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Zhang B, Ou Y, Yu S, Liu Y, Liu Y, Qiu W. Gray mold and anthracnose disease detection on strawberry leaves using hyperspectral imaging. PLANT METHODS 2023; 19:148. [PMID: 38115023 PMCID: PMC10729489 DOI: 10.1186/s13007-023-01123-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Accepted: 12/04/2023] [Indexed: 12/21/2023]
Abstract
BACKGROUND Gray mold and anthracnose are the main factors affecting strawberry quality and yield. Accurate and rapid early disease identification is of great significance to achieve precise targeted spraying to avoid large-scale spread of diseases and improve strawberry yield and quality. However, the characteristics between early disease infected and healthy leaves are very similar, making the early identification of strawberry gray mold and anthracnose still a challenge. RESULTS Based on hyperspectral imaging technology, this study explored the potential of combining spectral fingerprint features and vegetation indices (VIs) for early detection (24-h infected) of strawberry leaves diseases. The competitive adaptive reweighted sampling (CARS) algorithm and ReliefF algorithm were used for the extraction of spectral fingerprint features and VIs, respectively. Three machine learning models, Backpropagation Neural Network (BPNN), Support Vector Machine (SVM) and Random Forest (RF), were developed for the early identification of strawberry gray mold and anthracnose, using spectral fingerprint, VIs and their combined features as inputs respectively. The results showed that the combination of spectral fingerprint features and VIs had better recognition accuracy compared with individual features as inputs, and the accuracies of the three classifiers (BPNN, SVM and RF) were 97.78%, 94.44%, and 93.33%, respectively, which indicate that the fusion features approach proposed in this study can effectively improve the early detection performance of strawberry leaves diseases. CONCLUSIONS This study provided an accurate, rapid, and nondestructive recognition of strawberry gray mold and anthracnose disease in early stage.
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Affiliation(s)
- Baohua Zhang
- College of Engineering, Nanjing Agricultural University, No. 40, Dianjiangtai Road, Taishan Street, Pukou District, Nanjing, Jiangsu, 210031, P.R. China
- College of Artificial Intelligence, Nanjing Agricultural University, Nanjing, Jiangsu, P.R. China
| | - Yunmeng Ou
- College of Artificial Intelligence, Nanjing Agricultural University, Nanjing, Jiangsu, P.R. China
| | - Shuwan Yu
- College of Artificial Intelligence, Nanjing Agricultural University, Nanjing, Jiangsu, P.R. China
| | - Yuchen Liu
- College of Artificial Intelligence, Nanjing Agricultural University, Nanjing, Jiangsu, P.R. China
| | - Ying Liu
- College of Artificial Intelligence, Nanjing Agricultural University, Nanjing, Jiangsu, P.R. China
| | - Wei Qiu
- College of Engineering, Nanjing Agricultural University, No. 40, Dianjiangtai Road, Taishan Street, Pukou District, Nanjing, Jiangsu, 210031, P.R. China.
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Fernández-Urrutia M, Arbelo M, Gil A. Identification of Paddy Croplands and Its Stages Using Remote Sensors: A Systematic Review. SENSORS (BASEL, SWITZERLAND) 2023; 23:6932. [PMID: 37571716 PMCID: PMC10422343 DOI: 10.3390/s23156932] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2023] [Revised: 07/24/2023] [Accepted: 07/28/2023] [Indexed: 08/13/2023]
Abstract
Rice is a staple food that feeds nearly half of the world's population. With the population of our planet expected to keep growing, it is crucial to carry out accurate mapping, monitoring, and assessments since these could significantly impact food security, climate change, spatial planning, and land management. Using the PRISMA systematic review protocol, this article identified and selected 122 scientific articles (journals papers and conference proceedings) addressing different remote sensing-based methodologies to map paddy croplands, published between 2010 and October 2022. This analysis includes full coverage of the mapping of rice paddies and their various stages of crop maturity. This review paper classifies the methods based on the data source: (a) multispectral (62%), (b) multisource (20%), and (c) radar (18%). Furthermore, it analyses the impact of machine learning on those methodologies and the most common algorithms used. We found that MODIS (28%), Sentinel-2 (18%), Sentinel-1 (15%), and Landsat-8 (11%) were the most used sensors. The impact of Sentinel-1 on multisource solutions is also increasing due to the potential of backscatter information to determine textures in different stages and decrease cloud cover constraints. The preferred solutions include phenology algorithms via the use of vegetation indices, setting thresholds, or applying machine learning algorithms to classify images. In terms of machine learning algorithms, random forest is the most used (17 times), followed by support vector machine (12 times) and isodata (7 times). With the continuous development of technology and computing, it is expected that solutions such as multisource solutions will emerge more frequently and cover larger areas in different locations and at a higher resolution. In addition, the continuous improvement of cloud detection algorithms will positively impact multispectral solutions.
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Affiliation(s)
- Manuel Fernández-Urrutia
- Departamento de Física, Universidad de La Laguna, 38200 San Cristobal de La Laguna, Spain; (M.F.-U.); (M.A.)
- Irish Centre for High-End Computing (ICHEC), University of Galway, H91TK33 Galway, Ireland
| | - Manuel Arbelo
- Departamento de Física, Universidad de La Laguna, 38200 San Cristobal de La Laguna, Spain; (M.F.-U.); (M.A.)
| | - Artur Gil
- Research Institute for Volcanology and Risks Assessment (IVAR), University of the Azores (UAc), 9500-321 Ponta Delgada, Portugal
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Mustafa G, Zheng H, Li W, Yin Y, Wang Y, Zhou M, Liu P, Bilal M, Jia H, Li G, Cheng T, Tian Y, Cao W, Zhu Y, Yao X. Fusarium head blight monitoring in wheat ears using machine learning and multimodal data from asymptomatic to symptomatic periods. FRONTIERS IN PLANT SCIENCE 2023; 13:1102341. [PMID: 36726669 PMCID: PMC9885105 DOI: 10.3389/fpls.2022.1102341] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Accepted: 12/22/2022] [Indexed: 06/18/2023]
Abstract
The growth of the fusarium head blight (FHB) pathogen at the grain formation stage is a deadly threat to wheat production through disruption of the photosynthetic processes of wheat spikes. Real-time nondestructive and frequent proxy detection approaches are necessary to control pathogen propagation and targeted fungicide application. Therefore, this study examined the ch\lorophyll-related phenotypes or features from spectral and chlorophyll fluorescence for FHB monitoring. A methodology is developed using features extracted from hyperspectral reflectance (HR), chlorophyll fluorescence imaging (CFI), and high-throughput phenotyping (HTP) for asymptomatic to symptomatic disease detection from two consecutive years of experiments. The disease-sensitive features were selected using the Boruta feature-selection algorithm, and subjected to machine learning-sequential floating forward selection (ML-SFFS) for optimum feature combination. The results demonstrated that the biochemical parameters, HR, CFI, and HTP showed consistent alterations during the spike-pathogen interaction. Among the selected disease sensitive features, reciprocal reflectance (RR=1/700) demonstrated the highest coefficient of determination (R 2) of 0.81, with root mean square error (RMSE) of 11.1. The multivariate k-nearest neighbor model outperformed the competing multivariate and univariate models with an overall accuracy of R 2 = 0.92 and RMSE = 10.21. A combination of two to three kinds of features was found optimum for asymptomatic disease detection using ML-SFFS with an average classification accuracy of 87.04% that gradually improved to 95% for a disease severity level of 20%. The study demonstrated the fusion of chlorophyll-related phenotypes with the ML-SFFS might be a good choice for crop disease detection.
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Affiliation(s)
- Ghulam Mustafa
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Hengbiao Zheng
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Wei Li
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Yuming Yin
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Yongqing Wang
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Meng Zhou
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Peng Liu
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Muhammad Bilal
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Haiyan Jia
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Guoqiang Li
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Tao Cheng
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Yongchao Tian
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Weixing Cao
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Yan Zhu
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
| | - Xia Yao
- National Engineering and Technology Center for Information Agriculture, Key Laboratory for Crop System Analysis and Decision Making, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
- National Engineering and Technology Center for Information Agriculture, Jiangsu Key Laboratory for Information Agriculture, Ministry of Agriculture, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China
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4
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Review on Active and Passive Remote Sensing Techniques for Road Extraction. REMOTE SENSING 2021. [DOI: 10.3390/rs13214235] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Digital maps of road networks are a vital part of digital cities and intelligent transportation. In this paper, we provide a comprehensive review on road extraction based on various remote sensing data sources, including high-resolution images, hyperspectral images, synthetic aperture radar images, and light detection and ranging. This review is divided into three parts. Part 1 provides an overview of the existing data acquisition techniques for road extraction, including data acquisition methods, typical sensors, application status, and prospects. Part 2 underlines the main road extraction methods based on four data sources. In this section, road extraction methods based on different data sources are described and analysed in detail. Part 3 presents the combined application of multisource data for road extraction. Evidently, different data acquisition techniques have unique advantages, and the combination of multiple sources can improve the accuracy of road extraction. The main aim of this review is to provide a comprehensive reference for research on existing road extraction technologies.
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5
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Abstract
Rice is considered one of the most important crops in the world. According to the Food and Agriculture Organization of the United Nations (FAO), rice production has increased significantly (156%) during the last 50 years, with a limited increase in cultivated area (24%). With the recent advances in remote sensing technologies, it is now possible to monitor rice crop production for a better understanding of its management at field scale to ultimately improve rice yields. In this work, we monitor within-field rice production of the two main rice varieties grown in Valencia (Spain) JSendra and Bomba during the 2020 season. The sowing date of both varieties was May 22–25, while the harvesting date was September 15–17 for Bomba and October 5–8 for JSendra. Rice yield data was collected over 66.03 ha (52 fields) by harvesting machines equipped with onboard sensors that determine the dry grain yield within irregular polygons of 3–7 m width. This dataset was split in two, selecting 70% of fields for training and 30% for validation purposes. Sentinel-2 surface reflectance spectral data acquired from May until September 2020 was considered over the test area at the two different spatial resolutions of 10 and 20 m. These two datasets were combined assessing the best combination of spectral reflectance bands (SR) or vegetation indices (VIs) as well as the best timing to infer final within-field yields. The results show that SR improves the performance of models with VIs. Furthermore, the correlation of each spectral band and VIs with the final yield changes with the dates and varieties. Considering the training data, the best correlation with the yields is obtained on July 4, with R2 for JSendra of 0.72 at 10 m and 0.76 at 20 m resolution, while the R2 for Bomba is 0.87 at 10 m and 0.92 at 20 m resolution. Based on the validation dataset, the proposed models provide within-field yield modelling Mean Absolute Error (MAE) of 0.254 t×ha−1 (Mean Absolute Percentage Error, MAPE, of 3.73%) for JSendra at 10 m (0.240 t×ha−1; 3.48% at 20 m) and 0.218 t×ha−1 (MAPE 5.82%) for Bomba (0.223 t×ha−1; 5.78% at 20 m) on July 4, that is three months before harvest. At parcel level the model’s MAE is 0.176 t×ha−1 (MAPE 2.61%) for JSendra and 0.142 t×ha−1 (MAPE 4.51%) for Bomba. These results confirm the close correlation between the rice yield and the spectral information from satellite imagery. Additionally, these models provide a timeliness overview of underperforming areas within the field three months before the harvest where farmers can improve their management practices. Furthermore, it highlights the importance of optimum agronomic management of rice plants during the first weeks of rice cultivation (40–50 days after sowing) to achieve high yields.
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6
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Detecting Infected Cucumber Plants with Close-Range Multispectral Imagery. REMOTE SENSING 2021. [DOI: 10.3390/rs13152948] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
This study used close-range multispectral imagery over cucumber plants inside a commercial greenhouse to detect powdery mildew due to Podosphaera xanthii. It was collected using a MicaSense® RedEdge camera at 1.5 m over the top of the plant. Image registration was performed using Speeded-Up Robust Features (SURF) with an affine geometric transformation. The image background was removed using a binary mask created with the aligned NIR band of each image, and the illumination was corrected using Cheng et al.’s algorithm. Different features were computed, including RGB, image reflectance values, and several vegetation indices. For each feature, a fine Gaussian Support Vector Machines algorithm was trained and validated to classify healthy and infected pixels. The data set to train and validate the SVM was composed of 1000 healthy and 1000 infected pixels, split 70–30% into training and validation datasets, respectively. The overall validation accuracy was 89, 73, 82, 51, and 48%, respectively, for blue, green, red, red-edge, and NIR band image. With the RGB images, we obtained an overall validation accuracy of 89%, while the best vegetation index image was the PMVI-2 image which produced an overall accuracy of 81%. Using the five bands together, overall accuracy dropped from 99% in the training to 57% in the validation dataset. While the results of this work are promising, further research should be considered to increase the number of images to achieve better training and validation datasets.
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7
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Prediction of Forest Aboveground Biomass Using Multitemporal Multispectral Remote Sensing Data. REMOTE SENSING 2021. [DOI: 10.3390/rs13071282] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Forest aboveground biomass (AGB) is a prime forest parameter that requires global level estimates to study the global carbon cycle. Light detection and ranging (LiDAR) is the state-of-the-art technology for AGB prediction but it is expensive, and its coverage is restricted to small areas. On the contrary, spaceborne Earth observation data are effective and economical information sources to estimate and monitor AGB at a large scale. In this paper, we present a study on the use of different spaceborne multispectral remote sensing data for the prediction of forest AGB. The objective is to evaluate the effects of temporal, spectral, and spatial capacities of multispectral satellite data for AGB prediction. The study was performed on multispectral data acquired by Sentinel-2, RapidEye, and Dove satellites which are characterized by different spatial resolutions, temporal availability, and number of spectral bands. A systematic process of least absolute shrinkage and selection operator (lasso) variable selection generalized linear modeling, leave-one-out cross-validation, and analysis was accomplished on each satellite dataset for AGB prediction. Results point out that the multitemporal data based AGB models were more effective in prediction than the single-time models. In addition, red-edge and short wave infrared (SWIR) channel dependent variables showed significant improvement in the modeling results and contributed to more than 50% of the selected variables. Results also suggest that high spatial resolution plays a smaller role than spectral and temporal information in the prediction of AGB. The overall analysis emphasizes a good potential of spaceborne multispectral data for developing sophisticated methods for AGB prediction especially with specific spectral channels and temporal information.
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8
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Wimberly MC, de Beurs KM, Loboda TV, Pan WK. Satellite Observations and Malaria: New Opportunities for Research and Applications. Trends Parasitol 2021; 37:525-537. [PMID: 33775559 PMCID: PMC8122067 DOI: 10.1016/j.pt.2021.03.003] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2020] [Revised: 03/04/2021] [Accepted: 03/05/2021] [Indexed: 12/15/2022]
Abstract
Satellite remote sensing provides a wealth of information about environmental factors that influence malaria transmission cycles and human populations at risk. Long-term observations facilitate analysis of climate–malaria relationships, and high-resolution data can be used to assess the effects of agriculture, urbanization, deforestation, and water management on malaria. New sources of very-high-resolution satellite imagery and synthetic aperture radar data will increase the precision and frequency of observations. Cloud computing platforms for remote sensing data combined with analysis-ready datasets and high-level data products have made satellite remote sensing more accessible to nonspecialists. Further collaboration between the malaria and remote sensing communities is needed to develop and implement useful geospatial data products that will support global efforts toward malaria control, elimination, and eradication.
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Affiliation(s)
- Michael C Wimberly
- Department of Geography and Environmental Sustainability, University of Oklahoma, Norman, OK, USA.
| | - Kirsten M de Beurs
- Department of Geography and Environmental Sustainability, University of Oklahoma, Norman, OK, USA
| | - Tatiana V Loboda
- Department of Geographical Sciences, University of Maryland, College Park, MD, USA
| | - William K Pan
- Duke Global Health Institute, Duke University, Durham, NC, USA
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9
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Crop Type and Land Cover Mapping in Northern Malawi Using the Integration of Sentinel-1, Sentinel-2, and PlanetScope Satellite Data. REMOTE SENSING 2021. [DOI: 10.3390/rs13040700] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Mapping crop types and land cover in smallholder farming systems in sub-Saharan Africa remains a challenge due to data costs, high cloud cover, and poor temporal resolution of satellite data. With improvement in satellite technology and image processing techniques, there is a potential for integrating data from sensors with different spectral characteristics and temporal resolutions to effectively map crop types and land cover. In our Malawi study area, it is common that there are no cloud-free images available for the entire crop growth season. The goal of this experiment is to produce detailed crop type and land cover maps in agricultural landscapes using the Sentinel-1 (S-1) radar data, Sentinel-2 (S-2) optical data, S-2 and PlanetScope data fusion, and S-1 C2 matrix and S-1 H/α polarimetric decomposition. We evaluated the ability to combine these data to map crop types and land cover in two smallholder farming locations. The random forest algorithm, trained with crop and land cover type data collected in the field, complemented with samples digitized from Google Earth Pro and DigitalGlobe, was used for the classification experiments. The results show that the S-2 and PlanetScope fused image + S-1 covariance (C2) matrix + H/α polarimetric decomposition (an entropy-based decomposition method) fusion outperformed all other image combinations, producing higher overall accuracies (OAs) (>85%) and Kappa coefficients (>0.80). These OAs represent a 13.53% and 11.7% improvement on the Sentinel-2-only (OAs < 80%) experiment for Thimalala and Edundu, respectively. The experiment also provided accurate insights into the distribution of crop and land cover types in the area. The findings suggest that in cloud-dense and resource-poor locations, fusing high temporal resolution radar data with available optical data presents an opportunity for operational mapping of crop types and land cover to support food security and environmental management decision-making.
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10
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Integrating Spectral Information and Meteorological Data to Monitor Wheat Yellow Rust at a Regional Scale: A Case Study. REMOTE SENSING 2021. [DOI: 10.3390/rs13020278] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Wheat yellow rust has a severe impact on wheat production and threatens food security in China; as such, an effective monitoring method is necessary at the regional scale. We propose a model for yellow rust monitoring based on Sentinel-2 multispectral images and a series of two-stage vegetation indices and meteorological data. Sensitive spectral vegetation indices (single- and two-stage indices) and meteorological features for wheat yellow rust discrimination were selected using the random forest method. Wheat yellow rust monitoring models were established using three different classification methods: linear discriminant analysis (LDA), support vector machine (SVM), and artificial neural network (ANN). The results show that models based on two-stage indices (i.e., those calculated using images from two different days) significantly outperform single-stage index models (i.e., those calculated using an image from a single day), the overall accuracy improved from 63.2% to 78.9%. The classification accuracies of models combining a vegetation index with meteorological feature are higher than those of pure vegetation index models. Among them, the model based on two-stage vegetation indices and meteorological features performs best, with a classification accuracy exceeding 73.7%. The SVM algorithm performed best for wheat yellow rust monitoring among the three algorithms; its classification accuracy (84.2%) was ~10.5% and 5.3% greater than those of LDA and ANN, respectively. Combined with crop growth and environmental information, our model has great potential for monitoring wheat yellow rust at a regional scale. Future work will focus on regional-scale monitoring and forecasting of crop disease.
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11
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Csillik O, Asner GP. Near-real time aboveground carbon emissions in Peru. PLoS One 2020; 15:e0241418. [PMID: 33137140 PMCID: PMC7605693 DOI: 10.1371/journal.pone.0241418] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Accepted: 10/15/2020] [Indexed: 11/24/2022] Open
Abstract
Monitoring aboveground carbon stocks and fluxes from tropical deforestation and forest degradation is important for mitigating climate change and improving forest management. However, high temporal and spatial resolution analyses are rare. This study presents the most detailed tracking of aboveground carbon over time, with yearly, quarterly and monthly estimations of emissions using the stock-difference approach and masked by the forest loss layer of Global Forest Watch. We generated high spatial resolution (1-ha) monitoring of aboveground carbon density (ACD) and emissions (ACE) in Peru by incorporating hundreds of thousands of Planet Dove satellite images, Sentinel-1 radar, topography and airborne LiDAR, embedded into a deep learning regression workflow using high-performance computing. Consistent ACD results were obtained for all quarters and months analyzed, with R2 values of 0.75–0.78, and root mean square errors (RMSE) between 20.6 and 22.0 Mg C ha-1. A total of 7.138 Pg C was estimated for Peru with annual ACE of 20.08 Tg C between the third quarters of 2017 and 2018, respectively, or 23.4% higher than estimates from the FAO Global Forest Resources Assessment. Analyzed quarterly, the spatial evolution of ACE revealed 11.5 Tg C, 6.6 Tg C, 8.6 Tg C, and 10.1 Tg C lost between the third quarters of 2017 and 2018. Moreover, our monthly analysis for the dry season reveals the evolution of ACE at unprecedented temporal detail. We discuss environmental controls over ACE and provide a spatially explicit tool for enhanced forest carbon management at scale.
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Affiliation(s)
- Ovidiu Csillik
- Center for Global Discovery and Conservation Science, Arizona State University, Tempe, Arizona, United States of America
- * E-mail:
| | - Gregory P. Asner
- Center for Global Discovery and Conservation Science, Arizona State University, Tempe, Arizona, United States of America
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12
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Abstract
Detection, identification, and quantification of plant diseases by sensor techniques are expected to enable a more precise disease control, as sensors are sensitive, objective, and highly available for disease assessment. Recent progress in sensor technology and data processing is very promising; nevertheless, technical constraints and issues inherent to variability in host-pathogen interactions currently limit the use of sensors in various fields of application. The information from spectral [e.g., RGB (red, green, blue)], multispectral, and hyperspectral sensors that measure reflectance, fluorescence, and emission of radiation or from electronic noses that detect volatile organic compounds released from plants or pathogens, as well as the potential of sensors to characterize the health status of crops, is evaluated based on the recent literature. Phytopathological aspects of remote sensing of plant diseases across different scales and for various purposes are discussed, including spatial disease patterns, epidemic spread of pathogens, crop characteristics, and links to disease control. Future challenges in sensor use are identified.
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Affiliation(s)
- Erich-Christian Oerke
- INRES, Plant Diseases and Crop Protection, Rheinische Friedrich-Wilhelms-Universität Bonn, D-53115 Bonn, Germany;
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13
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Satellite Constellation Reveals Crop Growth Patterns and Improves Mapping Accuracy of Cropping Practices for Subtropical Small-Scale Fields in Japan. REMOTE SENSING 2020. [DOI: 10.3390/rs12152419] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Mapping of agricultural crop types and practices is important for setting up agricultural production plans and environmental conservation measures. Sugarcane is a major tropical and subtropical crop; in general, it is grown in small fields with large spatio-temporal variations due to various crop management practices, and satellite observations of sugarcane cultivation areas are often obscured by clouds. Surface information with high spatio-temporal resolution obtained through the use of emerging satellite constellation technology can be used to track crop growth patterns with high resolution. In this study, we used Planet Dove imagery to reveal crop growth patterns and to map crop types and practices on subtropical Kumejima Island, Japan (lat. 26°21′01.1″ N, long. 126°46′16.0″ E). We eliminated misregistration between the red-green-blue (RGB) and near-infrared band imagery, and generated a time series of seven vegetation indices to track crop growth patterns. Using the Random Forest algorithm, we classified eight crop types and practices in the sugarcane. All the vegetation indices tested showed high classification accuracy, and the normalized difference vegetation index (NDVI) had an overall accuracy of 0.93 and Kappa of 0.92 range of accuracy for different crop types and practices in the study area. The results for the user’s and producer’s accuracy of each class were good. Analysis of the importance of variables indicated that five image sets are most important for achieving high classification accuracy: Two image sets of the spring and summer sugarcane plantings in each year of a two-year observation period, and one just before harvesting in the second year. We conclude that high-temporal-resolution time series images obtained by a satellite constellation are very effective in small-scale agricultural mapping with large spatio-temporal variations.
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Novel Vegetation Indices for Cotton Boll Opening Status Estimation Using Sentinel-2 Data. REMOTE SENSING 2020. [DOI: 10.3390/rs12111712] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
The application of chemical harvest aids to defoliate leaves and ripen bolls plays a significant role in the once-over machine harvest of cotton (Gossypium hirsutum L.) fields. The boll opening rate (BOR) is a key indicator for the determination of harvest aid spraying times. However, the most commonly used method to determine BOR is manual investigation, which is subjective and cannot have a holistic judgment of the entire area. Remote sensing can be employed to overcome these limitations, due to a wide field of vision, acceptably spatial and temporal resolution, and rich spectral information beyond the perception of the human eye. The reflectance of open cotton bolls is relatively high in the visible and near-infrared bands. High reflectance of open bolls has a great influence on the reflectance of the mixed pixels on remote sensing imagery. Therefore, it is an effective method to detect boll opening status by constructing vegetation indices with the sensitive spectral bands of imagery. In this study, we proposed two new vegetation indices based on Sentinel-2 remote sensing data, namely, the boll area ratio index (BARI) and the boll opening rate index (BORI), in order to estimate the boll opening status on a regional scale. The proposed indices were strongly correlated with the boll area ratio (BAR) and BOR. In particular, BARI exhibited the most accurate and robust performance with BAR in the prediction (R2 = 0.754, RMSE = 2.56%) and validation (R2 = 0.706, RMSE = 5.00%) among all the indices, including published indices we chose. Furthermore, when comparing to all other indices, BORI demonstrated the best and satisfactory estimation with BOR in the prediction (R2 = 0.675, RMSE = 7.96%) and validation (R2 = 0.616, RMSE = 2.79%). Meanwhile, an exponential growth relationship between BOR and BAR was identified, and the underlying mechanisms behind this phenomenon were discussed. Overall, through our study, we provided convenient and accurate vegetation indices for the investigation of boll opening status in a cotton-producing area by accessible and free Sentinel-2 imagery.
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Abstract
Fusarium wilt (Panama disease) of banana currently threatens banana production areas worldwide. Timely monitoring of Fusarium wilt disease is important for the disease treatment and adjustment of banana planting methods. The objective of this study was to establish a method for identifying the banana regions infested or not infested with Fusarium wilt disease using unmanned aerial vehicle (UAV)-based multispectral imagery. Two experiments were conducted in this study. In experiment 1, 120 sample plots were surveyed, of which 75% were used as modeling dataset for model fitting and the remaining were used as validation dataset 1 (VD1) for validation. In experiment 2, 35 sample plots were surveyed, which were used as validation dataset 2 (VD2) for model validation. An UAV equipped with a five band multispectral camera was used to capture the multispectral imagery. Eight vegetation indices (VIs) related to pigment absorption and plant growth changes were chosen for determining the biophysical and biochemical characteristics of the plants. The binary logistic regression (BLR) method was used to assess the spatial relationships between the VIs and the plants infested or not infested with Fusarium wilt. The results showed that the banana Fusarium wilt disease can be easily identified using the VIs including the green chlorophyll index (CIgreen), red-edge chlorophyll index (CIRE), normalized difference vegetation index (NDVI), and normalized difference red-edge index (NDRE). The fitting overall accuracies of the models were greater than 80%. Among the investigated VIs, the CIRE exhibited the best performance both for the VD1 (OA = 91.7%, Kappa = 0.83) and VD2 (OA = 80.0%, Kappa = 0.59). For the same type of VI, the VIs including a red-edge band obtained a better performance than that excluding a red-edge band. A simulation of imagery with different spatial resolutions (i.e., 0.5-m, 1-m, 2-m, 5-m, and 10-m resolutions) showed that good identification accuracy of Fusarium wilt was obtained when the resolution was higher than 2 m. As the resolution decreased, the identification accuracy of Fusarium wilt showed a decreasing trend. The findings indicate that UAV-based remote sensing with a red-edge band is suitable for identifying banana Fusarium wilt disease. The results of this study provide guidance for detecting the disease and crop planting adjustment.
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Csillik O, Kumar P, Mascaro J, O'Shea T, Asner GP. Monitoring tropical forest carbon stocks and emissions using Planet satellite data. Sci Rep 2019; 9:17831. [PMID: 31780757 PMCID: PMC6882785 DOI: 10.1038/s41598-019-54386-6] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2019] [Accepted: 11/13/2019] [Indexed: 11/17/2022] Open
Abstract
Tropical forests are crucial for mitigating climate change, but many forests continue to be driven from carbon sinks to sources through human activities. To support more sustainable forest uses, we need to measure and monitor carbon stocks and emissions at high spatial and temporal resolution. We developed the first large-scale very high-resolution map of aboveground carbon stocks and emissions for the country of Peru by combining 6.7 million hectares of airborne LiDAR measurements of top-of-canopy height with thousands of Planet Dove satellite images into a random forest machine learning regression workflow, obtaining an R2 of 0.70 and RMSE of 25.38 Mg C ha−1 for the nationwide estimation of aboveground carbon density (ACD). The diverse ecosystems of Peru harbor 6.928 Pg C, of which only 2.9 Pg C are found in protected areas or their buffers. We found significant carbon emissions between 2012 and 2017 in areas aggressively affected by oil palm and cacao plantations, agricultural and urban expansions or illegal gold mining. Creating such a cost-effective and spatially explicit indicators of aboveground carbon stocks and emissions for tropical countries will serve as a transformative tool to quantify the climate change mitigation services that forests provide.
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Affiliation(s)
- Ovidiu Csillik
- Center for Global Discovery and Conservation Science, Arizona State University, Tempe, AZ, USA.
| | - Pramukta Kumar
- Center for Global Discovery and Conservation Science, Arizona State University, Tempe, AZ, USA
| | | | | | - Gregory P Asner
- Center for Global Discovery and Conservation Science, Arizona State University, Tempe, AZ, USA
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Integrating Growth and Environmental Parameters to Discriminate Powdery Mildew and Aphid of Winter Wheat Using Bi-Temporal Landsat-8 Imagery. REMOTE SENSING 2019. [DOI: 10.3390/rs11070846] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Monitoring and discriminating co-epidemic diseases and pests at regional scales are of practical importance in guiding differential treatment. A combination of vegetation and environmental parameters could improve the accuracy for discriminating crop diseases and pests. Different diseases and pests could cause similar stresses and symptoms during the same crop growth period, so combining growth period information can be useful for discerning different changes in crop diseases and pests. Additionally, problems associated with imbalanced data often have detrimental effects on the performance of image classification. In this study, we developed an approach for discriminating crop diseases and pests based on bi-temporal Landsat-8 satellite imagery integrating both crop growth and environmental parameters. As a case study, the approach was applied to data during a period of typical co-epidemic outbreak of winter wheat powdery mildew and aphids in the Shijiazhuang area of Hebei Province, China. Firstly, bi-temporal remotely sensed features characterizing growth indices and environmental factors were calculated based on two Landsat-8 images. The synthetic minority oversampling technique (SMOTE) algorithm was used to resample the imbalanced training data set before model construction. Then, a back propagation neural network (BPNN) based on a new training data set balanced by the SMOTE approach (SMOTE-BPNN) was developed to generate the regional wheat disease and pest distribution maps. The original training data set-based BPNN and support vector machine (SVM) methods were used for comparison and testing of the initial results. Our findings suggest that the proposed approach incorporating both growth and environmental parameters of different crop periods could distinguish wheat powdery mildew and aphids at the regional scale. The bi-temporal growth indices and environmental factors-based SMOTE-BPNN, BPNN, and SVM models all had an overall accuracy high than 80%. Meanwhile, the SMOTE-BPNN method had the highest G-means among the three methods. These results revealed that the combination of bi-temporal crop growth and environmental parameters is essential for improving the accuracy of the crop disease and pest discriminating models. The combination of SMOTE and BPNN could effectively improve the discrimination accuracy of the minor disease or pest.
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Integrating Early Growth Information to Monitor Winter Wheat Powdery Mildew Using Multi-Temporal Landsat-8 Imagery. SENSORS 2018; 18:s18103290. [PMID: 30274362 PMCID: PMC6210596 DOI: 10.3390/s18103290] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/07/2018] [Revised: 09/19/2018] [Accepted: 09/28/2018] [Indexed: 11/17/2022]
Abstract
Powdery mildew is one of the dominant diseases in winter wheat. The accurate monitoring of powdery mildew is important for crop management and production. Satellite-based remote sensing monitoring has been proven as an efficient tool for regional disease detection and monitoring. However, the information provided by single-date satellite scene is hard to achieve acceptable accuracy for powdery mildew disease, and incorporation of early period contextual information of winter wheat can improve this situation. In this study, a multi-temporal satellite data based powdery mildew detecting approach had been developed for regional disease mapping. Firstly, the Lansat-8 scenes that covered six winter wheat growth periods (expressed in chronological order as periods 1 to 6) were collected to calculate typical vegetation indices (VIs), which include disease water stress index (DSWI), optimized soil adjusted vegetation index (OSAVI), shortwave infrared water stress index (SIWSI), and triangular vegetation index (TVI). A multi-temporal VIs-based k-nearest neighbors (KNN) approach was then developed to produce the regional disease distribution. Meanwhile, a backward stepwise elimination method was used to confirm the optimal multi-temporal combination for KNN monitoring model. A classification and regression tree (CART) and back propagation neural networks (BPNN) approaches were used for comparison and validation of initial results. VIs of all periods except 1 and 3 provided the best multi-temporal data set for winter wheat powdery mildew monitoring. Compared with the traditional single-date (period 6) image, the multi-temporal images based KNN approach provided more disease information during the disease development, and had an accuracy of 84.6%. Meanwhile, the accuracy of the proposed approach had 11.5% and 3.8% higher than the multi-temporal images-based CART and BPNN models', respectively. These results suggest that the use of satellite images for early critical disease infection periods is essential for improving the accuracy of monitoring models. Additionally, satellite imagery also assists in monitoring powdery mildew in late wheat growth periods.
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