High-throughput phenotyping of plant leaf morphological, physiological, and biochemical traits on multiple scales using optical sensing

Acquisition of plant phenotypic information facilitates plant breeding, sheds light on gene action, and can be applied to optimize the quality of agricultural and forestry products. Because leaves often show the fastest responses to external environmental stimuli, leaf phenotypic traits are indicators of plant growth, health, and stress levels. Combination of new imaging sensors, image processing, and data analytics permits measurement over the full life span of plants at high temporal resolution and at several organizational levels from organs to individual plants to field populations of plants. We review the optical sensors and associated data analytics used for measuring morphological, physiological, and biochemical traits of plant leaves on multiple scales. We summarize the characteristics, advantages and limitations of optical sensing and data-processing methods applied in various plant phenotyping scenarios. Finally, we discuss the future prospects of plant leaf phenotyping research. This review aims to help researchers choose appropriate optical sensors and data processing methods to acquire plant leaf phenotypes rapidly, accurately, and cost-effectively

Hyperspectral Imaging for Fine to Medium Scale Applications in Environmental Sciences

The aim of the Special Issue “Hyperspectral Imaging for Fine to Medium Scale Applications in Environmental Sciences” was to present a selection of innovative studies using hyperspectral imaging (HSI) in different thematic fields. This intention reflects the technical developments in the last three decades, which have brought the capacity of HSI to provide spectrally, spatially and temporally detailed data, favoured by e.g., hyperspectral snapshot technologies, miniaturized hyperspectral sensors and hyperspectral microscopy imaging. The present book comprises a suite of papers in various fields of environmental sciences—geology/mineral exploration, digital soil mapping, mapping and characterization of vegetation, and sensing of water bodies (including under-ice and underwater applications). In addition, there are two rather methodically/technically-oriented contributions dealing with the optimized processing of UAV data and on the design and test of a multi-channel optical receiver for ground-based applications. All in all, this compilation documents that HSI is a multi-faceted research topic and will remain so in the future

Modeling grassland productivity through remote sensing products

Mixed grasslands in south Canada serve a variety of economic, environmental and ecological purposes. Numerical modeling has become a major method used to identify potential grassland ecosystem responses to environment changes and human activities. In recent years, the focus has been on process models because of their high accuracy and ability to describe the interactions among different environmental components and the ecological processes. At present, two commonly-used process models (CENTURY and BIOME-BGC) have significantly improved our understanding of the possible consequences and responses of terrestrial ecosystems under different environmental conditions. However, problems with these models include only using site-based parameters and adopting different assumptions on interactions between plant, environmental conditions and human activities in simulating such complex phenomenon. In light of this shortfall, the overall objective of this research is to integrate remote sensing products into ecosystem process model in order to simulate productivity for the mixed grassland ecosystem in the landscape level. Data used includes 4-years of field measurements and diverse satellite data (System Pour l’Observation de la Terre (SPOT) 4 and 5, Landsat TM and ETM, Advanced Very High Resolution Radiometer (AVHRR) imagery). Using wavelet analyses, the study first detects that the dominant spatial scale is controlled by topography and thus determines that 20-30 m is the optimum resolution to capture the vegetation spatial variation for the study area. Second, the performance of the RDVI (Renormalized Difference Vegetation Index), ATSAVI (Adjusted Transformed Soil-Adjusted Vegetation Index), and MCARI2 (Modified Chlorophyll Absorption Ratio Index 2) are slightly better than the other VIs in the groups of ratio-based, soil-line-related, and chlorophyll-corrected VIs, respectively. By incorporating CAI (Cellulose Absorption Index) as a litter factor in ATSAVI, a new VI is developed (L-ATSAVI) and it improves LAI estimation capability by about 10%. Third, vegetation maps are derived from a SPOT 4 image based on the significant relationship between LAI and ATSAVI to aid spatial modeling. Fourth, object-oriented classifier is determined as the best approach, providing ecosystem models with an accurate land cover map. Fifth, the phenology parameters are identified for the study area using 22-year AVHRR data, providing the input variables for spatial modeling. Finally, the performance of popular ecosystem models in simulating grassland vegetation productivity is evaluated using site-based field data, AVHRR NDVI data, and climate data. A new model frame, which integrates remote sensing data with site-based BIOME-BGC model, is developed for the mixed grassland prairie. The developed remote sensing-based process model is able to simulate ecosystem processes at the landscape level and can simulate productivity distribution with 71% accuracy for 2005

The global tree carrying capacity (keynote)

editorial reviewe

Remote Sensing in Mangroves

The book highlights recent advancements in the mapping and monitoring of mangrove forests using earth observation satellite data. New and historical satellite data and aerial photographs have been used to map the extent, change and bio-physical parameters, such as phenology and biomass. Research was conducted in different parts of the world. Knowledge and understanding gained from this book can be used for the sustainable management of mangrove forests of the worl

Evaluation of Point Hyperspectral Reflectance and Multivariate Regression Models for Grapevine Water Status Estimation

Publishe

A multiscale remote sensing assessment of subtropical indigenous forests along the wild coast, South Africa

The subtropical forests located along South Africa’s Wild Coast region, declared as one of the biodiversity hotspots, provide benefits to the local and national economy. However, there is evidence of increased pressure exerted on the forests by growing population and reduced income from activities not related to forest products. The ability of remote sensing to quantify subtropical forest changes over time, perform species discrimination (using field spectroscopy) and integrating field spectral and multispectral data were all assessed in this study. Investigations were conducted at pixel, leaf and sub-pixel levels. Both per-pixel and sub-pixel classification methods were used for improved forest characterisation. Using SPOT 6 imagery for 2013, the study determined the best classification algorithm for mapping sub-tropical forest and other land cover types to be the maximum likelihood classifier. Maximum likelihood outperformed minimum distance, spectral angle mapper and spectral information divergence algorithms, based on overall accuracy and Kappa coefficient values. Forest change analysis was made based on spectral measurements made at top of the atmosphere (TOC) level. When applied to the 2005 and 2009 SPOT 5 images, subtropical forest changes between 2005-2009 and 2009-2013 were quantified. A temporal analysis of forest cover trends in the periods 2005-2009 and 2009-2013 identified a decreasing trend of -3648.42 and -946.98 ha respectively, which translated to 7.81 percent and 2.20 percent decrease. Although there is evidence of a trend towards decreased rates of forest loss, more conservation efforts are required to protect the Wild Coast ecosystem. Using field spectral measurements data, the hierarchical method (comprising One-way ANOVA with Bonferroni correction, Classification and Regression Trees (CART) and Jeffries Matusita method) successfully selected optimal wavelengths for species discrimination at leaf level. Only 17 out of 2150 wavelengths were identified, thereby reducing the complexities related to data dimensionality. The optimal 17 wavelength bands were noted in the visible (438, 442, 512 and 695 nm), near infrared (724, 729, 750, 758, 856, 936, 1179, 1507 and 1673 nm) and mid-infrared (2220, 2465, 2469 and 2482 nm) portions of the electromagnetic spectrum. The Jeffries-Matusita (JM) distance method confirmed the separability of the selected wavelength bands. Using these 17 wavelengths, linear discriminant analysis (LDA) classified subtropical species at leaf level more accurately than partial least squares discriminant analysis (PLSDA) and random forest (RF). In addition, the study integrated field-collected canopy spectral and multispectral data to discriminate proportions of semi-deciduous and evergreen subtropical forests at sub-pixel level. By using the 2013 land cover (using MLC) to mask non-forested portions before sub-pixel classification (using MTMF), the proportional maps were a product of two classifiers. The proportional maps show higher proportions of evergreen forests along the coast while semi-deciduous subtropical forest species were mainly on inland parts of the Wild Coast. These maps had high accuracy, thereby proving the ability of an integration of field spectral and multispectral data in mapping semi-deciduous and evergreen forest species. Overall, the study has demonstrated the importance of the MLC and LDA and served to integrate field spectral and multispectral data in subtropical forest characterisation at both leaf and top-of-atmosphere levels. The success of both the MLC and LDA further highlighted how essential parametric classifiers are in remote sensing forestry applications. Main subtropical characteristics highlighted in this study were species discrimination at leaf level, quantifying forest change at pixel level and discriminating semi-deciduous and evergreen forests at sub-pixel level

Investigation of Coastal Vegetation Dynamics and Persistence in Response to Hydrologic and Climatic Events Using Remote Sensing

Coastal Wetlands (CW) provide numerous imperative functions and provide an economic base for human societies. Therefore, it is imperative to track and quantify both short and long-term changes in these systems. In this dissertation, CW dynamics related to hydro-meteorological signals were investigated using a series of LANDSAT-derived normalized difference vegetation index (NDVI) data and hydro-meteorological time-series data in Apalachicola Bay, Florida, from 1984 to 2015. NDVI in forested wetlands exhibited more persistence compared to that for scrub and emergent wetlands. NDVI fluctuations generally lagged temperature by approximately three months, and water level by approximately two months. This analysis provided insight into long-term CW dynamics in the Northern Gulf of Mexico. Long-term studies like this are dependent on optical remote sensing data such as Landsat which is frequently partially obscured due to clouds and this can that makes the time-series sparse and unusable during meteorologically active seasons. Therefore, a multi-sensor, virtual constellation method is proposed and demonstrated to recover the information lost due to cloud cover. This method, named Tri-Sensor Fusion (TSF), produces a simulated constellation for NDVI by integrating data from three compatible satellite sensors. The visible and near-infrared (VNIR) bands of Landsat-8 (L8), Sentinel-2, and the Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) were utilized to map NDVI and to compensate each satellite sensor\u27s shortcomings in visible coverage area. The quantitative comparison results showed a Root Mean Squared Error (RMSE) and Coefficient of Determination (R2) of 0.0020 sr-1 and 0.88, respectively between true observed and fused L8 NDVI. Statistical test results and qualitative performance evaluation suggest that TSF was able to synthesize the missing pixels accurately in terms of the absolute magnitude of NDVI. The fusion improved the spatial coverage of CWs reasonably well and ultimately increases the continuity of NDVI data for long term studies

Better together: Integrating and fusing multispectral and radar satellite imagery to inform biodiversity monitoring, ecological research and conservation science

1. The availability and accessibility of multispectral and radar satellite remote sensing (SRS) imagery are at an unprecedented high. These data have both become standard source of information for investigating species ecology and ecosystems structure, composition and function at large scales. Since they capture complementary aspects of the Earth's surface, synergies between these two types of imagery have the potential to greatly expand research and monitoring opportunities. However, despite the benefits of combining multispectral and radar SRS data, data fusion techniques, including image fusion, are not commonly used in biodiversity monitoring, ecology and conservation. / 2. To help close this application gap, we provide for the first time an overview of the most common SRS data fusion techniques, discussing their benefits and drawbacks, and pull together case studies illustrating the added value for biodiversity research and monitoring. / 3. Integrating and fusing multispectral and radar images can significantly improve our ability to assess the distribution as well as the horizontal and vertical structure of ecosystems. Additionally, SRS data fusion has the potential to increase opportunities for mapping species distribution and community composition, as well as for monitoring threats to biodiversity. Uptake of these techniques will benefit from more effective collaboration between remote sensing and biodiversity experts, making the reporting of methodologies more transparent, expanding SRS image processing capacity and promoting widespread open access to satellite imagery. / 4. In the context of a global biodiversity crisis, being able to track subtle changes in the biosphere across adequate spatial and temporal extents and resolutions is crucial. By making key parameter estimates derived from SRS data more accurate, SRS data fusion promises to become a powerful tool to help address current monitoring needs, and could support the development of essential biodiversity variables

Remote sensing drought impacts on wetland vegetation productivity at the Soetendalsvlei in the Heuningnes Catchment, South Africa

>Magister Scientiae - MScThis work aimed at assessing the response of wetland vegetation productivity to the 2014-2017 climate-induced drought at the Soetendalsvlei wetland system in the Western Cape province of South Africa. To achieve this objective, firstly a literature review on the progress of remotely sensed data applications in assessing and monitoring wetland vegetation productivity was conducted. The review elaborates on the role of remote sensing in monitoring and assessing wetland vegetation productivity, with a detailed discussion of the climate change and variability impacts on wetland vegetation productivity. Accurate assessment results are produced when suitable processing techniques are selected as well as appropriate spatial and spectral resolution for extracting spectral information of wetland vegetation productivity. Secondly, wetland vegetation changes and productivity status was assessed using multi-temporal resolution Landsat series imagery and Normalized Difference Vegetation Index (NDVI) during the wet and dry seasons for the period between 2014 and 2018