Hyperspectral remote sensing provides a wealth of data essential for vegetation studies encompassing a wide range of applications (e.g., species diversity, ecosystem monitoring, etc.). The development and implementation of UAV-based hyperspectral systems have gained popularity over the last few years with novel efforts to demonstrate their operability. Here we describe the design, implementation, testing, and early results of the UAV-μCASI system, which showcases a relatively new hyperspectral sensor suitable for ecological studies. The μCASI (288 spectral bands) was integrated with a custom IMU-GNSS data recorder built in-house and mounted on a commercially available hexacopter platform with a gimbal to maximize system stability and minimize image distortion. We deployed the UAV-μCASI at three sites with different ecological characteristics across Canada: The Mer Bleue peatland, an abandoned agricultural field on Ile Grosbois, and the Cowichan Garry Oak Preserve meadow. We examined the attitude data from the flight controller to better understand airframe motion and the effectiveness of the integrated Differential Real Time Kinematic (RTK) GNSS. We describe important aspects of mission planning and show the effectiveness of a bundling adjustment to reduce boresight errors as well as the integration of a digital surface model for image geocorrection to account for parallax effects at the Mer Bleue test site. Finally, we assessed the quality of the radiometrically and atmospherically corrected imagery from the UAV-μCASI and found a close agreement (<2%) between the image derived reflectance and in-situ measurements. Overall, we found that a flight speed of 2.7 m/s, careful mission planning, and the integration of the bundling adjustment were important system characteristics for optimizing the image quality at an ultra-high spatial resolution (3–5 cm). Furthermore, environmental considerations such as wind speed (<5 m/s) and solar illumination also play a critical role in determining image quality. With the growing popularity of “turnkey” UAV-hyperspectral systems on the market, we demonstrate the basic requirements and technical challenges for these systems to be fully operational.

The rapid increase of low-cost consumer-grade to enterprise-level unmanned aerial systems (UASs) has resulted in the exponential use of these systems in many applications. Structure from motion with multiview stereo (SfM-MVS) photogrammetry is now the baseline for the development of orthoimages and 3D surfaces (e.g., digital elevation models). The horizontal and vertical positional accuracies (x, y and z) of these products in general, rely heavily on the use of ground control points (GCPs). However, for many applications, the use of GCPs is not possible. Here we tested 14 UASs to assess the positional and within-model accuracy of SfM-MVS reconstructions of low-relief landscapes without GCPs ranging from consumer to enterprise-grade vertical takeoff and landing (VTOL) platforms. We found that high positional accuracy is not necessarily related to the platform cost or grade, rather the most important aspect is the use of post-processing kinetic (PPK) or real-time kinetic (RTK) solutions for geotagging the photographs. SfM-MVS products generated from UAS with onboard geotagging, regardless of grade, results in greater positional accuracies and lower within-model errors. We conclude that where repeatability and adherence to a high level of accuracy are needed, only RTK and PPK systems should be used without GCPs.

Peatlands play a fundamental role in climate regulation through their long-term accumulation of atmospheric carbon. Despite their resilience, peatlands are vulnerable to climate change. Remote sensing offers the opportunity to better understand these ecosystems at large spatial scales through time. In this study, we estimated water table depth from a 6-year time sequence of airborne shortwave infrared (SWIR) hyperspectral imagery. We found that the narrowband index NDWI₁₂₄₀ is a strong predictor of water table position. However, we illustrate the importance of considering peatland anisotropy on SWIR imagery from the summer months when the vascular plants are in full foliage, as not all illumination conditions are suitable for retrieving water table position. We also model net ecosystem exchange (NEE) from 10 years of Landsat TM5 imagery and from 4 years of Landsat OLI 8 imagery. Our results show the transferability of the model between imagery from sensors with similar spectral and radiometric properties such as Landsat 8 and Sentinel-2. NEE modeled from airborne hyperspectral imagery more closely correlated to eddy covariance tower measurements than did models based on satellite images. With fine spectral, spatial and radiometric resolutions, new generation satellite imagery and airborne hyperspectral imagery allow for monitoring the response of peatlands to both allogenic and autogenic factors.

Substrate complexity is strongly related to biodiversity in aquatic habitats. We illustrate a novel framework, based on Structure-from-Motion photogrammetry (SfM) and Multi-View Stereo (MVS) photogrammetry, to quantify habitat complexity in freshwater ecosystems from Unmanned Aerial Vehicle (UAV) and underwater photography. We analysed sites in the Xingu river basin, Brazil, to reconstruct the 3D structure of the substrate and identify and map habitat classes important for maintaining fish assemblage biodiversity. From the digital models we calculated habitat complexity metrics including rugosity, slope and 3D fractal dimension. The UAV based SfM-MVS products were generated at a ground sampling distance (GSD) of 1.20–2.38 cm while the underwater photography produced a GSD of 1 mm. Our results show how these products provide spatially explicit complexity metrics, which are more comprehensive than conventional arbitrary cross sections. Shallow neural network classification of SfM-MVS products of substrate exposed in the dry season resulted in high accuracies across classes. UAV and underwater SfM-MVS is robust for quantifying freshwater habitat classes and complexity and should be chosen whenever possible over conventional methods (e.g., chain-and-tape) because of the repeatability, scalability and multi-dimensional nature of the products. The SfM-MVS products can be used to identify high priority freshwater sectors for conservation, species occurrences and diversity studies to provide a broader indication for overall fish species diversity and provide repeatability for monitoring change over time.

The mapping of peatland microtopography (e.g., hummocks and hollows) is key for understanding and modeling complex hydrological and biochemical processes. Here we compare unmanned aerial system (UAS) derived structure-from-motion (SfM) photogrammetry and LiDAR point clouds and digital surface models of an ombrotrophic bog, and we assess the utility of these technologies in terms of payload, efficiency, and end product quality (e.g., point density, microform representation, etc.). In addition, given their generally poor accessibility and fragility, peatlands provide an ideal model to test the usability of virtual reality (VR) and augmented reality (AR) visualizations. As an integrated system, the LiDAR implementation was found to be more straightforward, with fewer points of potential failure (e.g., hardware interactions). It was also more efficient for data collection (10 vs. 18 min for 1.17 ha) and produced considerably smaller file sizes (e.g., 51 MB vs. 1 GB). However, SfM provided higher spatial detail of the microforms due to its greater point density (570.4 vs. 19.4 pts/m²). Our VR/AR assessment revealed that the most immersive user experience was achieved from the Oculus Quest 2 compared to Google Cardboard VR viewers or mobile AR, showcasing the potential of VR for natural sciences in different environments. We expect VR implementations in environmental sciences to become more popular, as evaluations such as the one shown in our study are carried out for different ecosystems.