Search Results (25)

Woody plant encroachment (WPE) is transforming grasslands globally, yet accurately mapping this process remains challenging. State-funded, publicly available high-resolution aerial imagery offers a potential solution, including the USDA’s National Agriculture Imagery Program (NAIP) and NSF’s National Ecological Observatory Network (NEON) Aerial Observation Platform (AOP). We evaluated the accuracy of land cover classification using NAIP, NEON, and both sources combined. We compared two machine learning models—support vector machines and random forests—implemented in R using large training and evaluation data sets. Our study site, Konza Prairie Biological Station, is a long-term experiment in which variable fire and grazing have created mosaics of herbaceous plants, shrubs, deciduous trees, and evergreen trees (Juniperus virginiana). All models achieved high overall accuracy (>90%), with NEON slightly outperforming NAIP. NAIP underperformed in detecting evergreen trees (52–78% vs. 83–86% accuracy with NEON). NEON models relied on LiDAR-based canopy height data, whereas NAIP relied on multispectral bands. Combining data from both platforms yielded the best results, with 97.7% overall accuracy. Vegetation indices contributed little to model accuracy, including NDVI (normalized digital vegetation index) and EVI (enhanced vegetation index). Both machine learning methods achieved similar accuracy. Our results demonstrate that free, high-resolution imagery and open-source tools can enable accurate, high-resolution, landscape-scale WPE monitoring. Broader adoption of such approaches could substantially improve the monitoring and management of grassland biodiversity, ecosystem function, ecosystem services, and environmental resilience. Full article

The ICESat-2 Land and Vegetation Height (ATL08) product is a new control point dataset for large-scale topographic mapping and geodetic surveying. However, its elevation accuracy is typically affected by multiple factors. The study aims to propose a new approach to classify ATL08 terrain estimates into different accuracy levels and extract reliable ground control points (GCPs) from ICESat-2 ATL08. Specifically, the methodology is divided into three stages. First, the ATL08 terrain estimates are matched with the raw ATL03 photon cloud data, and the ATL08 terrain estimates are used to fit a continuous terrain curve. Then, using the fitted continuous terrain curve and raw ATL03 photon cloud data, a pseudo-waveform is generated for grading the ATL08 terrain estimates. Finally, all the ATL08 terrain estimates are graded based on the peak characteristics of the generated pseudo-waveform. To validate the feasibility of the proposed method, four study areas from the National Ecological Observatory Network (NEON), characterized by various terrain features and forest types were selected. High-accuracy airborne lidar data were used to evaluate the accuracy of graded ICESat-2 terrain estimates. The results demonstrate that the method effectively classified all ATL08 terrain estimates into different accuracy levels and successfully extracted high-accuracy GCPs. The root mean square errors (RMSEs) of the first accuracy level in the four selected study areas were 0.99 m, 0.51 m, 1.88 m, and 0.65 m, representing accuracy improvement of 51.7%, 58.2%, 83.1%, and 68.8%, respectively, compared to the original ATL08 terrain estimates before classifying. Additionally, a comparison with the conventional threshold-based GCP extraction method demonstrated the superior performance of our proposed approach. This study introduces a new approach to extract high-quality elevation control points from ICESat-2 ATL08 data, particularly in forested areas. Full article

Tree species classification using hyperspectral imagery shows incredible promise in developing a large-scale, high-resolution model for identifying tree species, providing unprecedented details on global tree species distribution. Many questions remain unanswered about the best practices for creating a global, general hyperspectral tree species classification model. This study aims to address three key issues in creating a hyperspectral species classification model. We assessed the effectiveness of three data-labeling methods to create training data, three data-splitting methods for training/validation/testing, and machine-learning and deep-learning (including semi-supervised deep-learning) models for tree species classification using hyperspectral imagery at National Ecological Observatory Network (NEON) Sites. Our analysis revealed that the existing data-labeling method using the field vegetation structure survey performed reasonably well. The random tree data-splitting technique was the most efficient method for both intra-site and inter-site classifications to overcome the impact of spatial autocorrelation to avoid the potential to create a locally overfit model. Deep learning consistently outperformed random forest classification; both semi-supervised and supervised deep-learning models displayed the most promising results in creating a general taxa-classification model. This work has demonstrated the possibility of developing tree-classification models that can identify tree species from outside their training area and that semi-supervised deep learning may potentially utilize the untapped terabytes of unlabeled forest imagery. Full article

The leaf area index (LAI) is a critical variable for forest ecosystem processes. Passive optical and active LiDAR remote sensing have been used to retrieve LAI. LiDAR data have good penetration to provide vertical structure distribution and deliver the ability to estimate forest LAI, such as the Ice, Cloud, and Land Elevation Satellite-2 (ICESat-2). Segment size and beam type are important for ICESat-2 LAI estimation, as they affect the amount of signal photons returned. However, the current ICESat-2 LAI estimation only covered a limited number of sites, and the performance of LAI estimation with different segment sizes has not been clearly compared. Moreover, ICESat-2 LAIs derived from strong and weak beams lack a comparative analysis. This study derived and evaluated LAI from ICESat-2 data over the National Ecological Observatory Network (NEON) sites in North America. The LAI estimated from ICESat-2 for different segment sizes (20, 100, and 200 m) and beam types (strong beam and weak beam) were compared with those from the airborne laser scanning (ALS) and the Copernicus Global Land Service (CGLS). The results show that the LAI derived from strong beams performs better than that of weak beams because more photon signals are received. The LAI estimated from the strong beam at the 200 m segment size shows the highest consistency with those from the ALS data (R = 0.67). Weak beams also present the potential to estimate LAI and have moderate agreement with ALS (R = 0.52). The ICESat-2 LAI shows moderate consistency with ALS for most forest types, except for the evergreen forest. The ICESat-2 LAI shows satisfactory agreement with the CGLS 300 m LAI product (R = 0.67, RMSE = 1.94) and presents a higher upper boundary. Overall, the ICESat-2 can characterize canopy structural parameters and provides the ability to estimate LAI, which may promote the LAI product generated from the photon-counting LiDAR. Full article

The National Ecological Observation Network (NEON) is a thirty-year, open-source, continental-scale ecological observation platform. The objective of the NEON project is to provide data to facilitate the understanding and forecasting of the ecological impacts of anthropogenic change at a continental scale. Fish are sentinel taxa in freshwater systems, and the NEON has been sampling and collecting fish assemblage data at wadable stream sites for six years. One to two NEON wadable stream sites are located in sixteen domains from Alaska to Puerto Rico. The goal of site selection was that sites represent local conditions but with the intention that site data be analyzed at a continental observatory level. Site selection did not include fish assemblage criteria. Without using fish assemblage criteria, anomalies in fish assemblages at the site level may skew the expected spatial patterns of North American stream fish assemblages, thereby hindering change detection in subsequent years. However, if NEON stream sites are representative of the current spatial distributions of North American stream fish assemblages, we could expect to find the most diverse sites in Atlantic drainages and the most depauperate sites in Pacific drainages. Therefore, we calculated the alpha and regional (beta) diversities of wadable stream sites to highlight spatial patterns. As expected, NEON sites followed predictable spatial diversity patterns, which could facilitate future change detection and attribution to changes in environmental drivers, if any. Full article

Accurately predicting soil respiration (R_s) has received considerable attention recently due to its importance as a significant carbon flux back to the atmosphere. Even small changes in R_s can have a significant impact on the net ecosystem productivity of forests. Variations in R_s have been related to both spatial and temporal variation due to changes in both abiotic and biotic factors. This study focused on soil temperature and moisture and changes in the species composition of the overstory and understory and how these variables impact R_s. Sample plots consisted of four vegetation types: eastern hemlock (Tsuga canadensis L. Carriere)-dominated overstory, mountain laurel (Kalmia latifolia L.)-dominated understory, hardwood-dominated overstory, and cinnamon fern (Osmundastrum cinnamomeum (L.) C. Presl)-dominated understory, with four replications of each. Remotely sensed data collected for each plot, light detection and ranging, and hyperspectral data, were compiled from the National Ecological Observatory Network (NEON) to determine if they could improve predictions of R_s. Soil temperature and soil moisture explained 82% of the variation in R_s. There were no statistically significant differences between the average annual R_s rates among the vegetation types. However, when looking at monthly R_s, cinnamon fern plots had statistically higher rates in the summer when it was abundant and hemlock had significantly higher rates in the dormant months. At the same soil temperature, the vegetation types’ R_s rates were not statistically different. However, the cinnamon fern plots showed the most sensitivity to soil moisture changes and were the wettest sites. Normalized Difference Lignin Index (NDLI) was the only vegetation index (VI) to vary between the vegetation types. It also correlated with R_s for the months of August and September. Photochemical reflectance index (PRI), normalized difference vegetation index (NDVI), and normalized difference nitrogen index (NDNI) also correlated with September’s R_s. In the future, further research into the accuracy and the spatial scale of VIs could provide us with more information on the capability of VIs to estimate R_s at these fine scales. The differences we found in monthly R_s rates among the vegetation types might have been driven by varying litter quality and quantity, litter decomposition rates, and root respiration rates. Future efforts to understand carbon dynamics on a broader scale should consider the temporal and finer-scale differences we observed. Full article

The leaf area index (LAI) is a vital parameter for quantifying the material and energy exchange between terrestrial ecosystems and the atmosphere. The Global Ecosystem Dynamics Investigation (GEDI), with its mission to produce a near-global map of forest structure, provides a product of the effective leaf area index (referred to as GEDI LAIe). However, it is unclear about the performance of GEDI LAIe across different temperate forest types and the degree of factors influencing GEDI LAIe performance. This study assessed the accuracy of GEDI LAIe in temperate forests and quantifies the effects of various factors, such as the difference of gap fraction (DGF) between GEDI and discrete point cloud Lidar of the National Ecological Observatory Network (NEON), sensor system parameters, and characteristics of the canopy, topography, and soil. The reference data for the LAIe assessment were derived from the NEON discrete point cloud Lidar, referred to as NEON Lidar LAIe, covering 12 forest types across 22 sites in the Continental United States (the CONUS). Results showed that GEDI underestimated LAIe (Bias: −0.56 m²/m²), with values of the mean absolute error (MAE), root mean square error (RMSE), percent bias (%Bias), and percent RMSE (%RMSE) of 0.70 m²/m², 0.89 m²/m², −0.20, and 0.31, respectively. Among forest types, the underestimation of GEDI LAIe in broadleaf forests and mixed forests was generally greater than that in coniferous forests, which showed a moderate error (%RMSE: 0.33~0.52). Factor analysis indicated that multiple factors explained 52% variance of the GEDI LAIe error, among which the DGF contributed the most with a relative importance of 49.82%, followed by characteristics of canopy and soil with a relative importance of 23.20% and 16.18%, respectively. The DGF was a key pivot for GEDI LAIe error; that is, other factors indirectly influence the GEDI LAIe error by affecting the DGF first. Our findings demonstrated that the GEDI LAIe product has good performance, and the factor analysis is expected to shed some light on further improvements in GEDI LAIe estimation. Full article

Land cover changes and conversions are occurring rapidly in response to human activities throughout the world. Woody plant encroachment (WPE) is a type of land cover conversion that involves the proliferation and/or densification of woody plants in an ecosystem. WPE is especially prevalent in drylands, where subtle changes in precipitation and disturbance regimes can have dramatic effects on vegetation structure and degrade ecosystem functions and services. Accurately determining the distribution of woody plants in drylands is critical for protecting human and natural resources through woody plant management strategies. Using an object-based approach, we have used novel open-source remote sensing and in situ data from Santa Rita Experimental Range (SRER), National Ecological Observatory Network (NEON), Arizona, USA with machine learning algorithms and tested each model’s efficacy for estimating fractional woody cover (FWC) to quantify woody plant extent. Model performance was compared using standard model assessment metrics such as accuracy, sensitivity, specificity, and runtime to assess model variables and hyperparameters. We found that decision tree-based models with a binary classification scheme performed best, with sequential models (Boosting) slightly outperforming independent models (Random Forest) for both object classification and FWC estimates. Mean canopy height and mean, median, and maximum statistics for all vegetation indices were found to have highest variable importance. Optimal model hyperparameters and potential limitations of the NEON dataset for classifying woody plants in dryland regions were also identified. Overall, this study lays the groundwork for developing machine learning models for dryland woody plant management using solely NEON data. Full article

Prescribed fire is used globally as a habitat restoration tool and is widely accepted as supporting biotic diversity. However, in fire-prone ecosystems, research has sometimes documented post-fire reduction in ant diversity and accompanying changes in seed removal behavior. This is concerning because ants provide important ecosystem services that can aid in restoration efforts, including seed dispersal. In this study, we examined the immediate impacts of fire in the well-studied ant community of longleaf pine forests (LLP) in the SE USA. We surveyed seed-removing ant species in a LLP sandhill ecosystem to investigate the effects of prescribed fire and coarse woody debris (CWD), a nesting and foraging resource, on ant community composition and ant–seed interactions. Seed-removing ants comprised a significant portion of detected ant species (20 of 45); eight of these species are documented removing seeds for the first time. Following an experimentally applied low-intensity summer burn, decreases in seed remover detection were observed, along with reductions in the number of seeds removed, across both burned and unburned areas; neither prescribed fire nor proximity to CWD significantly influenced these factors. Together, these results show that seed-removing ant species constitute a substantial proportion of the LLP sandhill ant community and are relatively robust to habitat changes mediated by low-intensity prescribed burning during the growing season. Considering ant community resiliency to fire, we can infer that using prescribed fire aligns with the goals of restoring and maintaining biotic diversity in this fire-prone ecosystem. Full article

Ecological forecasting is an emerging approach to estimate the future state of an ecological system with uncertainty, allowing society to better manage ecosystem services. Ecological forecasting is a core mission of the U.S. National Ecological Observatory Network (NEON) and several federal agencies, yet, to date, forecasting training has focused on graduate students, representing a gap in undergraduate ecology curricula. In response, we developed a teaching module for the Macrosystems EDDIE (Environmental Data-Driven Inquiry and Exploration; MacrosystemsEDDIE.org) educational program to introduce ecological forecasting to undergraduate students through an interactive online tool built with R Shiny. To date, we have assessed this module, “Introduction to Ecological Forecasting,” at ten universities and two conference workshops with both undergraduate and graduate students (N = 136 total) and found that the module significantly increased undergraduate students’ ability to correctly define ecological forecasting terms and identify steps in the ecological forecasting cycle. Undergraduate and graduate students who completed the module showed increased familiarity with ecological forecasts and forecast uncertainty. These results suggest that integrating ecological forecasting into undergraduate ecology curricula will enhance students’ abilities to engage and understand complex ecological concepts. Full article

Consistent and spatially explicit periodic monitoring of forest structure is essential for estimating forest-related carbon emissions, analyzing forest degradation, and supporting sustainable forest management policies. To date, few products are available that allow for continental to global operational monitoring of changes in canopy structure. In this study, we explored the synergy between the NASA’s spaceborne Global Ecosystem Dynamics Investigation (GEDI) waveform LiDAR and the Visible Infrared Imaging Radiometer Suite (VIIRS) data to produce spatially explicit and consistent annual maps of canopy height (CH), percent canopy cover (PCC), plant area index (PAI), and foliage height diversity (FHD) across the conterminous United States (CONUS) at a 1-km resolution for 2013–2020. The accuracies of the annual maps were assessed using forest structure attribute derived from airborne laser scanning (ALS) data acquired between 2013 and 2020 for the 48 National Ecological Observatory Network (NEON) field sites distributed across the CONUS. The root mean square error (RMSE) values of the annual canopy height maps as compared with the ALS reference data varied from a minimum of 3.31-m for 2020 to a maximum of 4.19-m for 2017. Similarly, the RMSE values for PCC ranged between 8% (2020) and 11% (all other years). Qualitative evaluations of the annual maps using time series of very high-resolution images further suggested that the VIIRS-derived products could capture both large and “more” subtle changes in forest structure associated with partial harvesting, wind damage, wildfires, and other environmental stresses. The methods developed in this study are expected to enable multi-decadal analysis of forest structure and its dynamics using consistent satellite observations from moderate resolution sensors such as VIIRS onboard JPSS satellites. Full article

The decline in biodiversity in Mediterranean-type ecosystems (MTEs) and other shrublands underscores the importance of understanding the trends in species loss through consistent vegetation mapping over broad spatial and temporal ranges, which is increasingly accomplished with optical remote sensing (imaging spectroscopy). Airborne missions planned by the National Aeronautics and Space Administration (NASA) and other groups (e.g., US National Ecological Observatory Network, NEON) are essential for improving high-quality maps of vegetation and plant species. These surveys require robust and efficient ground calibration/validation data; however, barriers to ground-data collection exist, such as steep terrain, which is a common feature of Mediterranean-type ecosystems. We developed and tested a method for rapidly collecting ground-truth data for shrubland plant communities across steep topographic gradients in southern California. Our method utilizes semi-aerial photos taken with a high-resolution digital camera mounted on a telescoping pole to capture groundcover, and a point-intercept image-classification program (Photogrid) that allows efficient sub-sampling of field images to derive vegetation percent-cover estimates while reducing human bias. Here, we assessed the quality of data collection using the image-based method compared to a traditional point-intercept ground survey and performed time trials to compare the efficiency of various survey efforts. The results showed no significant difference in estimates of percent cover and Simpson’s diversity derived from the point-intercept and those derived using the image-based method; however, there was lower correspondence in estimates of species richness and evenness. The image-based method was overall more efficient than the point-intercept surveys, reducing the total survey time by 13 to 46 min per plot depending on sampling effort. The difference in survey time between the two methods became increasingly greater when the vegetation height was above 1 m. Due to the high correspondence between estimates of species percent cover derived from the image-based compared to the point-intercept method, we recommend this type of survey for the verification of remote-sensing datasets featuring percent cover of individual species or closely related plant groups, for use in classifying UAS imagery, and especially for use in MTEs that have steep, rugged terrain and other situations such as tall, dense-growing shrubs where traditional field methods are dangerous or burdensome. Full article

Rangelands are composed of patchy, highly dynamic herbaceous plant communities that are difficult to quantify across broad spatial extents at resolutions relevant to their characteristic spatial scales. Furthermore, differentiation of these plant communities using remotely sensed observations is complicated by their similar spectral absorption profiles. To better quantify the impacts of land management and weather variability on rangeland vegetation change, we analyzed high resolution hyperspectral data produced by the National Ecological Observatory Network (NEON) at a 6500-ha experimental station (Central Plains Experimental Range) to map vegetation composition and change over a 5-year timescale. The spatial resolution (1 m) of the data was able to resolve the plant community type at a suitable scale and the information-rich spectral resolution (426 bands) was able to differentiate closely related plant community classes. The resulting plant community class map showed strong accuracy results from both formal quantitative measurements (F1 75% and Kappa 0.83) and informal qualitative assessments. Over a 5-year period, we found that plant community composition was impacted more strongly by weather than by the rangeland management regime. Our work displays the potential to map plant community classes across extensive areas of herbaceous vegetation and use resultant maps to inform rangeland ecology and management. Critical to the success of the research was the development of computational methods that allowed us to implement efficient and flexible analyses on the large and complex data. Full article

Ecologists are increasingly using macrosystems approaches to understand population, community, and ecosystem dynamics across interconnected spatial and temporal scales. Consequently, integrating macrosystems skills, including simulation modeling and sensor data analysis, into undergraduate and graduate curricula is needed to train future environmental biologists. Through the Macrosystems EDDIE (Environmental Data-Driven Inquiry and Exploration) program, we developed four teaching modules to introduce macrosystems ecology to ecology and biology students. Modules combine high-frequency sensor data from GLEON (Global Lake Ecological Observatory Network) and NEON (National Ecological Observatory Network) sites with ecosystem simulation models. Pre- and post-module assessments of 319 students across 24 classrooms indicate that hands-on, inquiry-based modules increase students’ understanding of macrosystems ecology, including complex processes that occur across multiple spatial and temporal scales. Following module use, students were more likely to correctly define macrosystems concepts, interpret complex data visualizations and apply macrosystems approaches in new contexts. In addition, there was an increase in student’s self-perceived proficiency and confidence using both long-term and high-frequency data; key macrosystems ecology techniques. Our results suggest that integrating short (1–3 h) macrosystems activities into ecology courses can improve students’ ability to interpret complex and non-linear ecological processes. In addition, our study serves as one of the first documented instances for directly incorporating concepts in macrosystems ecology into undergraduate and graduate ecology and biology curricula. Full article

Recent developments in diffuse reflectance soil spectroscopy have increasingly focused on building and using large soil spectral libraries with the purpose of supporting many activities relevant to monitoring, mapping and managing soil resources. A potential limitation of using a mid-infrared (MIR) spectral library developed by another laboratory is the need to account for inherent differences in the signal strength at each wavelength associated with different instrumental and environmental conditions. Here we apply predictive models built using the USDA National Soil Survey Center–Kellogg Soil Survey Laboratory (NSSC-KSSL) MIR spectral library (n = 56,155) to samples sets of European and US origin scanned on a secondary spectrometer to assess the need for calibration transfer using a piecewise direct standardization (PDS) approach in transforming spectra before predicting carbon cycle relevant soil properties (bulk density, CaCO₃, organic carbon, clay and pH). The European soil samples were from the land use/cover area frame statistical survey (LUCAS) database available through the European Soil Data Center (ESDAC), while the US soil samples were from the National Ecological Observatory Network (NEON). Additionally, the performance of the predictive models on PDS transfer spectra was tested against the direct calibration models built using samples scanned on the secondary spectrometer. On independent test sets of European and US origin, PDS improved predictions for most but not all soil properties with memory based learning (MBL) models generally outperforming partial least squares regression and Cubist models. Our study suggests that while good-to-excellent results can be obtained without calibration transfer, for most of the cases presented in this study, PDS was necessary for unbiased predictions. The MBL models also outperformed the direct calibration models for most of the soil properties. For laboratories building new spectroscopy capacity utilizing existing spectral libraries, it appears necessary to develop calibration transfer using PDS or other calibration transfer techniques to obtain the least biased and most precise predictions of different soil properties. Full article