Tropical reef fishes are widely regarded as being perhaps the most morphologically diverse vertebrate assemblage on earth, yet much remains to be discovered about the scope and patterns of this ...diversity. We created a morphospace of 2,939 species spanning 56 families of tropical Indo-Pacific reef fishes and established the primary axes of body shape variation, the phylogenetic consistency of these patterns, and whether dominant patterns of shape change can be accomplished by diverse underlying changes. Principal component analysis showed a major axis of shape variation that contrasts deep-bodied species with slender, elongate forms. Furthermore, using custom methods to compare the elongation vector (axis that maximizes elongation deformation) and the main vector of shape variation (first principal component) for each family in the morphospace, we showed that two thirds of the families diversify along an axis of body elongation. Finally, a comparative analysis using a principal coordinate analysis based on the angles among first principal component vectors of each family shape showed that families accomplish changes in elongation with a wide range of underlying modifications. Some groups such as Pomacentridae and Lethrinidae undergo decreases in body depth with proportional increases in all body regions, while other families show disproportionate changes in the length of the head (e.g., Labridae), the trunk or caudal region in all combinations (e.g., Pempheridae and Pinguipedidae). In conclusion, we found that evolutionary changes in body shape along an axis of elongation dominates diversification in reef fishes. Changes in shape on this axis are thought to have immediate implications for swimming performance, defense from gape limited predators, suction feeding performance and access to some highly specialized habitats. The morphological modifications that underlie changes in elongation are highly diverse, suggesting a role for a range of developmental processes and functional consequences.
The surface of marine animals is covered by abundant and diversified microbial communities, which have major roles for the health of their host. While such microbiomes have been deeply examined in ...marine invertebrates such as corals and sponges, the microbiomes living on marine vertebrates have received less attention. Specifically, the diversity of these microbiomes, their variability among species, and their drivers are still mostly unknown, especially among the fish species living on coral reefs that contribute to key ecosystem services while they are increasingly affected by human activities. Here, we investigated these knowledge gaps analyzing the skin microbiome of 138 fish individuals belonging to 44 coral reef fish species living in the same area.
Prokaryotic communities living on the skin of coral reef fishes are highly diverse, with on average more than 600 OTUs per fish, and differ from planktonic microbes. Skin microbiomes varied between fish individual and species, and interspecific differences were slightly coupled to the phylogenetic affiliation of the host and its ecological traits.
These results highlight that coral reef biodiversity is greater than previously appreciated, since the high diversity of macro-organisms supports a highly diversified microbial community. This suggest that beyond the loss of coral reefs-associated macroscopic species, anthropic activities on coral reefs could also lead to a loss of still unexplored host-associated microbial diversity, which urgently needs to be assessed.
Coral reefs are under increasing threat, and the loss of reef‐associated fishes providing valuable ecosystem services is accelerating. The monitoring of such rapid changes has become a challenge for ...ecologists and ecosystems managers using traditional approaches like scuba divers performing underwater visual censuses (UVC) or diver operated video recording (DOV). However, the use of small, low‐cost robots could help tackle the challenge of such monitoring, provided that they perform at least as well as diver‐based methods. To address this question, tropical fish assemblages from 13 fringing reefs around Mayotte Island (Indian Ocean) were monitored along 50 m‐long transects using stereo videos recorded by a semi‐autonomous underwater vehicle (SAUV) and by a scuba diver (Diver Operated stereo Video system, DOV). Differences between the methods were tested for complementary fish assemblage metrics (species richness, total biomass, total density, Shannon diversity and Pielou evenness) and for the number and size of nine targeted species. SAUV recorded on average 35% higher biomass than DOV which in turn recorded on average 12% higher species richness. Biomass differences were found to be due to SAUV monitoring larger fishes than DOV, a potential marker of human‐related fish avoidance behaviour. This study demonstrates that SAUV provides accurate metrics of coral reef fish biodiversity compared to diver‐based procedures. Given their ability to conduct video transects at high frequency, 100 m depth range and at a moderate cost, SAUV is a promising tool for monitoring fish assemblages in coral reef ecosystems.
New tools are needed in light of exosystemic global change monitoring, therefore we tested the possibility to use robots to perform coral reef fishes monitoring surveys. Thirteen fringing reefs around Mayotte Island (Indian Ocean) were surveyed along 50 m‐long transects using stereo videos recorded by a semi‐autonomous underwater vehicle (SAUV) and by the standard approach using a scuba‐diver operated stereo video system (DOV). SAUV recorded on average 35% higher biomass than DOV which recorded on average 12% higher species richness. The biomass differences were found to be due to SAUV monitoring larger fishes than DOV, a potential marker of human‐related fish wariness.
In the marine environment, fish contribute to key ecological processes such as controlling food‐webs through top‐down impacts, especially on algae. To date, the assessment of fish grazing activity ...has mostly been performed using short‐term (<1 h) censuses by divers or remote cameras which do not allow estimating the variability of grazing rate within and between days. However, understanding the temporal variation of fish activity and hence contribution of species to ecosystem functioning is of particular interest in the context of biological invasion. Here, using long‐duration remote underwater cameras, we recorded fish abundance and grazing events over three consecutive days in October 2019 in a shallow Mediterranean ecosystem from northern Crete. This novel approach allowed us to assess temporal variation of abundance and grazing activity of the two native (Sarpa salpa and Sparisoma cretense) and the two non‐indigenous fish species (Siganus rivulatus and Siganus luridus). Non‐indigenous Siganus rivulatus was the most common species in the studied coastal habitat, followed by the two native species while the non‐indigenous Siganus luridus was scarce. Overall, the non‐indigenous S. rivulatus and the native S. salpa are responsible for more than 90% of the recorded grazing activity with similar bite rates between the two species. More than 70% of the grazing activity arose in grazing pulses in the afternoon, supporting the diel feeding hypothesis according to which feeding is greater in the afternoon when nutritive quality of macrophytes is the highest. In addition, some of the highest peaks in grazing activity were driven by a few individuals. Hence, surveys of only abundance could not provide accurate estimates of herbivory. Last, Siganus rivulatus presence did not significantly affect grazing activity of the native Sarpa salpa. Our results demonstrate that long‐duration remote underwater videos are a useful tool to accurately assess the contribution of fishes to ecosystem functioning.
Using long‐duration remote underwater cameras, we recorded fishes throughout the day during three consecutive days in a shallow Mediterranean ecosystem from northern Crete. This novel approach allowed us to assess temporal variation of abundance and grazing activity of two native (Sarpa salpa and Sparisoma cretense) and two non‐indigenous fish species (Siganus rivulatus and Siganus luridus). Non‐indigenous Siganus rivulatus was the most seen species in the environment, followed by the native species while the non‐indigenous Siganus luridus was quasi‐absent. Overall, the non‐indigenous S. rivulatus and the native S. salpa were responsible for more than 90% of the recorded grazing activity with similar bite rates between the two species. Moreover, more than 70% of the recorded grazing activity arose in grazing pulses in the afternoon, supporting the diel feeding hypothesis. Interestingly, big grazing events were not always led by a high abundance of fish.
The geometry of an animal's skeleton governs the transmission of force to its appendages. Joints and rigid elements that create a relatively large output displacement per unit input displacement have ...been considered to be geared for speed, but the relationship between skeletal geometry and speed is largely untested. The present study explored this subject with experiments and mathematical modeling to evaluate how morphological differences in the raptorial appendage of a mantis shrimp (Gonodactylus smithii) affect the speed of its predatory strike. Based on morphological measurements and material testing, we computationally simulated the transmission of the stored elastic energy that powers a strike and the drag that resists this motion. After verifying the model's predictions against measurements of strike impulse, we conducted a series of simulations that varied the linkage geometry, but were provided with a fixed amount of stored elastic energy. We found that a skeletal geometry that creates a large output displacement achieves a slower maximum speed of rotation than a low-displacement system. This is because a large displacement by the appendage causes a relatively large proportion of its elastic energy to be lost to the generation of drag. Therefore, the efficiency of transmission from elastic to kinetic energy mediates the relationship between the geometry and the speed of a skeleton. We propose that transmission efficiency plays a similar role in form-function relationships for skeletal systems in a diversity of animals.
The squat lobster Munida rugosa has an unusual chela dimorphism exhibited mainly by large males. Some individuals have 'arched' chelae in which there is a gap between the dactylus and the pollex when ...closed, and others have a 'straight' morphology in which the dactylus and pollex oppose along most of their length. Geometric morphometric analysis indicated that, compared with males, the arched morphology does not develop fully in females, so further investigation was confined to males. In males, the distal part of the chela was similar in both the forms and seemed to be adapted to hold and shred prey items. Both morphologies had a major cylindrical tooth on the inner proximal part of the dactylus, but the arched morphology had a higher and wider propodus, a greater major tooth-pollex distance and a greater force generation than the straight morphology. The findings suggest that the arched chela morphology in M. rugosa is a sexually selected trait adapted to inflict puncture wounds on opponents during agonistic interactions. The arched morphology, therefore, appears to have evolved in males by means of sexual selection because it enhanced the function of the chela as a weapon, while retaining functionality for feeding.
Feeding activities by fishes are among the key ecological processes that sustain coral reef functioning. Those trophic-based processes are known to vary across space and across seasons or years. ...However, there is still little knowledge about their variability within and between days as well as whether these processes are dominated by the same species across time. Using remote underwater cameras, we quantified rates of three feeding activities (corallivory, herbivory and invertivory) for three one-hour time slots (morning, midday, afternoon) over two days on two coral reefs around Mayotte Island (Western Indian Ocean). Feeding activities were highly variable at within and between-day scales and concentrated in a few pulses. Herbivory was the highest in the afternoon which aligns with previous findings regarding activity of herbivorous fishes. Corallivory was the highest in the morning, which highlights the advantage of long-duration benthic remote underwater videos to accurately assess all trophic activities. Trophic-related processes were dominated by the same few species in both sites and across time of the day. This study pinpoints the importance of including within-day and between-day variations when studying ecological processes, as neglecting these variations may introduce biases into our understanding of these processes.
Functional diversity (FD), the diversity of organism attributes that relates to their interactions with the abiotic and biotic environment, has been increasingly used for the last two decades in ...ecology, biogeography and conservation. Yet, FD has many facets and their estimations are not standardized nor embedded in a single tool. mFD (multifaceted functional diversity) is an R package that uses matrices of species assemblages and species trait values as building blocks to compute most FD indices. mFD is firstly based on two functions allowing the user to summarize trait and assemblage data. Then it calculates trait‐based distances between species pairs, informs the user whether species have to be clustered into functional entities and finally computes multidimensional functional space. To let the user choose the most appropriate functional space for computing multidimensional functional diversity indices, two mFD functions allow assessing and illustrating the quality of each functional space. Next, mFD provides 6 core functions to calculate 16 existing FD indices based on trait‐based distances, functional entities or species position in a functional space. The mFD package also provides graphical functions based on the ggplot library to illustrate FD values through customizable and high‐resolution plots of species distribution among functional entities or in a multidimensional space. All functions include internal validation processes to check for errors in data formatting which return detailed error messages. To facilitate the use of mFD framework, we built an associated website hosting five tutorials illustrating the use of all the functions step by step.
The dynamic interplay among structure, function, and phylogeny form a classic triad of influences on the patterns and processes of biological diversification. Although these dynamics are widely ...recognized as important, quantitative analyses of their interactions have infrequently been applied to biomechanical systems. Here we analyze these factors using a fundamental biomechanical mechanism: power amplification. Power-amplified systems use springs and latches to generate extremely fast and powerful movements. This study focuses specifically on the power amplification mechanism in the fast raptorial appendages of mantis shrimp (Crustacea: Stomatopoda). Using geometric morphometric and phylogenetic comparative analyses, we measured evolutionary modularity and rates of morphological evolution of the raptorial appendage's biomechanical components. We found that "smashers" (hammer-shaped raptorial appendages) exhibit lower modularity and 10-fold slower rates of morphological change when compared to non-smashers (spear-shaped or undifferentiated appendages). The morphological and biomechanical integration of this system at a macroevolutionary scale and the presence of variable rates of evolution reveal a balance between structural constraints, functional variation, and the "roles of development and genetics" in evolutionary diversification.
Identifying and counting fish individuals on photos and videos is a crucial task to cost-effectively monitor marine biodiversity, yet it remains difficult and time-consuming. In this paper, we ...present a method to assist the identification of fish species on underwater images, and we compare our model performances to human ability in terms of speed and accuracy. We first tested the performance of a convolutional neural network (CNN) trained with different photographic databases while accounting for different post-processing decision rules to identify 20 fish species. Finally, we compared the performance of species identification of our best CNN model with that of humans on a test database of 1197 fish images representing nine species. The best CNN was the one trained with 900,000 images including (i) whole fish bodies, (ii) partial fish bodies and (iii) the environment (e.g. reef bottom or water). The rate of correct identification was 94.9%, greater than the rate of correct identification by humans (89.3%). The CNN was also able to identify fish individuals partially hidden behind corals or behind other fish and was more effective than humans to identify fish on smallest or blurry images while humans were better to identify fish individuals in unusual positions (e.g. twisted body). On average, each identification by our best CNN using a common hardware took 0.06 s. Deep Learning methods can thus perform efficient fish identification on underwater images and offer promises to build-up new video-based protocols for monitoring fish biodiversity cheaply and effectively.
•Comparison between human experts and Deep Learning based method•Assessing the importance of post treatment with DL based methods•Importance of database adjustements•Real-life use cases for applied DL methods for fish identification
PDF
