Using a Remote Sensing-Supported Hydro-Agroecological Model for Field-Scale Simulation of Heterogeneous Crop Growth and Yield: Application for Wheat in Central Europe

The challenge of converting global agricultural food, fiber and energy crop cultivation into an ecologically and economically sustainable production process requires the most efficient agricultural management strategies. Development, control and maintenance of these strategies are highly dependent on temporally and spatially continuous information on crop status at the field scale. This paper introduces the application of a process-based, coupled hydro-agroecological model (PROMET) for the simulation of temporally and spatially dynamic crop growth on agriculturally managed fields. By assimilating optical remote sensing data into the model, the simulation of spatial crop dynamics is improved to a point where site-specific farming measures can be supported. Radiative transfer modeling (SLC) is used to provide maps of leaf area index from Earth Observation (EO). These maps are used in an assimilation scheme that selects closest matches between EO and PROMET ensemble runs. Validation is provided for winter wheat (years 2004, 2010 and 2011). Field samples validate the temporal dynamics of the simulations (avg. R-2 = 0.93) and > 700 ha of calibrated combine harvester data are used for accuracy assessment of the spatial yield simulations (avg. RMSE = 1.15 t center dot ha(-1)). The study shows that precise simulation of field-scale crop growth and yield is possible, if spatial remotely sensed information is combined with temporal dynamics provided by land surface process models. The presented methodology represents a technical solution to make the best possible use of the growing stream of EO data in the context of sustainable land surface management

Using a Remote Sensing-Supported Hydro-Agroecological Model for Field-Scale Simulation of Heterogeneous Crop Growth and Yield: Application for Wheat in Central Europe

The challenge of converting global agricultural food, fiber and energy crop cultivation into an ecologically and economically sustainable production process requires the most efficient agricultural management strategies. Development, control and maintenance of these strategies are highly dependent on temporally and spatially continuous information on crop status at the field scale. This paper introduces the application of a process-based, coupled hydro-agroecological model (PROMET) for the simulation of temporally and spatially dynamic crop growth on agriculturally managed fields. By assimilating optical remote sensing data into the model, the simulation of spatial crop dynamics is improved to a point where site-specific farming measures can be supported. Radiative transfer modeling (SLC) is used to provide maps of leaf area index from Earth Observation (EO). These maps are used in an assimilation scheme that selects closest matches between EO and PROMET ensemble runs. Validation is provided for winter wheat (years 2004, 2010 and 2011). Field samples validate the temporal dynamics of the simulations (avg. R-2 = 0.93) and > 700 ha of calibrated combine harvester data are used for accuracy assessment of the spatial yield simulations (avg. RMSE = 1.15 t center dot ha(-1)). The study shows that precise simulation of field-scale crop growth and yield is possible, if spatial remotely sensed information is combined with temporal dynamics provided by land surface process models. The presented methodology represents a technical solution to make the best possible use of the growing stream of EO data in the context of sustainable land surface management

Calibration of DART Radiative Transfer Model with Satellite Images for Simulating Albedo and Thermal Irradiance Images and 3D Radiative Budget of Urban Environment

Remote sensing is increasingly used for managing urban environment. In this context, the H2020 project URBANFLUXES aims to improve our knowledge on urban anthropogenic heat fluxes, with the specific study of three cities: London, Basel and Heraklion. Usually, one expects to derive directly 2 major urban parameters from remote sensing: the albedo and thermal irradiance. However, the determination of these two parameters is seriously hampered by complexity of urban architecture. For example, urban reflectance and brightness temperature are far from isotropic and are spatially heterogeneous. Hence, radiative transfer models that consider the complexity of urban architecture when simulating remote sensing signals are essential tools. Even for these sophisticated models, there is a major constraint for an operational use of remote sensing: the complex 3D distribution of optical properties and temperatures in urban environments. Here, the work is conducted with the DART (Discrete Anisotropic Radiative Transfer) model. It is a comprehensive physically based 3D radiative transfer model that simulates optical signals at the entrance of imaging spectro-radiometers and LiDAR scanners on board of satellites and airplanes, as well as the 3D radiative budget, of urban and natural landscapes for any experimental (atmosphere, topography,…) and instrumental (sensor altitude, spatial resolution, UV to thermal infrared,…) configuration. Paul Sabatier University distributes free licenses for research activities. This paper presents the calibration of DART model with high spatial resolution satellite images (Landsat 8, Sentinel 2, etc.) that are acquired in the visible (VIS) / near infrared (NIR) domain and in the thermal infrared (TIR) domain. Here, the work is conducted with an atmospherically corrected Landsat 8 image and Bale city, with its urban database. The calibration approach in the VIS/IR domain encompasses 5 steps for computing the 2D distribution (image) of urban albedo at satellite spatial resolution. (1) DART simulation of satellite image at very high spatial resolution (e.g., 50cm) per satellite spectral band. Atmosphere conditions are specific to the satellite image acquisition. (2) Spatial resampling of DART image at the coarser spatial resolution of the available satellite image, per spectral band. (3) Iterative derivation of the urban surfaces (roofs, walls, streets, vegetation,…) optical properties as derived from pixel-wise comparison of DART and satellite images, independently per spectral band. (4) Computation of the band albedo image of the city, per spectral band. (5) Computation of the image of the city albedo and VIS/NIR exitance, as an integral over all satellite spectral bands. In order to get a time series of albedo and VIS/NIR exitance, even in the absence of satellite images, ECMWF information about local irradiance and atmosphere conditions are used. A similar approach is used for calculating the city thermal exitance using satellite images acquired in the thermal infrared domain. Finally, DART simulations that are conducted with the optical properties derived from remote sensing images give also the 3D radiative budget of the city at any date including the date of the satellite image acquisition

Knowledge-Based Classification of Grassland Ecosystem Based on Multi-Temporal WorldView-2 Data and FAO-LCCS Taxonomy

Grassland ecosystems can provide a variety of services for humans, such as carbon storage, food production, crop pollination and pest regulation. However, grasslands are today one of the most endangered ecosystems due to land use change, agricultural intensification, land abandonment as well as climate change. The present study explores the performance of a knowledge-driven GEOgraphic-Object—based Image Analysis (GEOBIA) learning scheme to classify Very High Resolution(VHR)imagesfornaturalgrasslandecosystemmapping. Theclassificationwasappliedto a Natura 2000 protected area in Southern Italy. The Food and Agricultural Organization Land Cover Classification System (FAO-LCCS) hierarchical scheme was instantiated in the learning phase of the algorithm. Four multi-temporal WorldView-2 (WV-2) images were classified by combining plant phenology and agricultural practices rules with prior-image spectral knowledge. Drawing on this knowledge, spectral bands and entropy features from one single date (Post Peak of Biomass) were firstly used for multiple-scale image segmentation into Small Objects (SO) and Large Objects (LO). Thereafter, SO were labelled by considering spectral and context-sensitive features from the whole multi-seasonal data set available together with ancillary data. Lastly, the labelled SO were overlaid to LO segments and, in turn, the latter were labelled by adopting FAO-LCCS criteria about the SOs presence dominance in each LO. Ground reference samples were used only for validating the SO and LO output maps. The knowledge driven GEOBIA classifier for SO classification obtained an OA value of 97.35% with an error of 0.04. For LO classification the value was 75.09% with an error of 0.70. At SO scale, grasslands ecosystem was classified with 92.6%, 99.9% and 96.1% of User’s, Producer’s Accuracy and F1-score, respectively. The findings reported indicate that the knowledge-driven approach not only can be applied for (semi)natural grasslands ecosystem mapping in vast and not accessible areas but can also reduce the costs of ground truth data acquisition. The approach used may provide different level of details (small and large objects in the scene) but also indicates how to design and validate local conservation policies

Monitoring and prediction of pasture quality and productivity using planet scope satellite data for sustainable livestock production systems in Colombia

As the population increases, demand for food increases too, which has led to large-scale land conversion to improve livestock production in Colombia. Fulfilling these criteria of increasing demand in a sustainable way is a challenge and remote sensing data provides an accurate method to support this task. In this study, Planet Scope multispectral satellite datasets and coincident field measurements acquired over test fields in the study area (Patía) of September 2018 was used. Fresh and dry weight biomass was calculated and forage quality analyses, crude protein (CP), in vitro dry matter digestibility (IVDMD), Ash and standing biomass dry weight (DM) was carried out in the forage nutritional quality laboratory of International Centre for Tropical Agriculture (CIAT). Field data was related to the remote sensing data using the random forest regression algorithm. R was required for the statistical analysis, to figure out the model performance for IVDMD, CP, Ash and DM. This project also investigated the spatial distribution of livestock which is affected by quality and area of potential forage zones. The R2 values of the regression models were 0.74 for IVDMD, 0.69 for CP, 0.38 for Ash and 0.49 for DM using a predictor combination of vegetation indices, simple ratios and bands

Mapping of multitemporal rice (Oryza sativa L.) growth stages using remote sensing with multi-sensor and machine learning : a thesis dissertation presented in partial fulfilment of the requirements for the degree of Doctor of Philosophy in Earth Science at Massey University, Manawatū, New Zealand

Figure 2.1 is adapted and re-used under a Creative Commons Attribution 4.0 International (CC BY 4.0) license.Rice (Oryza Sativa) plays a pivotal role in food security for Asian countries, especially in Indonesia. Due to the increasing pressure of environmental changes, such as land use and climate, rice cultivation areas need to be monitored regularly and spatially to ensure sustainable rice production. Moreover, timely information of rice growth stages (RGS) can lead to more efficient of inputs distribution from water, seed, fertilizer, and pesticide. One of the efficient solutions for regularly mapping the rice crop is using Earth observation satellites. Moreover, the increasing availability of open access satellite images such as Landsat-8, Sentinel-1, and Sentinel-2 provides ample opportunities to map continuous and high-resolution rice growth stages with greater accuracy. The majority of the literature has focused on mapping rice area, cropping patterns and relied mainly on the phenology of vegetation. However, the mapping process of RGS was difficult to assess the accuracy, time-consuming, and depended on only one sensor. In this work, we discuss the use of machine learning algorithms (MLA) for mapping paddy RGS with multiple remote sensing data in near-real-time. The study area was Java Island, which is the primary rice producer in Indonesia. This study has investigated: (1) the mapping of RGS using Landsat-8 imagery and different MLAs, and their rigorous performance was evaluated by conducting a multitemporal analysis; (2) the temporal consistency of predicting RGS using Sentinel-2, MOD13Q1, and Sentinel-1 data; (3) evaluating the correlation of local statistics data and paddy RGS using Sentinel-2, PROBA-V, and Sentinel-1 with MLAs. The ground truth datasets were collected from multi-year web camera data (2014-2016) and three months of the field campaign in different regions of Java (2018). The study considered the RGS in the analysis to be vegetative, reproductive, ripening, bare land, and flooding, and MLAs such as support vector machines (SVMs), random forest (RF), and artificial neural network (ANN) were used. The temporal consistency matrix was used to compare the classification maps within three sensor datasets (Landsat-8 OLI, Sentinel-2, and Sentinel-2, MOD13Q1, Sentinel-1) and in four periods (5, 10, 15, 16 days). Moreover, the result of the RGS map was also compared with monthly data from local statistics within each sub-district using cross-correlation analysis. The result from the analysis shows that SVM with a radial base function outperformed the RF and ANN and proved to be a robust method for small-size datasets (< 1,000 points). Compared to Sentinel-2, Landsat-8 OLI gives less accuracy due to the lack of a red-edge band and larger pixel size (30 x 30 m). Integration of Sentinel-2, MOD13Q1, and Sentinel-1 improved the classification performance and increased the temporal availability of cloud-free maps. The integration of PROBA-V and Sentinel-1 improved the classification accuracy from the Landsat-8 result, consistent with the monthly rice planting area statistics at the sub-district level. The western area of Java has the highest accuracy and consistency since the cropping pattern only relied on rice cultivation. In contrast, less accuracy was noticed in the eastern area because of upland rice cultivation due to limited irrigation facilities and mixed cropping. In addition, the cultivation of shallots to the north of Nganjuk Regency interferes with the model predictions because the cultivation of shallots resembles the vegetative phase due to the water banks. One future research idea is the auto-detection of the cropping index in the complex landscape to be able to use it for mapping RGS on a global scale. Detection of the rice area and RGS using Google Earth Engine (GEE) can be an action plan to disseminate the information quickly on a planetary scale. Our results show that the multitemporal Sentinel-1 combined with RF can detect rice areas with high accuracy (>91%). Similarly, accurate RGS maps can be detected by integrating multiple remote sensing (Sentinel-2, Landsat-8 OLI, and MOD13Q1) data with acceptable accuracy (76.4%), with high temporal frequency and lower cloud interference (every 16 days). Overall, this study shows that remote sensing combined with the machine learning methodology can deliver information on RGS in a timely fashion, which is easy to scale up and consistent both in time and space and matches the local statistics. This thesis is also in line with the existing rice monitoring projects such as Crop Monitor, Crop Watch, AMIS, and Sen4Agri to support disseminating information over a large area. To sum up, the proposed workflow and detailed map provide a more accurate method and information in near real-time for stakeholders, such as governmental agencies against the existing mapping method. This method can be introduced to provide accurate information to rice farmers promptly with sufficient inputs such as irrigation, seeds, and fertilisers for ensuring national food security from the shifting planting time due to climate change

The Changing Matrix: Reforestation and Connectivity in a Tropical Habitat Corridor

In the last two decades, export-oriented crops and timber and fruit plantations have joined small-scale cultivation and pasture as important causes of tropical deforestation. Widespread conversion of tropical forest to agriculture threatens to isolate protected areas, which has led to efforts to maintain functional connectivity in landscapes between protected areas. Relatively few "landscape conservation" efforts have been assessed for their effect on deforestation, but advances in remote sensing now permit detailed monitoring of tropical land uses over time, including mapping of tree crops and plantations. This dissertation evaluates the long-term impact of forest conservation and reforestation policies on tropical forests in a habitat corridor. The following chapters test the capability of remote sensing to monitor tropical conservation efforts and assess whether landscape conservation policies can maintain forest cover and connectivity in the face of rapid agricultural expansion. Costa Rica has one of the most comprehensive landscape conservation policies in the tropics: a 1996 Forest Law banned deforestation and expanded payments for environmental services (PES) to protect forests and plant trees, prioritizing designated habitat corridors between protected areas. The long-term effect of the program on land-use transitions is not well known. To take advantage of this regional policy experiment, I used a time-series of five moderate-resolution Landsat images to track land-use change from 1986 to 2011in the oldest habitat corridor, the San Juan-La Selva Biological Corridor (SJLSBC). Forest conservation policies were associated with a 40% decline in deforestation after 1996 despite a doubling in the area of cropland in the last decade. The proportion of cropland derived from mature forest dropped from 16.4% to 1.9% after 1996, while one fifth of pasture expansion continued to be derived from mature forest. These results suggest that forest conservation policies can successfully lower deforestation, and that they can be more effective with large export producers than small-scale cattle producers. Tree plantations are an important component of Costa Rican PES, but knowledge of their distribution and contribution to connectivity in the corridor region is poor. After reviewing the remote sensing literature, I employed a novel integration of hyperspectral images and a Landsat time-series to create the first regional map of tropical tree plantation species. Including multitemporal data significantly improved overall hyperspectral map accuracy to 91%; the six tree plantation species were classified with 83% mean producer's accuracy. Non-native species made up 89% of tree plantations, and they were cleared more rapidly than native tree plantations and secondary forests. I combined existing land cover maps, field behavioral experiments, and a graph connectivity model to estimate whether landscape conservation policies increased connectivity for understory insectivorous birds, a representative forest-dependent group. The field playback experiments indicated both native and exotic tree plantations with a dense shrubby understory were acceptable dispersal habitat for all species, and that birds traveled readily near secondary forest edges but rarely into forested pasture. Graph model parameters were informed by these results. For all of these bird species, functional connectivity declined by 14-21% with only a 4.9% decline in forest area over time, implying that conservation policies have not caused a net increase in functional connectivity in the SJLSBC region. Despite making up 2% of the region, tree plantations had little effect on regional connectivity because of their placement in the landscape; we demonstrate that spatially-targeted reforestation of 0.1% of the region could increase connectivity by 1.8%. Collectively, the results presented in these chapters underline the potential and limitations of landscape conservation policies and corridor plans in the tropics; combining regulations and PES can lower deforestation over the medium-term, but increased enforcement, improved monitoring with remote sensing, and targeted conservation effort is needed to combat illegal deforestation and restore functional connectivity. Given numerous new tropical corridor and PES programs and the qualified successes of landscape conservation policies in Costa Rica and other tropical countries, our approach to the analysis can be applied to monitor and evaluate connectivity across the tropics

Semantic location extraction from crowdsourced data

Crowdsourced Data (CSD) has recently received increased attention in many application areas including disaster management. Convenience of production and use, data currency and abundancy are some of the key reasons for attracting this high interest. Conversely, quality issues like incompleteness, credibility and relevancy prevent the direct use of such data in important applications like disaster management. Moreover, location information availability of CSD is problematic as it remains very low in many crowd sourced platforms such as Twitter. Also, this recorded location is mostly related to the mobile device or user location and often does not represent the event location. In CSD, event location is discussed descriptively in the comments in addition to the recorded location (which is generated by means of mobile device's GPS or mobile communication network). This study attempts to semantically extract the CSD location information with the help of an ontological Gazetteer and other available resources. 2011 Queensland flood tweets and Ushahidi Crowd Map data were semantically analysed to extract the location information with the support of Queensland Gazetteer which is converted to an ontological gazetteer and a global gazetteer. Some preliminary results show that the use of ontologies and semantics can improve the accuracy of place name identification of CSD and the process of location information extraction

High-throughput estimation of crop traits: A review of ground and aerial phenotyping platforms

Crop yields need to be improved in a sustainable manner to meet the expected worldwide increase in population over the coming decades as well as the effects of anticipated climate change. Recently, genomics-assisted breeding has become a popular approach to food security; in this regard, the crop breeding community must better link the relationships between the phenotype and the genotype. While high-throughput genotyping is feasible at a low cost, highthroughput crop phenotyping methods and data analytical capacities need to be improved. High-throughput phenotyping offers a powerful way to assess particular phenotypes in large-scale experiments, using high-tech sensors, advanced robotics, and imageprocessing systems to monitor and quantify plants in breeding nurseries and field experiments at multiple scales. In addition, new bioinformatics platforms are able to embrace large-scale, multidimensional phenotypic datasets. Through the combined analysis of phenotyping and genotyping data, environmental responses and gene functions can now be dissected at unprecedented resolution. This will aid in finding solutions to currently limited and incremental improvements in crop yields

Satellite and Fluorescence Remote Sensing for Rice Nitrogen Status Diagnosis in Northeast China

Nitrogen (N), as the most important element of crop growth and development, plays a decisive role in ensuring yield. However, the problems of over-application of N fertilizers have been repeatedly reported in China, which resulted in low N use efficiency and high risk of environmental pollution. The requirements of developing technologies for real-time and site-specific diagnosis of crop N status are the foundation to realize the precision N management, and also benefit to the improvement of the N use efficiency. Remote sensing technology provides a promising non-intrusive solution to monitor rice N status and to realize the precision N management over large areas. This research focuses on proposing N nutrition diagnosis methods and developing N fertilizer management strategies for paddy rice of cold regions in Northeast China. The main contents and results are presented as follows: (1)This study developed a new critical N (Nc) dilution curve for paddy rice of cold regions in Northeast China. The curve could be described by the equation Nc=27.7W^(-0.34) if W≥1 t/ha for dry matter (DM) or Nc=27.7g/kg DM if W<1 t/ha, where W is the aboveground biomass. Results indicated that the new Nc dilution curve was suitable for diagnosing short-season Japonica rice N status in Northeast China. The validation result indicated that it worked well to diagnose plant N status of the 11-leaf variety rice. (2)This study investigated the potential of the satellite remote sensing data for diagnosing rice N status and guiding the topdressing N application at the stem elongation stage in Northeast China. 50 vegetation indices (VIs) were computed based on the FORMOSAT-2 satellite data, and they were correlated with the field-based agronomic variables, i.e., aboveground biomass (AGB), leaf area index (LAI), plant N concentration (PNC), plant N uptake (PNU), chlorophyll meter readings, and N nutrition index (NNI, defined as the ratio of actual PNC and critical PNC according to the new Nc dilution curves). The results presented that 45% of variation in the NNI was obtained by using a direct estimation method based on the best VI according to the FORMOSAT-2 satellite data, while 52% of the variation in the NNI was yielded by an indirect estimation method, which firstly used the VIs to estimate AGB and PNU, respectively, then estimated NNI according to these two variables. Moreover, based on the critical N uptake curve, a N recommendation algorithm was proposed. The algorithm was based on the difference between the estimated PNU and the critical PNU to adjust the topdressing N application rate. The results demonstrated that FORMOSAT-2 images have the potential to estimate rice N status and guide panicle N fertilizer applications in Northeast China. (3)This study also evaluated the potential improvements of the newest satellite sensors with the red edge band for diagnosing rice N status in Northeast China. The canopy-scale hyperspectral data were upscaled to simulate the wavebands of RapidEye, WorldView-2, and FORMOSAT-2, respectively. The VI analysis, stepwise multiple linear regression (SMLR), and partial least squares regression (PLSR) were performed to evaluate the N status indicators. The results indicated that the VIs based on the RE band from RapidEye and WorldView-2 data could explain more variability for N indicators than the VIs from FORMOSAT-2 data having no RE band. Moreover, the SMLR and PLSR results revealed that both the near-infrared and red edge band were important for N status estimation. (4)The proximal fluorescence sensor Multiplex_3 was used to evaluate the potential of fluorescence spectrum for estimating the N status of the cold regional paddy rice at different growth stages. The Multiplex indices and their normalized N sufficient indices (NSI) were used to estimate the five N status indicators, i.e., AGB, leaf N concentration (LNC), PNC, PNU, and NNI. The results indicated that there were strong relationships between the fluorescence indices (i.e., BRR_FRF, FLAV, NBI_G, and NBI_R) and (i.e., LNC, PNC, NNI), with the coefficient of determination between 0.40 and 0.78. In particular, NNI was well estimated by these fluorescence indices. Moreover, the NSI data improved the accuracy of the N diagnosis. These results of this study were useful for N nutrition diagnosis and variable fertilization of the cold regional paddy rice, which were significant for the ecological environment protection and the national food security