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Song C, Sang J, Zhang L, Liu H, Wu D, Yuan W, Huang C. Adaptiveness of RGB-image derived algorithms in the measurement of fractional vegetation coverage. BMC Bioinformatics 2022; 23:358. [PMID: 36042415 PMCID: PMC9429463 DOI: 10.1186/s12859-022-04886-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2022] [Accepted: 08/08/2022] [Indexed: 11/25/2022] Open
Abstract
Background Fractional vegetation coverage (FVC) is a crucial parameter in determining vegetation structure. Automatic measurement of FVC using digital images captured by mobile smart devices is a potential direction for future research on field survey methods in plant ecology, and this algorithm is crucial for accurate FVC measurement. However, there is a lack of insight into the influence of illumination on the accuracy of FVC measurements. Therefore, the main objective of this research is to assess the adaptiveness and performance of different algorithms under varying light conditions for FVC measurements and to deepen our understanding of the influence of illumination on FVC measurement. Methods and results Based on a literature survey, we selected four algorithms that have been reported to have high accuracy in automatic FVC measurements. The first algorithm (Fun01) identifies green plants based on the combination of \documentclass[12pt]{minimal}
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\begin{document}$$R/G$$\end{document}R/G, \documentclass[12pt]{minimal}
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\begin{document}$$ExG$$\end{document}ExG (\documentclass[12pt]{minimal}
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\begin{document}$$G$$\end{document}G, and \documentclass[12pt]{minimal}
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\begin{document}$$B$$\end{document}B are the actual pixel digital numbers from the images based on each RGB channel, \documentclass[12pt]{minimal}
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\begin{document}$$ExG$$\end{document}ExG is the abbreviation of the Excess Green index), the second algorithm (Fun02) is a decision tree that uses color properties to discriminate plants from the background, the third algorithm (Fun03) uses \documentclass[12pt]{minimal}
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\begin{document}$$ExG-ExR$$\end{document}ExG-ExR (\documentclass[12pt]{minimal}
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\begin{document}$$ExR$$\end{document}ExR is the abbreviation of the Excess Red index) to recognize plants in the image, and the fourth algorithm (Fun04) uses \documentclass[12pt]{minimal}
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\begin{document}$$ExG$$\end{document}ExG and \documentclass[12pt]{minimal}
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\begin{document}$$O{\text{tsu}}$$\end{document}Otsu to separate the plants from the background. \documentclass[12pt]{minimal}
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\begin{document}$$Otsu$$\end{document}Otsu is an algorithm used to determine a threshold to transform the image into a binary image for the vegetation and background. We measured the FVC of several surveyed quadrats using these four algorithms under three scenarios, namely overcast sky, solar forenoon, and solar noon. FVC values obtained using the Photoshop-assisted manual identification method were used as a reference to assess the accuracy of the four algorithms selected. Results indicate that under the overcast sky scenario, Fun01 was more accurate than the other algorithms and the MAPE (mean absolute percentage error), BIAS, relBIAS (relative BIAS), RMSE (root mean square error), and relRMSE (relative RMSE) are 8.68%, 1.3, 3.97, 3.13, and 12.33%, respectively. Under the scenario of the solar forenoon, Fun02 (decision tree) was more accurate than other algorithms, and the MAPE, BIAS, relBIAS, RMSE, and relRMSE are 22.70%, − 2.86, − 7.70, 5.00, and 41.23%. Under the solar noon scenario, Fun02 was also more accurate than the other algorithms, and the MAPE, BIAS, relBIAS, RMSE, and relRMSE are 20.60%, − 6.39, − 20.67, 7.30, and 24.49%, respectively. Conclusions Given that each algorithm has its own optimal application scenario, among the four algorithms selected, Fun01 (the combination of \documentclass[12pt]{minimal}
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\begin{document}$$ExG$$\end{document}ExG) can be recommended for measuring FVC on cloudy days. Fun02 (decision tree) is more suitable for measuring the FVC on sunny days. However, it considerably underestimates the FVC in most cases. We expect the findings of this study to serve as a useful reference for automatic vegetation cover measurements. Supplementary Information The online version contains supplementary material available at 10.1186/s12859-022-04886-6.
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Affiliation(s)
- Chuangye Song
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Jiawen Sang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Lin Zhang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Huiming Liu
- Satellite Application Centre for Ecology and Environment, Ministry of Ecology and Environment, Beijing, 100094, China
| | - Dongxiu Wu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Weiying Yuan
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Chong Huang
- State Key Laboratory of Resources and Environmental Information System, Institute of Geographic and Natural Resources Research, Chinese Academy of Sciences, Beijing, 100101, China.
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Cameron HA, Panda P, Barczyk M, Beverly JL. Estimating boreal forest ground cover vegetation composition from nadir photographs using deep convolutional neural networks. ECOL INFORM 2022. [DOI: 10.1016/j.ecoinf.2022.101658] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Miraki M, Sohrabi H. Using canopy height model derived from UAV imagery as an auxiliary for spectral data to estimate the canopy cover of mixed broadleaf forests. ENVIRONMENTAL MONITORING AND ASSESSMENT 2021; 194:45. [PMID: 34958415 DOI: 10.1007/s10661-021-09695-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2021] [Accepted: 12/14/2021] [Indexed: 06/14/2023]
Abstract
Canopy cover is an important structural trait that is frequently used in forest inventories to assess sustainability as well as many other important aspects of forest stands. Remote sensing data is more effective and suitable for canopy cover estimating than traditional field measurements such as sample plots, especially at broad scales. Measurement and mapping this attribute in fine-scale is a difficult task. Aerial imagery using unmanned aerial vehicle (UAV) has been recognized as an excellent tool to estimate canopy attributes. In this study, we compared the potential of using digital hemispherical photography (DHP), digital cover photography (DCP), UAV RGB data, and canopy height model (CHM) for estimation of canopy cover of mix broad-leaved forest on seven different stands. The canopy cover was measured from two digital canopy photographic methods, including DHP (as the reference method) and DCP. The stand orthophotos were segmented using a multi-resolution image segmentation method. Afterward, the classification in two classes of the canopy cover and the non-canopy cover was conducted using minimum distance classification to estimate canopy cover. The CHM layer was generated based on the SfM algorithm and utilized in the canopy cover estimation in each stand as auxiliary data. The results showed a slight improvement when we used the CHM as auxiliary data. Overall, the results showed that the efficiency of the ground digital canopy photographic methods (zenith view) in multi-storied and dense forests is the lowest. In return, our method for digital aerial canopy photography (object-based canopy segmentation and classification) is simple, quick, efficient, and cost-effective.
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Affiliation(s)
- M Miraki
- Department of Forestry, Faculty of Natural Resources, Tarbiat Modares University, Jalal Ale Ahmad Highway, P.O. Box, 14115-111, Tehran, Iran
| | - H Sohrabi
- Department of Forestry, Faculty of Natural Resources, Tarbiat Modares University, Jalal Ale Ahmad Highway, P.O. Box, 14115-111, Tehran, Iran.
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Xu D, Pu Y, Guo X. A Semi-Automated Method to Extract Green and Non-Photosynthetic Vegetation Cover from RGB Images in Mixed Grasslands. SENSORS (BASEL, SWITZERLAND) 2020; 20:E6870. [PMID: 33271796 PMCID: PMC7731437 DOI: 10.3390/s20236870] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/09/2020] [Revised: 11/24/2020] [Accepted: 11/30/2020] [Indexed: 11/16/2022]
Abstract
Green (GV) and non-photosynthetic vegetation (NPV) cover are both important biophysical parameters for grassland research. The current methodology for cover estimation, including subjective visual estimation and digital image analysis, requires human intervention, lacks automation, batch processing capabilities and extraction accuracy. Therefore, this study proposed to develop a method to quantify both GV and standing dead matter (SDM) fraction cover from field-taken digital RGB images with semi-automated batch processing capabilities (i.e., written as a python script) for mixed grasslands with more complex background information including litter, moss, lichen, rocks and soil. The results show that the GV cover extracted by the method developed in this study is superior to that by subjective visual estimation based on the linear relation with normalized vegetation index (NDVI) calculated from field measured hyper-spectra (R2 = 0.846, p < 0.001 for GV cover estimated from RGB images; R2 = 0.711, p < 0.001 for subjective visual estimated GV cover). The results also show that the developed method has great potential to estimate SDM cover with limited effects of light colored understory components including litter, soil crust and bare soil. In addition, the results of this study indicate that subjective visual estimation tends to estimate higher cover for both GV and SDM compared to that estimated from RGB images.
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Affiliation(s)
- Dandan Xu
- Department of Ecology, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China;
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China
| | - Yihan Pu
- Department of Ecology, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China;
| | - Xulin Guo
- Department of Geography and Planning, University of Saskatchewan, 117 Science Place, Saskatoon, SK S7N5C8, Canada;
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Peach K, Liu JW, Mazer SJ. Climate Predicts UV Floral Pattern Size, Anthocyanin Concentration, and Pollen Performance in Clarkia unguiculata. FRONTIERS IN PLANT SCIENCE 2020; 11:847. [PMID: 32612627 PMCID: PMC7308548 DOI: 10.3389/fpls.2020.00847] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2019] [Accepted: 05/26/2020] [Indexed: 05/25/2023]
Abstract
Given that flower size and pigmentation can mediate plant-pollinator interactions, many studies have focused on pollinator-driven selection on these floral traits. However, abiotic factors such as precipitation, temperature, and solar radiation also contribute to geographic variation in floral color, pattern, and size within multiple species. Several studies have described an ecogeographic pattern within species in which high temperature, high ultraviolet (UV) radiation, low precipitation and/or low latitudes are associated with increased floral anthocyanin production, smaller flowers, and/or larger UV-absorbing floral patterns (nectar guides or bullseyes). However, latitude or elevation is often used as a proxy variable to study variation in floral traits associated with a wide range of climatic variables, making the proximate abiotic drivers of variation difficult to identify. In this study, we tested and corroborated several predictions for how the abiotic environment may directly or indirectly shape geographic patterns of floral color, pattern, and size in Clarkia unguiculata (Onagraceae). This study provides the first report of geographic variation in multispectral floral color and pattern in C. unguiculata, while also providing an experimental test of the putative protective role of UV absorption for pollen performance. We quantified geographic variation among greenhouse-raised populations in UV floral pattern size, mean UV petal reflectance, anthocyanin concentration, and petal area in C. unguiculata across its natural range in California and, using 30 year climate normals for each population, we identified climatic and topographic attributes that are correlated with our focal floral traits. In addition, we examined pollen performance under high and low UV light conditions to detect the protective function (if any) of UV floral patterns in this species. Contrary to our expectations, the nectar guide and the proportion of the petal occupied by the UV nectar guide were largest in low solar UV populations. Estimated floral anthocyanin concentration was highest in populations with high solar UV, which does support our predictions. The size of the UV nectar guide did not affect pollen performance in either of the light treatments used in this study. We conclude that, under the conditions examined here, UV-absorbing floral patterns do not serve a direct "pollen protection" function in C. unguiculata. Our results only partially align with expected ecogeographic patterns in these floral traits, highlighting the need for research in a wider range of taxa in order to detect and interpret broad scale patterns of floral color variation.
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Affiliation(s)
- Kristen Peach
- Ecology, Evolution, and Marine Biology, University of California, Santa Barbara, Santa Barbara, CA, United States
| | - Jasen W. Liu
- Population Biology Graduate Group, University of California, Davis, Davis, CA, United States
| | - Susan J. Mazer
- Ecology, Evolution, and Marine Biology, University of California, Santa Barbara, Santa Barbara, CA, United States
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Abstract
Spatial and temporal patterns of tropical leaf renewal are poorly understood and poorly parameterized in modern Earth System Models due to lack of data. Remote sensing has great potential for sampling leaf phenology across tropical landscapes but until now has been impeded by lack of ground-truthing, cloudiness, poor spatial resolution, and the cryptic nature of incremental leaf turnover in many tropical plants. To our knowledge, satellite data have never been used to monitor individual crown leaf phenology in the tropics, an innovation that would be a major breakthrough for individual and species-level ecology and improve climate change predictions for the tropics. In this paper, we assessed whether satellite data can detect leaf turnover for individual trees using ground observations of a candidate tropical tree species, Moabi (Baillonella toxisperma), which has a mega-crown visible from space. We identified and delineated Moabi crowns at Lopé NP, Gabon from satellite imagery using ground coordinates and extracted high spatial and temporal resolution, optical, and synthetic-aperture radar (SAR) timeseries data for each tree. We normalized these data relative to the surrounding forest canopy and combined them with concurrent monthly crown observations of new, mature, and senescent leaves recorded from the ground. We analyzed the relationship between satellite and ground observations using generalized linear mixed models (GLMMs). Ground observations of leaf turnover were significantly correlated with optical indices derived from Sentinel-2 optical data (the normalized difference vegetation index and the green leaf index), but not with SAR data derived from Sentinel-1. We demonstrate, perhaps for the first time, how the leaf phenology of individual large-canopied tropical trees can directly influence the spectral signature of satellite pixels through time. Additionally, while the level of uncertainty in our model predictions is still very high, we believe this study shows that we are near the threshold for orbital monitoring of individual crowns within tropical forests, even in challenging locations, such as cloudy Gabon. Further technical advances in remote sensing instruments into the spatial and temporal scales relevant to organismal biological processes will unlock great potential to improve our understanding of the Earth system.
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Quantifying Understory and Overstory Vegetation Cover Using UAV-Based RGB Imagery in Forest Plantation. REMOTE SENSING 2020. [DOI: 10.3390/rs12020298] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Vegetation cover estimation for overstory and understory layers provides valuable information for modeling forest carbon and water cycles and refining forest ecosystem function assessment. Although previous studies demonstrated the capability of light detection and ranging (LiDAR) in the three-dimensional (3D) characterization of forest overstory and understory communities, the high cost inhibits its application in frequent and successive survey tasks. Low-cost commercial red–green–blue (RGB) cameras mounted on unmanned aerial vehicles (UAVs), as LiDAR alternatives, provide operational systems for simultaneously quantifying overstory crown cover (OCC) and understory vegetation cover (UVC). We developed an effective method named back-projection of 3D point cloud onto superpixel-segmented image (BAPS) to extract overstory and forest floor pixels using 3D structure-from-motion (SfM) point clouds and two-dimensional (2D) superpixel segmentation. The OCC was estimated from the extracted overstory crown pixels. A reported method, called half-Gaussian fitting (HAGFVC), was used to segement green vegetation and non-vegetation pixels from the extracted forest floor pixels and derive UVC. The UAV-based RGB imagery and field validation data were collected from eight forest plots in Saihanba National Forest Park (SNFP) plantation in northern China. The consistency of the OCC estimates between BAPS and canopy height model (CHM)-based methods (coefficient of determination: 0.7171) demonstrated the capability of the BAPS method in the estimation of OCC. The segmentation of understory vegetation was verified by the supervised classification (SC) method. The validation results showed that the OCC and UVC estimates were in good agreement with reference values, where the root-mean-square error (RMSE) of OCC (unitless) and UVC (unitless) reached 0.0704 and 0.1144, respectively. The low-cost UAV-based observation system and the newly developed method are expected to improve the understanding of ecosystem functioning and facilitate ecological process modeling.
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Zhao K, Ryu Y, Hu T, Garcia M, Li Y, Liu Z, Londo A, Wang C. How to better estimate leaf area index and leaf angle distribution from digital hemispherical photography? Switching to a binary nonlinear regression paradigm. Methods Ecol Evol 2019. [DOI: 10.1111/2041-210x.13273] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Kaiguang Zhao
- School of Environment and Natural Resources, Ohio Agricultural Research and Development Center The Ohio State University Wooster OH USA
- School of Environment and Natural Resources, Environmental Science Graduate Program The Ohio State University Columbus OH USA
| | - Youngryel Ryu
- Department of Landscape Architecture and Rural Systems Engineering Seoul National University Seoul The Republic of Korea
| | - Tongxi Hu
- School of Environment and Natural Resources, Environmental Science Graduate Program The Ohio State University Columbus OH USA
| | - Mariano Garcia
- Department of Geology, Geography, and Environment University of Alcala Alcala de Henares Madrid Spain
| | - Yang Li
- School of Environment and Natural Resources, Environmental Science Graduate Program The Ohio State University Columbus OH USA
| | - Zhen Liu
- School of Environment and Natural Resources, Ohio Agricultural Research and Development Center The Ohio State University Wooster OH USA
| | - Alexis Londo
- School of Environment and Natural Resources, Environmental Science Graduate Program The Ohio State University Columbus OH USA
| | - Chao Wang
- School of Environment and Natural Resources, Ohio Agricultural Research and Development Center The Ohio State University Wooster OH USA
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Dongen R, Huntley B, Keighery G, Brundrett M. Monitoring vegetation recovery in the early stages of the Dirk Hartog Island Restoration Programme using high temporal frequency Landsat imagery. ECOLOGICAL MANAGEMENT & RESTORATION 2019. [DOI: 10.1111/emr.12386] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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10
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Hu JB, Dai MX, Peng ST. An automated (novel) algorithm for estimating green vegetation cover fraction from digital image: UIP-MGMEP. ENVIRONMENTAL MONITORING AND ASSESSMENT 2018; 190:687. [PMID: 30377808 DOI: 10.1007/s10661-018-7075-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Accepted: 10/22/2018] [Indexed: 06/08/2023]
Abstract
Green vegetation cover fraction (VCF) is an important indicator of vegetation status in ecology and agronomy. Digital image analysis (DIA) has been widely accepted as a new VCF measurement technique. In this study, we present a novel fully automatic threshold segmentation algorithm for VCF measurements, which is named as upper inflection point plus mean gradient magnitude of edge pixels (UIP-MGMEP). The algorithm performs VCF estimation upon the vegetation index Excess Green (EXG). UIP-MGMEP optimizes the EXG threshold by searching the upper inflection point (UIP) of the M-Et curve (mean gradient magnitude of edge pixels (MGMEP) vs. EXG threshold), based on the assumption that EXG variance of the boundary pixels between vegetation and background is larger than the variance of the background. Five typical sample images are used to illustrate how ground complexity reduces the distinctness of the UIP. Three controlled experiments are illustrated to test the robustness of UIP-MGMEP to resolution, exposure, and ground complexity. The results show that UIP-MGMEP is a promising algorithm for automatic VCF estimation upon digital images. Compared to broad-leaved grass, narrow-leaved grass is more sensitive to resolution and exposure. To reduce ground complexity, smaller footprint size while more images to cover the same area may be better than one image with large footprint size. UIP-MGMEP is fully automatic, making it promising for batch processing of VCF measurements that is very difficult in any wide-range field survey in the past. UIP-MGMEP algorithm can only extract green vegetation and is not suitable for non-green (even grayish-green) vegetation, due to the limits of vegetation index EXG. In addition, UIP-MGMEP is not recommended for images with VCF less than 0.5% or greater than 99.5%.
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Affiliation(s)
- J B Hu
- Laboratory of Environmental Protection in Water Transport Engineering, Tianjin Research Institute for Water Transport Engineering, Ministry of Transport, Tianjin, 300456, China.
| | - M X Dai
- Laboratory of Environmental Protection in Water Transport Engineering, Tianjin Research Institute for Water Transport Engineering, Ministry of Transport, Tianjin, 300456, China
| | - S T Peng
- Laboratory of Environmental Protection in Water Transport Engineering, Tianjin Research Institute for Water Transport Engineering, Ministry of Transport, Tianjin, 300456, China
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Del Valle JC, Gallardo-López A, Buide ML, Whittall JB, Narbona E. Digital photography provides a fast, reliable, and noninvasive method to estimate anthocyanin pigment concentration in reproductive and vegetative plant tissues. Ecol Evol 2018; 8:3064-3076. [PMID: 29607006 PMCID: PMC5869271 DOI: 10.1002/ece3.3804] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2017] [Revised: 10/31/2017] [Accepted: 12/06/2017] [Indexed: 02/03/2023] Open
Abstract
Anthocyanin pigments have become a model trait for evolutionary ecology as they often provide adaptive benefits for plants. Anthocyanins have been traditionally quantified biochemically or more recently using spectral reflectance. However, both methods require destructive sampling and can be labor intensive and challenging with small samples. Recent advances in digital photography and image processing make it the method of choice for measuring color in the wild. Here, we use digital images as a quick, noninvasive method to estimate relative anthocyanin concentrations in species exhibiting color variation. Using a consumer‐level digital camera and a free image processing toolbox, we extracted RGB values from digital images to generate color indices. We tested petals, stems, pedicels, and calyces of six species, which contain different types of anthocyanin pigments and exhibit different pigmentation patterns. Color indices were assessed by their correlation to biochemically determined anthocyanin concentrations. For comparison, we also calculated color indices from spectral reflectance and tested the correlation with anthocyanin concentration. Indices perform differently depending on the nature of the color variation. For both digital images and spectral reflectance, the most accurate estimates of anthocyanin concentration emerge from anthocyanin content‐chroma ratio, anthocyanin content‐chroma basic, and strength of green indices. Color indices derived from both digital images and spectral reflectance strongly correlate with biochemically determined anthocyanin concentration; however, the estimates from digital images performed better than spectral reflectance in terms of r2 and normalized root‐mean‐square error. This was particularly noticeable in a species with striped petals, but in the case of striped calyces, both methods showed a comparable relationship with anthocyanin concentration. Using digital images brings new opportunities to accurately quantify the anthocyanin concentrations in both floral and vegetative tissues. This method is efficient, completely noninvasive, applicable to both uniform and patterned color, and works with samples of any size.
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Affiliation(s)
- José C Del Valle
- Department of Molecular Biology and Biochemical Engineering Pablo de Olavide University Seville Spain
| | - Antonio Gallardo-López
- Department of Molecular Biology and Biochemical Engineering Pablo de Olavide University Seville Spain
| | - Mª Luisa Buide
- Department of Molecular Biology and Biochemical Engineering Pablo de Olavide University Seville Spain
| | | | - Eduardo Narbona
- Department of Molecular Biology and Biochemical Engineering Pablo de Olavide University Seville Spain
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Gharun M, Possell M, Vervoort RW, Adams MA, Bell TL. Can a growth model be used to describe forest carbon and water balance after fuel reduction burning in temperate forests? THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 615:1000-1009. [PMID: 29751404 DOI: 10.1016/j.scitotenv.2017.09.315] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2017] [Revised: 09/05/2017] [Accepted: 09/29/2017] [Indexed: 06/08/2023]
Abstract
Empirical evidence from Australia shows that fuel reduction burning significantly reduces the incidence and extent of unplanned fires. However, the integration of environmental values into fire management operations is not yet well-defined and requires further research and development. WAVES, a plant growth model that incorporates Soil-Vegetation-Atmosphere Transfer, was used to simulate the hydrological and ecological effects of three fuel management scenarios on a forest ecosystem. WAVES was applied using inputs from a set of forest plots for one year after three potential scenarios: (1) all litter removed, (2) all litter and 50% of the understorey removed, (3) all litter and understorey removed. Modelled outputs were compared with sites modelled with no-fuel reduction treatment (Unburnt). The key change between unburnt and fuel reduced forests was a significant increase in soil moisture after fire. Predictions of the recovery of aboveground carbon as plant biomass were driven by model structure and thus variability in available light and soil moisture at a local scale. Similarly, effects of fuel reduction burning on water processes were mainly due to changes in vegetation interception capacity (i.e. regrowth) and soil evaporation. Predicted effects of fuel reduction burning on total evapotranspiration (ET) - the major component of water balance - were marginal and not significant, even though a considerable proportion of ET had effectively been transferred from understorey to overstorey. In common with many plant growth models, outputs from WAVES are dictated by the assumption that overstorey trees continue to grow irrespective of their age or stage of maturity. Large areas of eucalypt forests and woodlands in SE Australia are well beyond their aggrading phase and are instead over-mature. The ability of these forests to rapidly respond to greater availability of water remains uncertain.
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Affiliation(s)
- Mana Gharun
- School of Life and Environmental Sciences, University of Sydney, Sydney, NSW 2006, Australia; Bushfire and Natural Hazards Cooperative Research Centre, East Melbourne, VIC 3002, Australia.
| | - Malcolm Possell
- School of Life and Environmental Sciences, University of Sydney, Sydney, NSW 2006, Australia; Bushfire and Natural Hazards Cooperative Research Centre, East Melbourne, VIC 3002, Australia
| | - R Willem Vervoort
- School of Life and Environmental Sciences, University of Sydney, Sydney, NSW 2006, Australia
| | - Mark A Adams
- School of Life and Environmental Sciences, University of Sydney, Sydney, NSW 2006, Australia; Bushfire and Natural Hazards Cooperative Research Centre, East Melbourne, VIC 3002, Australia
| | - Tina L Bell
- School of Life and Environmental Sciences, University of Sydney, Sydney, NSW 2006, Australia; Bushfire and Natural Hazards Cooperative Research Centre, East Melbourne, VIC 3002, Australia
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Standardization and Quality Control in Data Collection and Assessment of Threatened Plant Species. DATA 2016. [DOI: 10.3390/data1030020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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14
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Extracting Leaf Area Index by Sunlit Foliage Component from Downward-Looking Digital Photography under Clear-Sky Conditions. REMOTE SENSING 2015. [DOI: 10.3390/rs71013410] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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15
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Walter CA, Burnham MB, Gilliam FS, Peterjohn WT. A reference-based approach for estimating leaf area and cover in the forest herbaceous layer. ENVIRONMENTAL MONITORING AND ASSESSMENT 2015; 187:657. [PMID: 26423635 DOI: 10.1007/s10661-015-4878-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/22/2015] [Accepted: 09/16/2015] [Indexed: 06/05/2023]
Abstract
Cover data are used to assess vegetative response to a variety of ecological factors. Estimating cover in the herbaceous layer of forests presents a problem because the communities are structurally complex and rich in species. The currently employed techniques for estimating cover are less than optimal for measuring such rich understories because they are inaccurate, slow, or impracticable. A reference-based approach to estimating cover is presented that compares the area of foliar surfaces to the area of an observer's hand. While this technique has been used to estimate cover in prior studies, its accuracy has not been tested. We tested this hand-area method at the individual plant, population, and community scales in a deciduous forest herbaceous layer, and in a separate farm experiment. The precision, accuracy, observer bias, and species bias of the method were tested by comparing the hand-estimated leaf area index values with actual leaf area index, measured using a leaf area meter. The hand-area method was very precise when regressed against actual leaf area index at the plant, population, and community scales (R(2) of 0.97, 0.93, and 0.87). Among the deciduous sites, the hand-area method overestimated leaf area index consistently by 39.1% at all scales. There was no observer bias detected at any scale, but plant overestimation bias was detected in one species at the population scale. The hand-area method is a rapid and reliable technique for estimating leaf area index or cover in the forest herbaceous layer and should be useful to field ecologists interested in answering questions at the plant, population, or community level.
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Affiliation(s)
- Christopher A Walter
- Department of Biology, West Virginia University, 35 Campus Drive, Morgantown, WV, 26506, USA.
| | - Mark B Burnham
- Department of Biology, West Virginia University, 35 Campus Drive, Morgantown, WV, 26506, USA
| | - Frank S Gilliam
- Department of Biological Sciences, Marshall University, Huntington, WV, 25755, USA
| | - William T Peterjohn
- Department of Biology, West Virginia University, 35 Campus Drive, Morgantown, WV, 26506, USA
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Extracting the Green Fractional Vegetation Cover from Digital Images Using a Shadow-Resistant Algorithm (SHAR-LABFVC). REMOTE SENSING 2015. [DOI: 10.3390/rs70810425] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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17
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Smith MJ, Drake PL, Vogwill R, McCormick CA. Managing natural resources for their human values. Ecosphere 2015. [DOI: 10.1890/es15-00125.1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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Lohr C, Van Dongen R, Huntley B, Gibson L, Morris K. Remotely monitoring change in vegetation cover on the Montebello Islands, Western Australia, in response to introduced rodent eradication. PLoS One 2014; 9:e114095. [PMID: 25436454 PMCID: PMC4250182 DOI: 10.1371/journal.pone.0114095] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2014] [Accepted: 10/29/2014] [Indexed: 11/18/2022] Open
Abstract
The Montebello archipelago consists of 218 islands; 80 km from the north-west coast of Western Australia. Before 1912 the islands had a diverse terrestrial fauna. By 1952 several species were locally extinct. Between 1996 and 2011 rodents and cats were eradicated, and 5 mammal and 2 bird species were translocated to the islands. Monitoring of the broader terrestrial ecosystem over time has been limited. We used 20 dry-season Landsat images from 1988 to 2013 and estimation of green fraction cover in nadir photographs taken at 27 sites within the Montebello islands and six sites on Thevenard Island to assess change in vegetation density over time. Analysis of data averaged across the 26-year period suggests that 719 ha out of 2169 ha have increased in vegetation cover by up to 32%, 955 ha have remained stable and 0.6 ha have declined in vegetation cover. Over 492 ha (22%) had no vegetation cover at any time during the period analysed. Chronological clustering analysis identified two breakpoints in the average vegetation cover data occurring in 1997 and 2003, near the beginning and end of the rodent eradication activities. On many islands vegetation cover was declining prior to 1996 but increased after rodents were eradicated from the islands. Data for North West and Trimouille islands were analysed independently because of the potential confounding effect of native fauna being introduced to these islands. Mala (Lagorchestes hirsutus) and Shark Bay mice (Pseudomys fieldi) both appear to suppress native plant recruitment but not to the same degree as introduced rodents. Future research should assess whether the increase in vegetation cover on the Montebello islands is due to an increase in native or introduced plants.
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Affiliation(s)
- Cheryl Lohr
- Department of Parks and Wildlife, Science and Conservation Division, Woodvale, Western Australia, Australia
- * E-mail:
| | - Ricky Van Dongen
- Department of Parks and Wildlife, GIS Section, Kensington, Western Australia, Australia
| | - Bart Huntley
- Department of Parks and Wildlife, GIS Section, Kensington, Western Australia, Australia
| | - Lesley Gibson
- Department of Parks and Wildlife, Science and Conservation Division, Keiran McNamara Conservation Science Centre, 17 Dick Perry Drive, Technology Park, Kensington, WA 6151, Australia
| | - Keith Morris
- Department of Parks and Wildlife, Science and Conservation Division, Woodvale, Western Australia, Australia
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Kendal D, Hauser CE, Garrard GE, Jellinek S, Giljohann KM, Moore JL. Quantifying plant colour and colour difference as perceived by humans using digital images. PLoS One 2013; 8:e72296. [PMID: 23977275 PMCID: PMC3748102 DOI: 10.1371/journal.pone.0072296] [Citation(s) in RCA: 75] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2013] [Accepted: 07/15/2013] [Indexed: 11/19/2022] Open
Abstract
Human perception of plant leaf and flower colour can influence species management. Colour and colour contrast may influence the detectability of invasive or rare species during surveys. Quantitative, repeatable measures of plant colour are required for comparison across studies and generalisation across species. We present a standard method for measuring plant leaf and flower colour traits using images taken with digital cameras. We demonstrate the method by quantifying the colour of and colour difference between the flowers of eleven grassland species near Falls Creek, Australia, as part of an invasive species detection experiment. The reliability of the method was tested by measuring the leaf colour of five residential garden shrub species in Ballarat, Australia using five different types of digital camera. Flowers and leaves had overlapping but distinct colour distributions. Calculated colour differences corresponded well with qualitative comparisons. Estimates of proportional cover of yellow flowers identified using colour measurements correlated well with estimates obtained by measuring and counting individual flowers. Digital SLR and mirrorless cameras were superior to phone cameras and point-and-shoot cameras for producing reliable measurements, particularly under variable lighting conditions. The analysis of digital images taken with digital cameras is a practicable method for quantifying plant flower and leaf colour in the field or lab. Quantitative, repeatable measurements allow for comparisons between species and generalisations across species and studies. This allows plant colour to be related to human perception and preferences and, ultimately, species management.
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Affiliation(s)
- Dave Kendal
- Australian Research Centre for Urban Ecology, Royal Botanic Gardens, Melbourne, Victoria, Australia.
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