Remotely sensed top-of-the-canopy (TOC) SIF is highly impacted by non-physiological structural and environmental factors that are confounding the photosystems' emitted SIF signal. Our proposed method for scaling TOC SIF down to photosystems' (PSI and PSII) level uses a three-dimensional (3D) modeling approach, capable of accounting physically for the main confounding factors, i.e., SIF scattering and reabsorption within a leaf, by canopy structures, and by the soil beneath. Here, we propose a novel SIF downscaling method that separates the structural component from the functional physiological component of TOC SIF signal by using the 3D Discrete Anisotropic Radiative Transfer (DART) model coupled with the leaf-level fluorescence model Fluspect-CX, and estimates the Fluorescence Quantum Efficiency (FQE) at photosystem level. The method was first applied on in- situ diurnal measurements acquired at the top of the canopy of an alfalfa crop with a near-distance point- measuring FloX system. The retrieved photosystem-level FQE diurnal courses correlated significantly with photosynthetic yield of PSII measured by an active leaf florescence instrument MiniPAM (R = 0.87, R2 = 0.76 before and R =-0.82, R2 = 0.67 after 2.00 pm local time). Diurnal FQE trends of both photosystems jointly were descending from late morning 9.00 am till afternoon 4.00 pm. A slight late-afternoon increase, observed for three days between 4.00 and 7.00 pm, could be attributed to an increase in FQE of PSI that was retrieved separately from PSII. The method was subsequently extended and applied to airborne SIF images acquired with the HyPlant imaging spectrometer over the same alfalfa field. While the input canopy SIF radiance computed by two different methods, i) a spectral fitting method (SFM) and ii) a spectral fitting method neural network (SFMNN), produce broad and irregularly shaped (skewed) histograms (spatial coefficients of variation: CV = 29-35 % and 14-20 %, respectively), the retrieved HyPlant per-pixel FQE estimates formed significantly narrower and regularly bell- shaped near-Gaussian histograms (CV = 27-34 % and 14-17 %, respectively). The achieved spatial homogeneity of resulting FQE maps confirms successful removal of the TOC SIF radiance confounding impacts. Since our method is based on direct matching of measured and physically modelled canopy SIF radiance, simulated by 3D radiative transfer, it is versatile and transferable to other canopy architectures, including structurally complex canopies such as forest stands.

The vegetation and ecosystem in the source region of the Yangtze River and the Yellow River (SRYY) are fragile. Affected by climate change, extreme droughts are frequent and permafrost degradation is serious in this area. It is very important to quantify the drought-vegetation interaction in this area under the influence of climate-permafrost coupling. In this study, based on the saturated vapor pressure deficit (VPD) and soil moisture (SM) that characterize atmospheric and soil drought, as well as the Normalized Differential Vegetation Index (NDVI) and solar-induced fluorescence (SIF) that characterize vegetation greenness and function, the evolution of regional vegetation productivity and drought were systematically identified. On this basis, the technical advantages of the causal discovery algorithm Peter-Clark Momentary Conditional Independence (PCMCI) were applied to distinguish the response of vegetation to VPD and SM. Furthermore, this study delves into the response mechanisms of NDVI and SIF to atmospheric and soil drought, considering different vegetation types and permafrost degradation areas. The findings indicated that low SM and high VPD were the limiting factors for vegetation growth. The positive and negative causal effects of VPD on NDVI accounted for 47.88% and 52.12% of the total area, respectively. Shrubs were the most sensitive to SM, and the response speed of grassland to SM was faster than that of forest land. The impact of SM on vegetation in the SRYY was stronger than that of VPD, and the effect in the frozen soil degradation area was more obvious. The average causal effects of NDVI and SIF on SM in the frozen soil degradation area were 0.21 and 0.41, respectively, which were twice as high as those in the whole area, and SM dominated NDVI (SIF) changes in 62.87% (76.60%) of the frozen soil degradation area. The research results can provide important scientific basis and theoretical support for the scientific assessment and adaptation of permafrost, vegetation, and climate change in the source area and provide reference for ecological protection in permafrost regions.

Recent efforts have been made to monitor the seasonal metrics of plant canopy variations globally from space, using optical remote sensing. However, phenological estimations based on vegetation indices (VIs) in high-latitude regions such as the pan-Arctic remain challenging and are rarely validated. Nevertheless, pan-Arctic ecosystems are vulnerable and also crucial in the context of climate change. We reported the limitations and challenges of using MODerate-resolution Imaging Spectroradiometer (MODIS) measurements, a widely exploited set of satellite measurements, to estimate phenological transition dates in pan-Arctic regions. Four indices including normalized vegetation difference index (NDVI), enhanced vegetation index (EVI), phenology index (PI), plant phenological index (PPI) and a MODIS Land Cover Dynamics Product MCD12Q2, were evaluated and compared against eddy covariance (EC) estimates at 11 flux sites of 102 site-years during the period from 2000 to 2014. All the indices were influenced by snow cover and soil moisture during the transition dates. While relationships existed between VI-based and EC-estimated phenological transition dates, the R-2 values were generally low (0.01-0.68). Among the VIs, PPI-estimated metrics showed an inter-annual pattern that was mostly closely related to the EC-based estimations. Thus, further studies are needed to develop region-specific indices to provide more reliable estimates of phenological transition dates.