Chlorophyll fluorescence (ChlF) is the red and far-red light emitted by chlorophyll pigments upon excitation with natural or artificial light in the visible and infrared (NIR) part of the spectrum.1 It is widely realized that ChlF carries valuable information for the organization, functioning, and physiology of plant photosynthesis.2,3 Energy absorbed by chlorophyll of photosystem II (PSII) is used to split water into hydrogen and oxygen, but some can be dissipated as heat or re-emitted at longer wavelengths as ChlF. The capture of ChlF variations helps understand the processes that control energy partitioning in PSII, which is useful to evaluate plant growth and stress status.4 Many studies found that ChlF is a good indicator for terrestrial gross primary production, fraction of absorbed photosynthetically active radiation (PAR), light use efficiency, and maximum carboxylation capacity.56.–7 Moreover, the first response of a plant to environmental stress is usually an increase of nonradiative energy dissipation likely indicated by ChlF.8 Thus, ChlF usually acts as a sensitive probe for early detection of plant stress.9
The pulse amplitude-modulated (PAM) technique is widely used for leaf ChlF measurements. It employs rapid manipulations of the light regime with modulated measuring light to obtain leaf fluorescence signals under different conditions.4 The measurement is initiated with a measuring light on a dark-adapted leaf, giving the minimal level of fluorescence () when all photochemical traps open and nonphotochemical quenching (NPQ) approaches zero. A saturating pulse of light is then applied to close nearly all photochemical traps thus fluorescence rapidly increases to a maximal level (). Turning on an actinic light can activate photosynthesis in leaf, and after a period of time, leaf fluorescence comes to a steady-state level (). By applying saturating pulses, the maximal level of fluorescence in the light () can be measured. The removal of actinic light after a flash gives the minimal level of fluorescence () in the light. Based on these recorded signals, various important parameters can be derived to quantify leaf photochemical and nonphotochemical processes, such as the efficiency of PSII photochemistry , photochemical quenching , intrinsic efficiency of PSII photochemistry , NPQ , and so on.4,10 The development of the PAM technique has greatly facilitated the study and applications of using ChlF information to evaluate vegetation photosynthesis machinery and physiology status. Several PAM-based fluorometers have been invented to obtain ChlF information in situ,11 but they are commonly applied at leaf level and their applicability at canopy or landscape level still remains elusive.4,12
Recently, estimating ChlF from remote sensing platforms is of great interest. Unlike PAM techniques based on fluorescence measurements induced by an active light source, remote sensing approaches retrieve ChlF excited by the absorption of sunlight [i.e., solar-induced fluorescence (SIF)] using spectral reflectance. Since the fluorescence emission spectrum is superimposed on leaf or canopy reflectance that can be obtained by handheld, ground-mounted, aerial-, or space-borne sensors, remote sensing technique opens the new way for upscaling ChlF from leaf to landscape levels. For example, Moya et al.13 designed a passive instrument to detect SIF at close range for leaves in lab and for outdoor plants; Rascher et al.14 mapped the relative distribution of SIF for maize fields using spectroscope aboard aircraft; and Joiner et al.15 achieved the first observation of global terrestrial SIF using the Japanese Greenhouse Gases Observing Satellite data. Also, the European Space Agency has started the Fluorescence Explorer mission specifically for ChlF assessments from space.16,17 The accurate quantification of regional and global ChlF has attracted wide attention, since it is a complementary and high capacity signal for evaluating terrestrial production and global carbon cycle.6,18
Since ChlF emitted by plant under natural sunlight is very small (only 1% to 2% of the absorbed light),19 it is quite challenging to extract such weak signal from much higher detected reflectance signal. Fraunhofer line discrimination (FLD) approach was developed to retrieve SIF at the distance from close range to satellite altitudes.20 Fraunhofer lines are narrow bands at which the incident solar irradiance is strongly reduced by gaseous absorption. Several Fraunhofer lines are observed at wavelengths where the ChlF emission is relatively high (e.g., 656, 688, and 760 nm), and the vegetation SIF can be retrieved based on spectral measurements inside and outside the Fraunhofer lines.21,22 FLD approach makes it viable to measure SIF from space, which is of significance for terrestrial SIF evaluation at large scale. While the PAM technique measures ChlF over quite a broad spectral region, SIF by FLD-based approach is estimated within very narrow spectral bands. So it requires the data of very high spectral resolution and large surface area to collect sufficient signal, which may be unavailable or costly for most remote sensors.3 Also, the atmospheric correction needs to be carefully conducted since gas scattering can result in large uncertainties to SIF retrivals.4,13 Moreover, to avoid reabsorption of fluorescence by chlorophyll, FLD-retrieved SIF is commonly measured at far-red bands, which may not be representative for PSII photochemistry analysis.4
In addition to the FLD-based methods, spectral vegetation indices (VIs) have been increasingly applied for remote estimation of ChlF-related parameters. They do not require reflectance exactly at the Fraunhofer lines but instead use reflectance at several bands sensitive to ChlF variations. These indices do not provide the direct measurements of ChlF in physical units but can be related to ChlF-derived information and parameters using empirical models.19,23,24
The methods using VIs are popular recently due to their simplicity and flexibility when applying to various remotely sensed data. Gitelson et al.25 showed that VIs with red edge reflectance were closely related to the ratio of leaf fluorescence at 735 to 700 nm; Zarco-Tejada et al.26 found a good relationship between the ratio and difference VIs derived from an airborne multispectral camera and canopy SIF estimated by FLD method; and Jia et al.27 observed that red edge position of leaf reflectance is highly correlated with in winter wheat under different nitrogen treatments. These indices were mostly developed originally for estimating vegetation pigment-related bioparameters, such as chlorophyll content and leaf area index. They worked quite well for ChlF retrieval because ChlF in unstressed plants depends, to a great extent, on pigment content and leaf absorption.2829.–30 However, it has been found that conventional chlorophyll-related VIs are not efficient to capture ChlF changes in stressed vegetation.31 Indices can still remain high when plants are heavily stressed by short-term drought while fluorescence may change dramatically.32 It is observed that vegetation chlorophyll content is not directly linked to instantaneous photosynthetic processes and cannot quantify the downregulation of photosynthesis due to early environmental stresses.7 The lag for the vegetation chlorophyll to response to short-term stress can cause significant uncertainties for ChlF estimates when using empirical algorithms developed by chlorophyll-related VIs, which have not been adequately elaborated and addressed.
This study explores using vegetation reflectance to indicate variations in ChlF-derived parameters. The experiments were conducted at leaf level since it is the basic spatial scale at which fluorescence and spectral reflectance can be measured and linked simultaneously. We selected as the ChlF-derived parameter to be studied, since it reflects the potential quantum efficiency of PSII that usually acts as a sensitive indicator of plant photosynthesis performance.10 The ratio has been found rather constant in nonstressed plants. A decrease in can track the decrease in photochemical performance, such as sustained forms of NPQ or photoinhibition of reaction centers, when a leaf has been exposed to stress.33,34 The first objective is to test several widely used spectral VIs for estimation in leaves assumed under minimum stress. The second objective is to analyze the reflectance changes as leaf under short-term stress conditions and explore the indices that are closely related to . The final objective is to explore the potential of identifying leaf stress using remotely sensed reflectance data.
Materials and Methods
Two experiments were conducted in this study. In experiment I, 48 fresh leaves were selected from aspen and cherry trees on the campus of Wuhan University, Hubei, China. These trees were planted under temperate climate with good management by campus services. In procedure of leaf selection, the spotted or crinkled leaves were avoided, and leaves appearing fresh and fully expanded were used. So, these leaves were assumed under minimum stress. The study period was from the early spring to late autumn in 2015, and the newly sprouted, mature, and senescent leaves were all collected. The color of sample leaves varied from yellowish-green to dark green so that they could have a wide range of chlorophyll content. The in situ measurements of reflectance, chlorophyll content, and were conducted at leaf level. In experiment II, eight leaves were cut from trees and transported to the laboratory immediately. They were placed on a lab balcony having similar light and temperature conditions with outdoor environment but with no water supply. This experiment simulated short-term water stress at leaf level. Leaf reflectance, chlorophyll content, and were measured every hour after the leaf was removed from the tree until value was close to zero.
Reflectance spectra of the leaves were taken using a hyperspectral radiometer (ASD FieldSpec 4, ASD Inc., Boulder, Colorado) with a self-illuminated leaf clip. For each leaf, spectral reflectance in range between 400 and 900 nm at a spectral resolution of 3 nm was measured at five positions randomly distributed on the adaxial side of leaf (five scans for each position), and the median of 25 spectra scans was used as the leaf reflectance. More details can be found by Zygielbaum et al.35
Following reflectance measurements, leaf chlorophyll content was quantified using SPAD-502 (Soil and Plant Analyzer Development, Konica Minolta Inc., Ramsey, New Jersey). The SPAD can instantly provide chlorophyll meter readings based on leaf transmittance, which is widely used to assess leaf chlorophyll content.3637.–38 Close to positions where reflectance measurements were taken, five SPAD readings were recorded and their median was calculated as leaf chlorophyll content.
Leaf was measured using a PAM fluorometer (FluroPen FP 100, Photon Systems Inc., Drásov, Czech Republic). Measurements were conducted on the adaxial surface of the leaves. The leaf was first dark-adapted for 20 min using a leaf clip holder with a movable black cap. The minimum fluorescence () and maximal fluorescence () were then measured and recorded by FluroPen. was calculated as .10 More details about FluroPen were given by Aroca et al.39 and Ni et al.40
The reflectance spectra were resampled to simulate the spectral bands of Multispectral Instrument (MSI) aboard Sentinel-2.41 This satellite is showing great potential for land surface parameter estimations.42 Since the spectral response functions of the MSI spectral bands are close to rectangular,43 the simulated MSI reflectance was calculated by the average reflectance over the bandwidth of the respective MSI bands (band 1: 456 to 523 nm, band 2: 542 to 578 nm, band 3: 650 to 680 nm, band 4: 697 to 713 nm, band 5: 732 to 748 nm, and band 6: 773 to 793 nm). Using the simulated Sentinel-2 MSI reflectance, several widely used VIs were calculated (Table 1) and compared with the corresponding leaf SPAD and values. The sample size for this study was 48 for the experiment I and 80 for the experiment II.
Summary of VIs used in this study. ρ560, ρ665, ρ705, ρ740, ρ780, ρ531, and ρ570 are reflectance values simulated in Sentinel-2 bands of green, red, shortwave red edge, longwave red edge, NIR regions, 531, and 570 nm, respectively.
|NDVI||NDVI=(ρ780−ρ665)/(ρ780+ρ665)||Rouse et al.44|
|EVI2||EVI2=2.5×(ρ780−ρ665)/(ρ780+2.4×ρ665+1)||Jiang et al.46|
|Green chlorophyll index||CIgreen=(ρ780/ρ560)−1||Gitelson et al.47,48|
|Red edge NDVI||NDRE705=(ρ780−ρ705)/(ρ780+ρ705)||Gitelson and Merzlyak49,50|
|Red edge chlorophyll index||CI705=(ρ780/ρ705)−1||Gitelson et al.47,48|
|MTCI||MTCI=(ρ780−ρ705)/(ρ705−ρ665)||Dash and Curran51|
|PRI||PRI=(ρ531−ρ570)/(ρ531+ρ570)||Gamon et al.52|
Results and Discussion
Remote Estimation of Chlorophyll Fluorescence in Nonstressed Leaves
In experiment I for samples assumed under minimum stress, it was observed that leaf chlorophyll varied over a wide range from SPAD values from 10 to 50, whereas was rather stable in the value around . Generally, positively related to SPAD with the coefficient of determination () above 0.76 [Fig. 1(a)]. The measured reflectances in fresh leaves at different and SPAD values are presented in Fig. 1(b). With the increase in and SPAD, leaf reflectance decreased in PAR region (400 to 700 nm) and increased in NIR region (750 to 900 nm). In unstressed leaves, the increase of chlorophyll content [Fig. 1(a)] results in a slight increase in , and leaves with higher chlorophyll content were able to absorb more PAR thus decreasing the visible reflectance.47 In addition, leaves having higher chlorophyll content were more mature and thicker, so leaf scattering became higher causing higher NIR reflectance.
Many studies used reflectance-derived indices to estimate leaf chlorophyll content accurately.53,54 Due to the close relationship between chlorophyll content and in unstressed leaves [Fig. 1(a)], these chlorophyll-related indices may be also useful to indicate variations. The relationships of versus VI were tested for indices that were widely applied as good proxies of leaf chlorophyll content [Figs. 2(a)–2(i)]. All chlorophyll-related VIs close to linearly related to with above 0.62. Since some research suggested to use photochemical reflectance index (PRI) to indicate vegetation stress,55,56 the relationship of PRI versus was also tested in this study [Fig. 2(j)], but a lower correlation was found between them ().
Table 2 gives the algorithms developed for estimation using tested VIs. Except PRI, all indices worked well to estimate with normalized root-mean-square errors (NRMSE) below 0.173 (Table 2). Note that the indices using longwave red edge band ( and ) were superior to those using shortwave red edge band, and they were the most accurate for retrieval among the tested indices. This is consistent with findings that the use of longwave red edge bands can give better estimates of vegetation chlorophyll content and productivity.43,57
Best-fit functions, determination coefficients (R2), root-mean-square errors (RMSE), and NRMSE of relationships Fv/Fm versus VIs in nonstressed leaves.
Remote Estimation of Chlorophyll Fluorescence in Stressed Leaves
In experiment II for samples assumed to be under short-term stress, it is observed that in most leaves remained invariant during the first 4 or 5 h but sharply decreased afterward [e.g., Fig. 3(a)]. In experiment I, values of fresh leaves ranged mostly from 0.75 to 0.85 [Fig. 1(a)], which were similar with observations by Aschan et al.,58 that this ratio differed insignificantly in unstressed plants. In experiment II, however, could drop below 0.5 after 7 h of leaf removal while leaf chlorophyll content varied only slightly within a day (SPAD value almost the same). indicates the intrinsic efficiency of PSII photochemistry, which is more sensitive to environmental stress.32 Under conditions of water stress, declines as the PSII reaction center is damaged in the leaf.59 However, chlorophyll content does not drop immediately in response to short-term stress. Leaf-level chlorophyll changes are only visible over time scales of days,60 because plants have evolved a number of regulatory mechanisms to modulate PAR absorption before decreasing chlorophyll pigment,61 such as leaf movements, leaf angle adjustments,62 and chloroplast avoidance movements.63 Another reason may be that the chlorophyll absorption has two reaction centers (P680 for PSII and P700 for PSI), and the dissociation of them under short-term stress may not be immediately reflected in changes of bulk chlorophyll content.
Figure 3(b) shows the leaf reflectance measured every hour since the leaf removed from the tree. More sensitive than chlorophyll content, leaf reflectance showed noticeable variations as stress became severe. The reflectance measured 5 h after the leaf removal was obviously different from the reflectance measured earlier, which was in agreement with variations shown in Fig. 3(a) ( dropped also after 5 h). The changes of spectral reflectance for the green (530 to 560 nm) and far-red to NIR (700 to 900 nm) bands were the most pronounced. Before the fifth hour, reflectance reached a high and flat plateau in NIR range, and thereafter, NIR reflectance decreased but slopes in NIR and red edge regions significantly increased. In contrast, the slope in green regions slightly decreased. This is consistent with the statements by Zarco-Tejada et al.19,64 that the derivative reflectance (slope of reflectance) may enable the detection of subtle changes of ChlF emissions. We therefore analyzed the sensitivity of reflectance slope to variations at different wavelengths. Since chlorophyll exhibits fluorescence emission mainly in the red and NIR regions with peaks at and 740 nm,27 the first derivative of reflectance () was calculated, and the coefficients of determination () between and were plotted with wavelength in range of 600 to 900 nm (Fig. 4). The value peaked around 675 nm (above 0.8), and it remained high (between 0.80 and 0.87) throughout the wide spectral region of 760 to 860 nm. The relationship of at 675 and 760 nm versus was presented in Fig. 5, respectively, and it is observed that the derivative of red reflectance was positively correlated with [Fig. 5(a)] while the relationship of derivative of NIR reflectance and [Fig. 5(b)] was negative.
To explore whether the VIs can be applied for estimations under stress conditions, the samples of the experiment II that showed the obvious drop in (usually 5 h after leaf removal with below 0.75) were selected as stressed leaves. Due to the limitation of the spectral resolution of current sensors, it may be quite difficult to get hyperspectral data, thus, calculate . Therefore, the indices in Table 1 were also tested in selected stressed leaves. Green chlorophyll index (), , and , working well in nonstressed leaves ( above 0.64), showed very low correlations to in stressed leaves with below 0.28. Normalized difference vegetation index (NDVI), MERIS terrestrial chlorophyll index (MTCI), enhanced vegetation index 2 (EVI2), and simple ratio (SR), which used red band around 680 nm, showed significant relationships with in stressed leaves, but of these relationships in stressed leaves was much lower than in nonstressed leaves (Tables 2 and 3). of the relationship PRI versus increased significantly in stressed leaves (0.32 versus 0.68). Many studies showed that in ecosystems when chlorophyll content changed over a wide range, PRI was highly correlated to chlorophyll variations at both leaf and canopy level,65,66 and it may be not effective for detecting vegetation photosynthetic efficiency. But PRI acted as a useful index of photosynthetic efficiency in evergreen species when chlorophyll content changed slightly and its variation was quite independent to chlorophyll.67 Thus, when leaf chlorophyll content did not change significantly under short-term stress, PRI appeared more useful than chlorophyll content to indicate variations. Among the tested VIs, and were the best to estimate with of 0.88 and NRMSE below 0.115. They were formulated based on the reflectance difference of two bands located at longwave red edge and NIR spectrum, which may indicate in spectral region of 750 to 900 nm, whereas PRI may indicate in green spectral region. From Fig. 3(b), it is observed that in stressed leaves, as decreased, the reflectance slope in NIR the spectral region increased while it decreased in the green spectral region.
Best-fit functions, determination coefficients (R2), RMSE, and NRMSE of relationships Fv/Fm versus VIs in stressed leaves.
Identify Stress Occurrence in Leaves
and were accurate for estimates in both experiments with above 0.72 (Tables 2 and 3). However, the algorithms developed in nonstressed leaves were very different from those in stressed leaves. For nonstressed leaves, and positively related to , whereas they related to negatively in stressed leaves [Figs. 6(a) and 6(b)]. Based on best-fit functions calibrated in two experiments, the stressed and nonstressed lines were roughly defined in VI versus two-dimensional (2-D) space. The nonstressed line was short with relatively high values. Since in healthy leaves, was quite conservative with small variations. The stressed line was relatively long with higher or values. When leaf was under possible stresses, dramatically decreased having wider dynamic range, and leaf reflectance decreased thus increasing VI values. Figures 6(c) and 6(d) show all samples of the experiment II in VI versus space. Within 0 to 5 h, sample points were mostly located near the nonstressed line defined in the space. One or two hours later (the sixth and seventh hour), points moved toward the stressed line. After 8 h with no water supply, points shifted to the stressed line and quite far away from the nonstressed line. Such movements of samples in VI versus space may give us a hint to identify short-term stress occurrence in leaves when leaf chlorophyll content remains stable while tends to decrease.
Our study estimated ChlF-derived using spectral indices for both nonstressed and stressed leaves with promising results. The tested indices were calculated using reflectance simulated in Sentinel-2 bands, which may be easily applied to the mainstream sensors with relatively wide bands. But in this study, the experiment for stressed leaves was only conducted in lab where the light and temperature conditions might be quite different from real vegetation growing environment. Also, we studied using leaf reflectance to indicate water stress, but how the vegetation spectra will respond to other stresses (e.g., temperature and soil moisture) that may reduce photosynthesis efficiency is unclear. The next step is to apply this method for leaves in the field under various natural stresses. Furthermore, it is worthwhile to explore using reflectance-derived indices to indicate ChlF information at canopy level. Vertical gradients of light and pigment distribution inside the canopy greatly increase the complexity of ChlF signals. Also, the clarification of the relationship between fluorescence and photosynthetic efficiency at canopy level is important for monitoring ChlF remotely at large scale with aircraft or satellite data.
We estimated a leaf ChlF-derived parameter, the intrinsic efficiency of PSII photochemistry (), based on leaf spectra measurements. In leaves with minimum stress, it is found that chlorophyll content closely related to . Thus, can be estimated via VIs, which was developed for chlorophyll content retrieval. Several widely used indices, calculated from leaf reflectance simulated in Sentinel-2 bands, were tested to estimate for nonstressed leaves. All chlorophyll-related VIs worked well, and the indices using longwave red edge bands ( and ) were the most accurate for retrieval with above 0.72. For leaves under short-term stresses, the value began to drop but leaf chlorophyll content remained almost invariant within a day. Compared to leaf chlorophyll, the first derivative of reflectance in spectra range of 700 to 900 nm appeared more sensitive to variations. While most chlorophyll-related VIs showed low correlations with for leaves under stress, and were closely related to also in stressed leaves with of 0.88. Note that or versus relationships for stressed leaves were significantly different from that for nonstressed leaves, which may give a good implication to detect short-term stress occurrence in leaves.
We acknowledge the support and the use of facilities and equipment provided by the Institute of Quantitative Remote Sensing, School of Remote Sensing and Information Engineering, Wuhan University, China. This research was supported by the National Defense Project, China (No. 30-Y20A29-9003-15/17), the National 863 Project of China (No. 2013AA102401), Science Supporting Project of Hubei Province (No. 2015BCE045), and the National Natural Science Foundation of China (No. 41401390).
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Yi Peng received her PhD from the School of Natural Resources, University of Nebraska–Lincoln, USA, in 2012. Currently, she is the associate professor in the School of Remote Sensing and Information Engineering, Wuhan University, China. Her research interests focus on quantitative remote sensing of agriculture.
Shenghui Fang is the director of the Institute of Quantitative Remote Sensing, School of Remote Sensing and Information Engineering, Wuhan University, China. His research interests include quantitative remote sensing, image processing and microwave remote sensing.
Yan Gong works as the associate director of the Institute of Quantitative Remote Sensing, School of Remote Sensing and Information Engineering, Wuhan University, China. His research interests include remote sensing of agriculture and image analysis.
Kan Liu received his PhD form the Institute of Pattern Recognition and Artificial Intelligence, Huazhong University of Science and Technology, China, in 2012. He is currently working in Wuhan Institute of Physics and Mathematics of Chinese Academy of Sciences, China. His research interests include bioinformatics, fluorescent data analysis, and integrated spectral imaging devices.