Topographic Analysis of Intertidal Polychaete Reefs (Sabellaria alveolata) at a Very High Spatial Resolution

In temperate coastal regions of Western Europe, the polychaete Sabellaria alveolata (Linné) builds large intertidal reefs of several hectares on soft-bottom substrates. These reefs are protected by the European Habitat Directive EEC/92/43 under the status of biogenic structures hosting a high biodiversity and providing ecological functions such as protection against coastal erosion. As an alternative to time-consuming field campaigns, a UAV-based Structure-from-Motion photogrammetric survey was carried out in October 2020 over Noirmoutier Island (France) where the second-largest known European reef is located in a tidal delta. A DJI Phantom 4 Multispectral UAV provided a topographic dataset at very high resolutions of 5 cm/pixel for the Digital Surface Model (DSM) and 2.63 cm/pixel for the multispectral orthomosaic images. The reef footprint was mapped using a combination of two topographic indices: the Topographic Openness Index and the Topographic Position Index. The reef structures covered an area of 8.15 ha, with 89% corresponding to the main reef composed of connected and continuous biogenic structures, 7.6% of large isolated structures (<60 m2), and 4.4% of small isolated reef clumps (<2 m2). To further describe the topographic complexity of the reef, the Geomorphon landform classification was used. The spatial distribution of tabular platforms considered as a healthy stage of the reef in contrast to a degraded stage was mapped with a proxy that consists in comparing the reef volume to a theoretical tabular-shaped reef volume. Epibionts colonizing the reef (macroalgae, mussels, and oysters) were also mapped by combining multispectral indices such as the Normalised Difference Vegetation Index and simple band ratios with topographic indices. A confusion matrix showed that macroalgae and mussels were satisfactorily identified but that oysters could not be detected by an automated procedure due to their spectral complexity. The topographic indices used in this work should now be further exploited to propose a health index for these large intertidal reefs.

Environmental Drivers of Diversification and Hybridization in Neotropical Butterflies

Studying how the environment shapes current biodiversity patterns in species rich regions is a fundamental issue in biogeography, ecology, and conservation. However, in the Neotropics, the study of the forces driving species distribution and richness, is mostly based on vertebrates and plants. In this study, we used 54,392 georeferenced records for 46 species and 1,012 georeferenced records for 38 interspecific hybrids of the Neotropical Heliconius butterflies to investigate the role of the environment in shaping their distribution and richness, as well as their geographic patterns of phylogenetic diversity and phylogenetic endemism. We also evaluated whether niche similarity promotes hybridization in Heliconius. We found that these insects display five general distribution patterns mostly explained by precipitation and isothermality, and to a lesser extent, by altitude. Interestingly, altitude plays a major role as a predictor of species richness and phylogenetic diversity, while precipitation explains patterns of phylogenetic endemism. We did not find evidence supporting the role of the environment in facilitating hybridization because hybridizing species do not necessarily share the same climatic niche despite some of them having largely overlapping geographic distributions. Overall, we confirmed that, as in other organisms, high annual temperature, a constant supply of water, and spatio-topographic complexity are the main predictors of diversity in Heliconius. However, future studies at large scale need to investigate the effect of microclimate variables and ecological interactions.

Untangling the ecological signal in the dental morphology in the bat superfamily Noctilionoidea

Diet has been linked to the diversification of the bat superfamily Noctilionoidea, a group that underwent an impressive ecological adaptive radiation within Mammalia. For decades, studies have explored morphological adaptations and diversity of noctilionoid bats to reveal macroevolutionary trajectories in their ecological diversity. Surprisingly, despite such interest and recent application of novel techniques, ecomorphological studies have failed to fully resolve the link between diet and a critical component of the feeding apparatus: dental morphology. Using multivariate dental topographic analysis and phylogenetic comparative methods, we examined the phylogenetic, biological and ecological signal in the dental morphology of noctilionoid bats. Analysing the lower first molars of 110 species, we tested the effect of diet on dental morphology, accounting for three different dimensions of diet (guild, composition and breadth). Phylogenetic and allometric structuring of the dental topography data shows it does not respond only to diet, highlighting the need to account for multiple sources of variation. Frugivorous noctilionoids have sharper molars compared to other frugivorous mammals. Nectarivorous noctilionoids showed reduced lower molar crown height and steepness, whereas animalivorous species had larger molars. Dietary composition suggested that the intensity of exploitation of a resource is also linked to different dimensions of dental morphology. Large molar area positively correlated with increased carnivory, whereas crown height and slope correlated positively with insectivory, and negatively with frugivory and nectarivory. Dietary breadth showed that generalist species had greater molar sharpness and topographic complexity, whereas specialist herbivores and specialist animalivores fell at opposite ends in the range of tooth steepness and crown height. Together, the results suggest that adaptations affecting different attributes of dental morphology likely facilitated the dietary diversity and specialisation found in Noctilionoidea.

Climatic niche conservatism shapes the ecological assembly of Hawaiian arthropod communities

Spatial variation in climatic conditions along elevation gradients provides an important backdrop by which communities assemble and diversify. Lowland habitats tend to be connected through time, whereas highlands can be continuously or periodically isolated, conditions that have been hypothesized to promote high levels of species endemism. This tendency is expected to be accentuated among taxa that show niche conservatism within a given climatic envelope. While species distribution modeling approaches have allowed extensive exploration of niche conservatism among target taxa, a broad understanding of the phenomenon requires sampling of entire communities. Species-rich groups such as arthropods are ideal case studies for understanding ecological and biodiversity dynamics along elevational gradients given their important functional role in many ecosystems, but community-level studies have been limited due to their tremendous diversity. Here, we develop a novel semi-quantitative metabarcoding approach that combines specimen counts and size-sorting to characterize arthropod community-level diversity patterns along two elevational gradients across two volcanoes on the island of Hawai'i. We find that arthropod communities between the two transects become increasingly distinct compositionally at higher elevations. Resistance surface approaches suggest that climatic differences between sampling localities are an important driver in shaping beta-diversity patterns, though the relative importance of climate varies across taxonomic groups. Nevertheless, the climatic niche position of OTUs between transects was highly correlated, suggesting that climatic filters shape the colonization between adjacent volcanoes. Taken together, our results highlight climatic niche conservatism as an important factor shaping ecological assembly along elevational gradients and suggest topographic complexity as an important driver of diversification.

Localized environmental heterogeneity drives the population differentiation of two endangered and endemic Opisthopappus Shih species

Background Climate heterogeneity not only indirectly shapes the genetic structures of plant populations, but also drives adaptive divergence by impacting demographic dynamics. The variable localized climates and topographic complexity of the Taihang Mountains make them a major natural boundary in Northern China that influences the divergence of organisms distributed across this region. Opisthopappus is an endemic genus of the Taihang Mountains that includes only two spatially partitioned species Opisthopappus longilobus and Opisthopappus taihangensis. For this study, the mechanisms behind the genetic variations in Opisthopappus populations were investigated. Results Using SNP and InDel data coupled with geographic and climatic information, significant genetic differentiation was found to exist either between Opisthopappus populations or two species. All studied populations were divided into two genetic groups with the differentiation of haplotypes between the groups. At approximately 17.44 Ma of the early Miocene, O. taihangensis differentiated from O. longilobus under differing precipitation regimes due to the intensification of the Asian monsoon. Subsequently, intraspecific divergence might be induced by the dramatic climatic transformation from the mid- to late Miocene. During the Pleistocene period, the rapid uplift of the Taihang Mountains coupled with violent climatic oscillations would further promote the diversity of the two species. Following the development of the Taihang Mountains, its complex topography created geographical and ecological heterogeneity, which could lead to spatiotemporal isolation between the Opisthopappus populations. Thus the adaptive divergence might occur within these intraspecific populations in the localized heterogeneous environment of the Taihang Mountains. Conclusions The localized environmental events through the integration of small-scale spatial effects impacted the demographic history and differentiation mechanism of Opisthopappus species in the Taihang Mountains. The results provide useful information for us to understand the ecology and evolution of organisms in the mountainous environment from population and species perspective.

Bivalve Diversity on the Continental Shelf and Deep Sea of the Perdido Fold Belt, Northwest Gulf of Mexico, Mexico

Mollusk diversity in coastal areas of the Gulf of Mexico (GOM) has been studied extensively, but this is not the case for deep-water habitats. We present the first quantitative characterization of mollusks in shallow and deep waters of the Perdido Fold Belt. The data came from two research cruises completed in 2017. Sediment samples were collected from 56 sites using a 0.25-m2 box corer. We tested hypotheses about spatial patterns of α, β, and γ-diversity of bivalves in two water-depth zones, the continental shelf (43–200 m) and bathyal zone (375–3563 m). A total of 301 bivalves belonging to 39 species were identified. The two zones display similar levels of γ-diversity, but host different bivalve assemblages. In general, α-diversity was higher on the continental shelf, whereas β-diversity was higher in the bathyal zone. These patterns can be explained by the higher input of carbon (energy) to the near-coast shelf zone, as well as by the greater topographic complexity of habitats in the bathyal zone. These results enabled us to propose redirection of sampling efforts for environmental characterization from continental zones to the deep-water zone, especially in the context of environmental assessments during oil and gas exploration and production.

Evaluating the Ability of Multi-Sensor Techniques to Capture Topographic Complexity

This study provides an evaluation of multiple sensors by examining their precision and ability to capture topographic complexity. Five different small unmanned aerial systems (sUAS) were evaluated, each with a different camera, Global Navigation Satellite System (GNSS), and Inertial Measurement Unit (IMU). A lidar was also used on the largest sUAS and as a mobile scanning system. The quality of each of the seven platforms were compared to actual surface measurements gathered with real-time kinematic (RTK)-GNSS and terrestrial laser scanning. Rigorous field and photogrammetric assessment workflows were designed around a combination of structure-from-motion to align images, Monte Carlo simulations to calculate spatially variable error, object-based image analysis to create objects, and MC32-PM algorithm to calculate vertical differences between two dense point clouds. The precision of the sensors ranged 0.115 m (minimum of 0.11 m for MaRS with Sony A7iii camera and maximum of 0.225 m for Mavic2 Pro). In a heterogenous test location with varying slope and high terrain roughness, only three of the seven mobile platforms performed well (MaRS, Inspire 2, and Phantom 4 Pro). All mobile sensors performed better for the homogenous test location, but the sUAS lidar and mobile lidar contained the most noise. The findings presented herein provide insights into cost–benefit of purchasing various sUAS and sensors and their ability to capture high-definition topography.

Computing water flow through complex landscapes – Part 3: Fill–Spill–Merge: flow routing in depression hierarchies

Depressions – inwardly draining regions – are common to many landscapes. When there is sufficient moisture, depressions take the form of lakes and wetlands; otherwise, they may be dry. Hydrological flow models used in geomorphology, hydrology, planetary science, soil and water conservation, and other fields often eliminate depressions through filling or breaching; however, this can produce unrealistic results. Models that retain depressions, on the other hand, are often undesirably expensive to run. In previous work we began to address this by developing a depression hierarchy data structure to capture the full topographic complexity of depressions in a region. Here, we extend this work by presenting the Fill–Spill–Merge algorithm that utilizes our depression hierarchy data structure to rapidly process and distribute runoff. Runoff fills depressions, which then overflow and spill into their neighbors. If both a depression and its neighbor fill, they merge. We provide a detailed explanation of the algorithm and results from two sample study areas. In these case studies, the algorithm runs 90–2600 times faster (with a reduction in compute time of 2000–63 000 times) than the commonly used Jacobi iteration and produces a more accurate output. Complete, well-commented, open-source code with 97 % test coverage is available on GitHub and Zenodo.

Seabed video and still images from the northern Weddell Sea and the western flanks of the Powell Basin

Research vessels equipped with fibre optic and copper-cored coaxial cables support the live onboard inspection of high-bandwidth marine data in real time. This allows for towed still-image and video sleds to be equipped with latest-generation higher-resolution digital camera systems and additional sensors. During RV Polarstern expedition PS118 in February–April 2019, the recently developed Ocean Floor Observation and Bathymetry System (OFOBS) of the Alfred Wegener Institute was used to collect still-image and video data from the seafloor at a total of 11 predominantly ice-covered locations in the northern Weddell Sea and Powell Basin. Still images of 26-megapixel resolution and HD (high-definition) quality video data were recorded throughout each deployment. In addition to downward-facing video and still-image cameras, the OFOBS also mounted side-scanning and forward-facing acoustic systems, which facilitated safe deployment in areas of high topographic complexity, such as above the steep flanks of the Powell Basin and the rapidly shallowing, iceberg-scoured Nachtigaller Shoal. To localise collected data, the OFOBS system was equipped with a Posidonia transponder for ultra-short baseline triangulation of OFOBS positions. All images are available from: https://doi.org/10.1594/PANGAEA.911904 (Purser et al., 2020).