Remote sensing of solar-induced chlorophyll fluorescence (SIF) is a rapidly advancing front in terrestrial vegetation science, with emerging capability in space-based methodologies and diverse ...application prospects. Although remote sensing of SIF – especially from space – is seen as a contemporary new specialty for terrestrial plants, it is founded upon a multi-decadal history of research, applications, and sensor developments in active and passive sensing of chlorophyll fluorescence. Current technical capabilities allow SIF to be measured across a range of biological, spatial, and temporal scales. As an optical signal, SIF may be assessed remotely using high-resolution spectral sensors in tandem with state-of-the-art algorithms to distinguish the emission from reflected and/or scattered ambient light. Because the red to far-red SIF emission is detectable non-invasively, it may be sampled repeatedly to acquire spatio-temporally explicit information about photosynthetic light responses and steady-state behaviour in vegetation. Progress in this field is accelerating with innovative sensor developments, retrieval methods, and modelling advances. This review distills the historical and current developments spanning the last several decades. It highlights SIF heritage and complementarity within the broader field of fluorescence science, the maturation of physiological and radiative transfer modelling, SIF signal retrieval strategies, techniques for field and airborne sensing, advances in satellite-based systems, and applications of these capabilities in evaluation of photosynthesis and stress effects. Progress, challenges, and future directions are considered for this unique avenue of remote sensing.
•Historical and current progress in remote sensing of SIF are reviewed.•Technical capabilities allow measurements over a range of spatial scales.•Sensor capabilities, retrieval methods, and modelling are now quite advanced.•Applications in vegetation include stress detection and photosynthesis.•Future directions include validation, optimized systems, and interpretation.
There is an unprecedented array of new satellite technologies with capabilities for advancing our understanding of ecological processes and the changing composition of the Earth’s biosphere at scales ...from local plots to the whole planet. We identified 48 instruments and 13 platforms with multiple instruments that are of broad interest to the environmental sciences that either collected data in the 2000s, were recently launched, or are planned for launch in this decade. We have restricted our review to instruments that primarily observe terrestrial landscapes or coastal margins and are available under free and open data policies. We focused on imagers that passively measure wavelengths in the reflected solar and emitted thermal spectrum. The suite of instruments we describe measure land surface characteristics, including land cover, but provide a more detailed monitoring of ecosystems, plant communities, and even some species then possible from historic sensors. The newer instruments have potential to greatly improve our understanding of ecosystem functional relationships among plant traits like leaf mass area (LMA), total nitrogen content, and leaf area index (LAI). They provide new information on physiological processes related to photosynthesis, transpiration and respiration, and stress detection, including capabilities to measure key plant and soil biophysical properties. These include canopy and soil temperature and emissivity, chlorophyll fluorescence, and biogeochemical contents like photosynthetic pigments (e.g., chlorophylls, carotenoids, and phycobiliproteins from cyanobacteria), water, cellulose, lignin, and nitrogen in foliar proteins. These data will enable us to quantify and characterize various soil properties such as iron content, several types of soil clays, organic matter, and other components. Most of these satellites are in low Earth orbit (LEO), but we include a few in geostationary orbit (GEO) because of their potential to measure plant physiological traits over diurnal periods, improving estimates of water and carbon budgets. We also include a few spaceborne active LiDAR and radar imagers designed for quantifying surface topography, changes in surface structure, and 3-dimensional canopy properties such as height, area, vertical profiles, and gap structure. We provide a description of each instrument and tables to summarize their characteristics. Lastly, we suggest instrument synergies that are likely to yield improved results when data are combined.
The FLuorescence EXplorer (FLEX) satellite mission, selected as ESA's 8th Earth Explorer, has been designed for the measurement of sun-induced fluorescence (F) spectra emitted by plants. This will be ...accomplished through a multi-sensor approach by placing it in a common orbit in tandem with the Sentinel-3 (S3) mission, which will have two optical sensors on board, OLCI (Ocean and Land Colour Instrument) and SLSTR (Sea and Land Surface Temperature Radiometer) to complement FLEX. These S3 instruments will be used in combination with the imaging spectrometers on board FLEX to provide data useful for atmospheric correction of FLEX data. However, a fully synergetic approach, i.e. by exploiting the spectral and directional information from all tandem mission instruments together, is an attractive alternative which is explored in this paper. By employing all combined top-of-atmosphere (TOA) spectral radiance data, one can (i) characterize the relevant optical properties of the atmosphere, (ii) retrieve biophysical canopy properties including the associated reflectance anisotropy, and (iii) retrieve a more accurate and consistent canopy F.
Regarding retrieval methods, Fraunhofer Line Depth (FLD) and Spectral Fitting (SF) are well-known techniques applied to hyperspectral data. Both methods depend on a high spectral resolution and assume a Lambertian (isotropic) canopy reflectance. However, most vegetation canopies are non-Lambertian. This implies that, in particular when ignoring the anisotropic surface reflection, substantial retrieval errors can occur due to the interaction between atmospheric absorption bands and surface reflectance anisotropy. In this paper, a novel method based on spectral radiative transfer (RT) modeling is proposed, in which coupled RT models are used to simulate TOA radiance spectra. These are then matched with ‘measured’ spectra in order to retrieve surface fluorescence, along with a suite of biophysical parameters, by model inversion through optimization. By applying coupled RT models of the soil-leaf-canopy and the surface-atmosphere systems, TOA radiance spectra can be simulated for all optical sensors of this tandem mission. In this way, complex effects due to surface reflectance anisotropy and the spectral sampling by the various instruments, which are difficult to compensate for in the end products, are properly taken into account by their incorporation in the forward modeling. Next, by model inversion of TOA radiance data via optimization, the most accurate F retrievals can be achieved in a consistent manner, along with important canopy level biophysical parameters that may help interpret the F spectrum, such as chlorophyll content and leaf area index (LAI). The potential of this approach has been explored in a numerical experiment, and the results are presented in this paper. We find that, with the assumed well-characterized and plausible FLEX/S3 instrument performances, the simultaneous retrieval of biophysical canopy parameters and F spectra would be possible with a remarkable accuracy, provided the correct atmospheric characterization is available.
•Biophysical parameters and SIF simultaneously retrieved.•TOA radiance approach through coupled soil-canopy-atmosphere RT modeling•FLEX/S3 multi-sensor approach combines spectra from 5 optical sensors.•RT models applied include SCOPE, Fluspect, GSV and MODTRAN5.•SIF spectra retrieved by optimization with accuracy higher than required.
In 2007, the NASA Hyperspectral InfraRed Imager (HyspIRI) mission was recommended in Earth Science and Applications from Space: National Imperatives for the Next Decade and Beyond (Decadal Survey) to ...address critical science questions in multiple areas, in particular ecosystems and natural hazards. HyspIRI is comprised of two instruments, a visible to short-wavelength infrared (VSWIR) imaging spectrometer and a thermal infrared (TIR) multispectral imager, together with an Intelligent Payload Module (IPM) for onboard processing and rapid downlink of selected data. The VSWIR instrument will have 10nm contiguous bands and cover the 380–2500nm spectral range with 30m spatial resolution and a revisit of 16days. The TIR instrument will have 8 discrete bands in the 4–13μm range with 60m spatial resolution and a revisit of 5days. With these two instruments in low Earth orbit, HyspIRI will be able to address key science and applications questions in a wide array of fields, ranging from ecosystem function and diversity to human health and urbanization.
Display omitted
•The HyspIRI mission was recommended in the 2007 Earth Science Decadal Survey.•HyspIRI would have 2 instruments: a VSWIR imaging spectrometer and a multiband TIR.•Global coverage, frequent revisits (5–16days), good spatial resolution (30–60m)•HyspIRI addresses unique and urgent Earth science and applications objectives.
Abstract Background & Aims We assessed the diagnostic performance of magnetic resonance imaging (MRI) proton density fat fraction (PDFF) in grading hepatic steatosis and change in hepatic steatosis ...in adults with nonalcoholic steatohepatitis (NASH) in a multi-center study, using central histology as reference. Methods We collected data from 113 adults with NASH participating in a multi-center, randomized, double-masked, placebo-controlled, phase 2b trial to compare the efficacy cross-sectionally and longitudinally of obeticholic acid vs placebo. Hepatic steatosis was assessed at baseline and after 72 weeks of obeticholic acid or placebo by liver biopsy and MRI (scanners from different manufacturers, at 1.5T or 3T). We compared steatosis estimates by PDFF vs histology. Histologic steatosis grade was scored in consensus by a pathology committee. Cross-validated receiver operating characteristic (ROC) analyses were performed. Results At baseline, 34% of subjects had steatosis grade 0 or 1, 39% had steatosis grade 2, and 27% had steatosis grade 3; corresponding mean PDFF values were 9.8%±3.7%, 18.1%±4.3%, and 30.1%±8.1%. PDFF classified steatosis grade 0–1 vs 2–3 with an area under the ROC curve (AUROC) of 0.95 (95% CI, 0.91–0.98), and grade 0–2 vs grade 3 steatosis with an AUROC of 0.96 (95% CI, 0.93–0.99). PDFF cut-off values at 90% specificity were 16.3% for grades 2–3 and 21.7% for grade 3, with corresponding sensitivities of 83% and 84%. After 72 weeks' of obeticholic vs. placebo, 42% of subjects had a reduced steatosis grade (mean reduction in PDFF from baseline of 7.4%±8.7%), 49% had no change in steatosis grade (mean increase in PDFF from baseline of 0.3%±6.3%), and 9% had an increased steatosis grade (mean increase in PDFF from baseline of 7.7%±6.0%). PDFF change identified subjects with reduced steatosis grade with an AUROC of 0.81 (95% CI, 0.71–0.91) and increased steatosis grade with an AUROC of 0.81 (95% CI, 0.63–0.99). A PDFF reduction of 5.15% identified subjects with reduced steatosis grade with 90% specificity and 58% sensitivity, whereas a PDFF increase of 5.6% identified those with increased steatosis grade with 90% specificity and 57% sensitivity. Conclusions Based on data from a phase 2 randomized controlled trial of adults with NASH, PDFF estimated by MRI scanners of different field strength and at different sites, accurately classifies grades and changes in hepatic steatosis when histologic analysis of biopsies is used as a reference.
Global satellite measurements of solar-induced fluorescence (SIF) from chlorophyll over land and ocean have proven useful for a number of different applications related to physiology, phenology, and ...productivity of plants and phytoplankton. Terrestrial chlorophyll fluorescence is emitted throughout the red and far-red spectrum, producing two broad peaks near 683 and 736nm. From ocean surfaces, phytoplankton fluorescence emissions are entirely from the red region (683nm peak). Studies using satellite-derived SIF over land have focused almost exclusively on measurements in the far red (wavelengths greater than 712nm), since those are the most easily obtained with existing instrumentation. Here, we examine new ways to use existing hyperspectral satellite data sets to retrieve red SIF (wavelengths less than 712nm) over both land and ocean. Red SIF is thought to provide complementary information to that from the far red for terrestrial vegetation. The satellite instruments that we use were designed to make atmospheric trace-gas measurements and are therefore not optimal for observing SIF; they have coarse spatial resolution and only moderate spectral resolution (0.5nm). Nevertheless, these instruments, the Global Ozone Monitoring Instrument 2 (GOME-2) and the SCanning Imaging Absorption spectroMeter for Atmospheric CHartographY (SCIAMACHY), offer a unique opportunity to compare red and far-red terrestrial SIF at regional spatial scales. Terrestrial SIF has been estimated with ground-, aircraft-, or satellite-based instruments by measuring the filling-in of atmospheric andor solar absorption spectral features by SIF. Our approach makes use of the oxygen (O2) gamma band that is not affected by SIF. The SIF-free O2 gamma band helps to estimate absorption within the spectrally variable O2 B band, which is filled in by red SIF. SIF also fills in the spectrally stable solar Fraunhofer lines (SFLs) at wavelengths both inside and just outside the O2 B band, which further helps to estimate red SIF emission. Our approach is then an extension of previous approaches applied to satellite data that utilized only the filling-in of SFLs by red SIF. We conducted retrievals of red SIF using an extensive database of simulated radiances covering a wide range of conditions. Our new algorithm produces good agreement between the simulated truth and retrievals and shows the potential of the O2 bands for noise reduction in red SIF retrievals as compared with approaches that rely solely on SFL filling. Biases seen with existing satellite data, most likely due to instrumental artifacts that vary in time, space, and with instrument, must be addressed in order to obtain reasonable results. Our 8-year record of red SIF observations over land with the GOME-2 allows for the first time reliable global mapping of monthly anomalies. These anomalies are shown to have similar spatiotemporal structure as those in the far red, particularly for drought-prone regions. There is a somewhat larger percentage response in the red as compared with the far red for these areas that are drought sensitive. We also demonstrate that good-quality ocean fluorescence line height retrievals can be achieved with GOME-2, SCIAMACHY, and similar instruments by utilizing the full complement of radiance measurements that span the red SIF emission feature.
The combination of LiDAR and optical remotely sensed data provides unique information about ecosystem structure and function. Here, we describe the development, validation and application of a new ...airborne system that integrates commercial off the shelf LiDAR hyperspectral and thermal components in a compact, lightweight and portable system. Goddard’s LiDAR, Hyperspectral and Thermal (G-LiHT) airborne imager is a unique system that permits simultaneous measurements of vegetation structure, foliar spectra and surface temperatures at very high spatial resolution (~1 m) on a wide range of airborne platforms. The complementary nature of LiDAR, optical and thermal data provide an analytical framework for the development of new algorithms to map plant species composition, plant functional types, biodiversity, biomass and carbon stocks, and plant growth. In addition, G-LiHT data enhance our ability to validate data from existing satellite missions and support NASA Earth Science research. G-LiHT’s data processing and distribution system is designed to give scientists open access to both low- and high-level data products (http://gliht.gsfc.nasa.gov), which will stimulate the community development of synergistic data fusion algorithms. G-LiHT has been used to collect more than 6,500 km2 of data for NASA-sponsored studies across a broad range of ecoregions in the USA and Mexico. In this paper, we document G-LiHT design considerations, physical specifications, instrument performance and calibration and acquisition parameters. In addition, we describe the data processing system and higher-level data products that are freely distributed under NASA’s Data and Information policy.
Global change experiments are often spatially and temporally limited because they are time-and labor-intensive, and expensive to carry out. We describe how the incorporation of remote-sensing ...techniques into global change experiments can complement traditional methods and provide additional information about system processes. We describe five emerging near-surface remote-sensing techniques: spectroscopy, thermal and fluorescence imaging, terrestrial laser scanning, digital repeat photography, and unmanned aerial systems. The addition of such techniques can reduce cost and effort, provide novel information, and expand existing observations by improving their context, accuracy, and completeness. In addition, we contend that use of airborne and satellite remote-sensing data during site selection can improve the ecological representativeness of future experiments. We conclude by recommending a high level of communication and collaboration between remote-sensing scientists and ecologists at all stages of global change experimentation.
Sun-induced chlorophyll fluorescence (SIF) has been used to track vegetation photosynthetic activity for improving estimation of gross primary productivity (GPP) and detecting plant stress. There are ...both physical and physiological controls of SIF measured at the surface and retrieved from remote sensing including satellite observations. In order to accurately use SIF for monitoring of plant physiology, the effects of physically-based radiation processes related to leaf and canopy structure, notably photosynthetically active radiation (PAR) absorption and SIF scattering and re-absorption, must be characterized. In this study, we investigate both PAR absorption and SIF scattering processes and find that although it is difficult to quantify their effects individually by using just reflectance, the combined effects of the two processes can be well approximated by a reflectance index. This index, referred to as FCVI (Fluorescence Correction Vegetation Index), is defined as the difference between near-infrared (NIR) and broad-band visible (VIS, 400–700 nm) reflectance acquired under identical sun-canopy-observer geometry of the SIF measurements. The development of the index was based on the physical connection between reflectance and far-red SIF, which was revealed by using the spectral invariant theory. The utility of FCVI to correct far-red SIF for PAR absorption and scattering effects, thus improving the link to photosynthesis, was tested with data from: (i) a field experiment for a growing season; and (ii) a numerical experiment which included a number of scenarios generated by a radiative transfer model. For both the observations and simulations, the FCVI provided a promising estimate of the impact of the physically-based radiation processes on far-red SIF of moderately dense canopies (i.e., FCVI ≥ 0.18). Normalizing the TOC far-red SIF by both the incident PAR (iPAR) and the FCVI provided a good estimate of the far-red fluorescence emission efficiency of the canopies examined. This approach enhances our ability to generalize retrievals for vegetation processes as they change through natural growth phases and seasons. Taken together, far-red SIF and FCVI may enable the assessment of the light partitioning of vegetation canopies, an essential step to facilitate the use of far-red SIF for tracking physiological processes.
•We propose an index (FCVI) for the effects of physical processes on far-red SIF.•FCVI is the difference between near-infrared and broadband visible reflectance.•Normalizing SIF by FCVI and PAR is an estimate of fluorescence emission efficiency.•FCVI was tested with a field measurement and a numerical experiment.
In November 2015, the FLuorescence EXplorer (FLEX) was selected as the eighth Earth Explorer mission of the European Space Agency. The tandem mission concept will provide measurements at a spectral ...and spatial resolution enabling the retrieval and interpretation of the full chlorophyll fluorescence spectrum emitted by the terrestrial vegetation. This paper provides a mission concept overview of the scientific goals, the key objectives related to fluorescence, and the requirements guaranteeing the fitness for purpose of the resulting scientific data set. We present the mission design at the time of selection, i.e., at the end of project phase Phase A/B1, as developed by two independent industrial consortia. The mission concepts both rely on a single payload Fluorescence Imaging Spectrometer, covering the spectral range from 500 to 780 nm. In the oxygen absorption bands, its spectral resolution will be 0.3 nm with a spectral sampling interval of 0.1 nm. The swath width of the spectrometer is 150 km and the spatial resolution will be 300 × 300 m -2 . The satellite will fly in tandem with Sentinel-3 providing different and complementary measurements with a temporal collocation of 6 to 15 s. The FLEX launch is scheduled for 2022.
PDF
