content. The radiative transfer model used comprises two linked submodels: one at leaf level (PROSPECT) and one at canopy level (FLIGHT). This generated bidirectional reflectance data according to the band settings of the Compact High Resolution Imaging Spectrometer (CHRIS) from which chlorophyll indices were calculated. Most of the chlorophyll indices outperformed single wavelengths in predicting Cab content at canopy level, with best results obtained by the Maccioni index ([R₇₈₀ − R₇₁₀] / [R₇₈₀ − R₆₈₀]). We demonstrate the performance of this index with respect to structural information on three distinct coniferous forest types (young, early mature and old-growth stands). The modeling results suggest that the spectral variation due to variation in canopy chlorophyll content is best captured for stands with medium dense canopies. However, the strength of the up-scaled Cab signal weakens with increasing crown NPV scattering elements, especially when crown cover exceeds 30%. LAI exerts the least perturbations. We conclude that the spectral influence of woody elements is an important variable that should be considered in radiative transfer approaches when retrieving foliar pigment estimates in heterogeneous stands, particularly if the stands are partly defoliated or long-lived.     

Characterization of seasonal variation of forest canopy in a temperate deciduous broadleaf forest, using daily MODIS data

In this paper, we present an improved procedure for collecting no or little atmosphere- and snow-contaminated observations from the Moderate Resolution Imaging Spectroradiometer (MODIS) sensor. The resultant time series of daily MODIS data of a temperate deciduous broadleaf forest (the Bartlett Experimental Forest) in 2004 show strong seasonal dynamics of surface reflectance of green, near infrared and shortwave infrared bands, and clearly delineate leaf phenology and length of plant growing season. We also estimate the fractions of photosynthetically active radiation (PAR) absorbed by vegetation canopy (FAPAR_canopy), leaf (FAPAR_leaf), and chlorophyll (FAPAR_chl), respectively, using a coupled leaf-canopy radiative transfer model (PROSAIL-2) and daily MODIS data. The Markov Chain Monte Carlo (MCMC) method (the Metropolis algorithm) is used for model inversion, which provides probability distributions of the retrieved variables. A two-step procedure is used to estimate the fractions of absorbed PAR: (1) to retrieve biophysical and biochemical variables from MODIS images using the PROSAIL-2 model; and (2) to calculate the fractions with the estimated model variables from the first step. Inversion and forward simulations of the PROSAIL-2 model are carried out for the temperate deciduous broadleaf forest during day of year (DOY) 184 to 201 in 2005. The reproduced reflectance values from the PROSAIL-2 model agree well with the observed MODIS reflectance for the five spectral bands (green, red, NIR₁, NIR₂, and SWIR₁). The estimated leaf area index, leaf dry matter, leaf chlorophyll content and FAPAR_canopy values are close to field measurements at the site. The results also showed significant differences between FAPAR_canopy and FAPAR_chl at the site. Our results show that MODIS imagery provides important information on biophysical and biochemical variables at both leaf and canopy levels.     

Spectroscopic classification of tropical forest species using radiative transfer modeling

Leaf spectroscopy may be useful for tropical species discrimination, but few studies have provided an understanding of the spectral separability of species or how leaf spectroscopy scales to the canopy level relevant to mapping. Here we report on a study to classify humid tropical forest canopy species using field-measured leaf optical properties with leaf and canopy radiative transfer models. The experimental dataset included 188 canopy species collected in humid tropical forests of Hawaii. The leaf optical model PROSPECT-5 was used to simulate the leaf spectra of each species, which was used to train a classifier based on Linear Discriminant Analysis, and a canopy radiative transfer model 4SAIL2 to scale leaf measurements to the canopy level. The relationship linking classification accuracy at the leaf level to biodiversity showed an asymptotic trend reaching a maximum error of 47% when applied to the entire 188 species experimental dataset, and 56% when a simulated dataset showing amplified within-species spectral variability was used, suggesting uniqueness of the spectral signature for a significant proportion of species under study. The maximum error in canopy-level species classification was higher than leaf-level classification: 55% when canopy structure was held constant, and 64% with varying and unknown canopy structure. However, when classifying fewer species at a time, errors dropped considerably; for example, 20 species can be classified to 82-88% accuracy. These results highlight the potential of imaging spectroscopy to provide species discrimination in high-diversity, humid tropical forests.     

GeoCBI: A modified version of the Composite Burn Index for the initial assessment of the short-term burn severity from remotely sensed data

Burn severity estimation is a key factor in the post-fire management. Previous studies using remotely sensed data to retrieve burn severity, as measured by the Composite Burn Index (CBI), have found inconsistencies, since spectral indices work well in some ecosystems but not in others. These inconsistencies may be caused by the lack of spectral uniqueness in the CBI definition, or by the performance of the spectral indices used. This paper analyses the former aspect, using a simulation analysis to study the relationships between the CBI and reflectance. Subsequently, a modified version of this index, called GeoCBI, is proposed to improve the retrieval of burn severity from remotely sensed data. GeoCBI takes into account the fraction of cover (FCOV) of the different vegetation strata used to compute the CBI. Moreover, it also includes the changes in the leaf area index (LAI) for the intermediate and tall tree strata (D+E). Field and simulation results show that GeoCBI is more consistently related to spectral reflectance than CBI for different ranges of burn severities, while keeping its ecological meaning.     

Modeling directional-hemispherical reflectance and transmittance of fresh and dry leaves from 0.4 μm to 5.7 μm with the PROSPECT-VISIR model

Vegetation water content retrieval using passive remote sensing techniques in the 0.4-2.5 μm region (reflection of solar radiation) and the 8-14 μm region (emission of thermal radiation) has given rise to an abundant literature. The wavelength range in between, where the main water absorption bands are located, has surprisingly received very little attention because of the complexity of the radiometric signal that mixes both reflected and emitted fluxes. Nevertheless, it is now covered by the latest generation of passive optical sensors (e.g. SEBASS, AHS). This work aims at modeling leaf spectral reflectance and transmittance in the infrared, particularly between 3 μm and 5 μm, to improve the retrieval of vegetation water content using hyperspectral data. Two unique datasets containing 32 leaf samples each were acquired in 2008 at the USGS National Center, Reston (VA, USA) and the ONERA Research Center, Toulouse (France). Reflectance and transmittance were recorded using laboratory spectrometers in the spectral region from 0.4 μm to 14 μm, and the leaf water and dry matter contents were determined. It turns out that these spectra are strongly linked to water content up to 5.7 μm. This dependence is much weaker further into the infrared, where spectral features seem to be mainly associated with the biochemical composition of the leaf surface. The measurements show that leaves transmit light in this wavelength domain and that the transmittance of dry samples can reach 0.35 of incoming light around 5 μm, and 0.05 around 11 μm. This work extends the PROSPECT leaf optical properties model by taking into account the high absorption levels of leaf constituents (by the insertion of the complex Fresnel coefficients) and surface phenomena (by the addition of a top layer). The new model, PROSPECT-VISIR (VISible to InfraRed), simulates leaf reflectance and transmittance between 0.4 μm and 5.7 μm (at 1 nm spectral resolution) with a root mean square error (RMSE) of 0.017 and 0.018, respectively. Model inversion also allows the prediction of water (RMSE = 0.0011 g/cm²) and dry matter (RMSE = 0.0013 g/cm²) contents.     

Comparison of vegetation water contents derived from shortwave-infrared and passive-microwave sensors over central Iowa

Retrieval of soil moisture content using the vertical and horizontal polarizations of multiple frequency bands on microwave sensors can provide an estimate of vegetation water content (VWC). Another approach is to use foliar-water indices based on the absorption at shortwave-infrared wavelengths by liquid water in the leaves to determine canopy water content, which is then related to VWC. An example of these indices is the normalized difference infrared index (NDII), which was found to be linearly related to canopy water content using various datasets, including data from the Soil Moisture Experiments 2002 and 2005 in central Iowa. Here we compared independent estimates of VWC from WindSat to Moderate resolution Imaging Spectroradiometer (MODIS) NDII over central Iowa from 2003 to 2005. Results showed that there was a linear relationship between the MODIS and WindSat estimates of VWC, although WindSat-retrieved VWC was greater than MODIS-retrieved VWC. WindSat and MODIS have different satellite overpass times and in most climates we expect VWC to vary over a day due to transpiration and plant water stress. However, a sensitivity analysis indicated that the diurnal variation of VWC should not have a significant effect on retrievals of VWC by either method. The results of this study indicated that soil moisture retrievals from microwave sensors may be improved using VWC from optical sensors determined by foliar-water indices and classifications of land cover type.     

Short-term assessment of burn severity using the inversion of PROSPECT and GeoSail models

Accurate estimations of burn severity and its distribution in post fire scenarios are critical for short-term mitigation and rehabilitation treatments. The use of remote sensing techniques, coupled with radiative transfer models (RTMs) can improve the accuracy, precision (in terms of number of classes) and cost-effectiveness of burn severity assessment. In this paper, an improved simulation model that combines PROSPECT and GeoSail to estimate burn severity from satellite data was tested in three Mediterranean forest fires. The determination of burn severity was based on a new version of the CBI index (named GeoCBI), that takes into account the vegetation fraction cover (FCOV) to compute burn severity of the total plot. Model inversion results showed accurate estimations of GeoCBI values (RMSE between 0.18 and 0.21) and a uniform performance in all three sites (107 field plots in total) throughout the full GeoCBI range (0-3).     

Enhancing a leaf radiative transfer model to estimate concentrations and in vivo specific absorption coefficients of total carotenoids and chlorophylls a and b from single-needle reflectance and transmittance

The relative concentrations of different pigments within a leaf have significant physiological and spectral consequences. Photosynthesis, light use efficiency, mass and energy exchange, and stress response are dependent on relationships among an ensemble of pigments. This ensemble also determines the visible characteristics of a leaf, which can be measured remotely and used to quantify leaf biochemistry and structure. But current remote sensing approaches are limited in their ability to resolve individual pigments. This paper focuses on the incorporation of three pigments—chlorophyll a, chlorophyll b, and total carotenoids—into the LIBERTY leaf radiative transfer model to better understand relationships between leaf biochemical, biophysical, and spectral properties.Pinus ponderosa and Pinus jeffreyi needles were collected from three sites in the California Sierra Nevada. Hemispheric single-leaf visible reflectance and transmittance and concentrations of chlorophylls a and b and total carotenoids of fresh needles were measured. These data were input to the enhanced LIBERTY model to estimate optical and biochemical properties of pine needles. The enhanced model successfully estimated reflectance (RMSE = 0.0255, BIAS = 0.00477, RMS%E = 16.7%), had variable success estimating transmittance (RMSE = 0.0442, BIAS = 0.0294, RMS%E = 181%), and generated very good estimates of carotenoid concentrations (RMSE = 2.48 µg/cm², BIAS = 0.143 µg/cm², RMS%E = 20.4%), good estimates of chlorophyll a concentrations (RMSE = 10.7 µg/cm², BIAS = − 0.992 µg/cm², RMS%E = 21.1%), and fair estimates of chlorophyll b concentrations (RMSE = 7.49 µg/cm², BIAS = − 2.12 µg/cm², RMS%E = 43.7%). Overall root mean squared errors of reflectance, transmittance, and pigment concentration estimates were lower for the three-pigment model than for the single-pigment model. The algorithm to estimate three in vivo specific absorption coefficients is robust, although estimated values are distorted by inconsistencies in model biophysics. The capacity to invert the model from single-leaf reflectance and transmittance was added to the model so it could be coupled with vegetation canopy models to estimate canopy biochemistry from remotely sensed data.     

Estimations of Chlorophyll Content from Vegetation Indicesby Using PROSPECT and DART

With the aid of a well known leaf optical model PROSPECT and a canopy scale model DART (Discrete Anisotropic Radiative Transfer),sensitivities between chlorophyll content and six different vegetation indices were investigated by simulating eucalyptus,one of a dominant fast growing tree in China,as an example.Vegetation indices used here include Normalized Difference Vegetation Index (NDVI),Structure Insensitive Pigment Index (SIPI),Colouration Index (COI),Simple Ratio Index (SR),Cater Index (CAI),and Red edge Position Linear Interpolation (REP_Li).Results indicate that at the leaf scale,COI and SIPI are sensitive to the LCC (Leaf Chlorophyll Content)as the Chlorophyll Content changes.Meanwhile,no obvious saturation phenomenon is observed for these two indices compared to other indices.Further investigations show that all these vegetation indices are incapable of estimating LCC at the canopy scale,due to significant influences from LAI(Leaf Area Index).Nevertheless,it suggests that SIPI and COI can be applied to estimate the CCC (Canopy Chlorophyll Content).     

Optimizing spectral indices and chemometric analysis of leaf chemical properties using radiative transfer modeling

We used synthetic reflectance spectra generated by a radiative transfer model, PROSPECT-5, to develop statistical relationships between leaf optical and chemical properties, which were applied to experimental data without any readjustment. Four distinct synthetic datasets were tested: two unrealistic, uniform distributions and two normal distributions based on statistical properties drawn from a comprehensive experimental database. Two methods used in remote sensing to retrieve vegetation chemical composition, spectral indices and Partial Least Squares (PLS) regression, were trained both on the synthetic and experimental datasets, and validated against observations. Results are compared to a cross-validation process and model inversion applied to the same observations. They show that synthetic datasets based on normal distributions of actual leaf chemical and structural properties can be used to optimize remotely sensed spectral indices or other retrieval methods for analysis of leaf chemical constituents. This study concludes with the definition of several polynomial relationships to retrieve leaf chlorophyll content, carotenoid content, equivalent water thickness and leaf mass per area using spectral indices, derived from synthetic data and validated on a large variety of leaf types. The straightforward method described here brings the possibility to apply or adapt statistical relationships to any type of leaf.