Visible implant elastomer (VIE) success in early larval stages of a tropical amphibian species

Animals are often difficult to distinguish at an individual level, and being able to identify individuals can be crucial in ecological or behavioral studies. In response to this challenge, biologists have developed a range of marking (tattoos, brands, toe-clips) and tagging (banding, collars, PIT, VIA, VIE) methods to identify individuals and cohorts. Animals with complex life cycles are notoriously hard to mark because of the distortion or loss of the tag across metamorphosis. In amphibians, few studies have attempted larval tagging and none have been conducted on a tropical species. Here, we present the first successful account of VIE tagging in early larval stages (Gosner stage 25) of the dyeing poison frog (Dendrobates tinctorius) coupled with a novel anesthetic (2-PHE) application for tadpoles that does not require buffering. Mean weight of individuals at time of tagging was 0.12 g, which is the smallest and developmentally youngest anuran larvae tagged to date. We report 81% tag detection over the first month of development, as well as the persistence of tags across metamorphosis in this species. Cumulative tag retention vs tag observation differed by approximately 15% across larval development demonstrating that “lost” tags can be found later in development. Tagging had no effect on tadpole growth rate or survival. Successful application of VIE tags on D. tinctorius tadpoles introduces a new method that can be applied to better understand early life development and dispersal in various tropical species.peerReviewe

Poison frog social behaviour under global change : potential impacts and future challenges

The current and cascading effects of global change challenges the interactions both between animal individuals (i.e. social and sexual behaviour) and the environment they inhabit. Amphibians are an ecologically diverse class with a wide range of social and sexual behaviours, making them a compelling model to understand the potential adaptations of animals faced with the effects of human-induced rapid environmental changes (HIREC). Poison frogs (Dendrobatoidea) are a particularly interesting system, as they display diverse social behaviours that are shaped by conspecific and environmental interactions, thus offering a tractable system to investigate how closely related species may respond to the impacts of HIREC. Here, we discuss the potential impacts of global change on poison frog behaviour, and the future challenges this group may face in response to such change. We pay special attention to parental care and territoriality, which are emblematic of this clade, and consider how different species may flexibly respond and adapt to increasingly frequent and diverse anthropogenic stress. More specifically, we hypothesise that some parents may increase care (i.e. clutch attendance and distance travelled for tadpole transport) in HIREC scenarios and that species with more generalist oviposition and tadpole deposition behaviours may fare more positively than their less flexible counterparts; we predict that the latter may either face increased competition for resources limited by HIREC or will be forced to adapt and expand their natural preferences. Likewise, we hypothesise that human-driven habitat alteration will disrupt the acoustic and visual communication systems due to increased noise pollution and/or changes in the surrounding light environment. We highlight the need for more empirical research combining behavioural ecology and conservation to better predict species’ vulnerability to global change and efficiently focus conservation efforts.peerReviewe

Tadpole Responses to Environments With Limited Visibility : What We (Don’t) Know and Perspectives for a Sharper Future

Amphibian larvae typically inhabit relatively shallow freshwater environments, and within these boundaries there is considerable diversity in the structure of the habitats exploited by different species. This diversity in habitat structure is usually taken into account in relation to aspects such as locomotion and feeding, and plays a fundamental role in the classification of tadpoles into ecomorphological guilds. However, its impact in shaping the sensory worlds of different species is rarely addressed, including the optical qualities of each of these types of water bodies and the challenges and limitations that they impose on the repertoire of visual abilities available for a typical vertebrate eye. In this Perspective article, we identify gaps in knowledge on (1) the role of turbidity and light-limited environments in shaping the larval visual system; and (2) the possible behavioral and phenotypic responses of larvae to such environments. We also identify relevant unaddressed study systems paying special attention to phytotelmata, whose small size allows for extensive quantification and manipulation providing a rich and relatively unexplored research model. Furthermore, we generate hypotheses ranging from proximate shifts (i.e., red-shifted spectral sensitivity peaks driven by deviations in chromophore ratios) to ultimate changes in tadpole behavior and phenotype, such as reduced foraging efficiency and the loss of antipredator signaling. Overall, amphibians provide an exciting opportunity to understand adaptations to visually limited environments, and this framework will provide novel experimental considerations and interpretations to kickstart future research based on understanding the evolution and diversity of strategies used to cope with limited visibility.peerReviewe

Size-dependent aggression towards kin in a cannibalistic species

In juveniles extreme intraspecies aggression can seem counter-intuitive, as it might endanger their developmental goal of surviving until reproductive stage. Ultimately, aggression can be vital for survival, although the factors (e.g., genetic or environmental) leading to the expression and intensity of this behavior vary across taxa. Attacking (and sometimes killing) related individuals may reduce inclusive fitness; as a solution to this problem, some species exhibit kin discrimination and preferentially attack unrelated individuals. Here, we used both experimental and modeling approaches to consider how physical traits (e.g., size in relation to opponent) and genetic relatedness mediate aggression in dyads of cannibalistic Dendrobates tinctorius tadpoles. We paired full-sibling, half-sibling, and non-sibling tadpoles of different sizes together in an arena and recorded their aggression and activity. We found that the interaction between relative size and relatedness predicts aggressive behavior: large individuals in non-sibling dyads are significantly more aggressive than large individuals in sibling dyads. Unexpectedly, although siblings tended to attack less overall, in size-mismatched pairs they attacked faster than in non-sibling treatments. Using a theoretical model to complement these empirical findings, we propose that larval aggression reflects a balance between relatedness and size where individuals trade-off their own fitness with that of their relatives.peerReviewe

Raw data and code for the Fouilloux et al. (2023) paper: Visual environment of rearing sites affects larval response to perceived risk

Data and code for the Fouilloux et al. (2023) study: Visual environment of rearing sites affects larval response to perceived risk. The study examined the effect of nursery turbidity on the (visual) perception of risk for tadpoles that develop in epehemeral pools of water (phytotelmata). Attached to the data is a Data Description PDF file, which includes the definition of the two data sheets (LAS_VISION_OCT2022 and FG_TURB_JAN2023) and the methods required to collect these data. The R code that goes along with these data is also provided. The full work is cited and contextualized in the Journal of Experimental Biology

Pool choice in a vertical landscape: Tadpole-rearing site flexibility in phytotelm-breeding frogs

Many species of Neotropical frogs have evolved to deposit their tadpoles in small water bodies inside plant structures called phytotelmata. These pools are small enough to exclude large predators but have limited nutrients and high desiccation risk. Here, we explore phytotelm use by three common Neotropical species: Osteocephalus oophagus, an arboreal frog that periodically feeds eggs to its tadpoles; Dendrobates tinctorius, a tadpole-transporting poison frog with cannibalistic tadpoles; and Allobates femoralis, a terrestrial tadpole-transporting poison frog with omnivorous tadpoles. We found that D. tinctorius occupies pools across the chemical and vertical gradient, whereas A. femoralis and O. oophagus appear to have narrower deposition options that are restricted primarily by pool height, water capacity, alkalinity, and salinity. Dendrobates tinctorius tadpoles are particularly flexible and can survive in a wide range of chemical, physical, and biological conditions, whereas O. oophagus seems to prefer small, clear pools and A. femoralis occupies medium-sized pools with abundant leaf litter and low salinity. Together, these results show the possible niche partitioning of phytotelmata among frogs and provide insight into stressors and resilience of phytotelm breeders

Pool choice in a vertical landscape : Tadpole‐rearing site flexibility in phytotelm‐breeding frogs

Many species of Neotropical frogs have evolved to deposit their tadpoles in small water bodies inside plant structures called phytotelmata. These pools are small enough to exclude large predators but have limited nutrients and high desiccation risk. Here, we explore phytotelm use by three common Neotropical species: Osteocephalus oophagus, an arboreal frog that periodically feeds eggs to its tadpoles; Dendrobates tinctorius, a tadpole-transporting poison frog with cannibalistic tadpoles; and Allobates femoralis, a terrestrial tadpole-transporting poison frog with omnivorous tadpoles. We found that D. tinctorius occupies pools across the chemical and vertical gradient, whereas A. femoralis and O. oophagus appear to have narrower deposition options that are restricted primarily by pool height, water capacity, alkalinity, and salinity. Dendrobates tinctorius tadpoles are particularly flexible and can survive in a wide range of chemical, physical, and biological conditions, whereas O. oophagus seems to prefer small, clear pools and A. femoralis occupies medium-sized pools with abundant leaf litter and low salinity. Together, these results show the possible niche partitioning of phytotelmata among frogs and provide insight into stressors and resilience of phytotelm breeders.peerReviewe

Tadpole Responses to Environments With Limited Visibility: What We (Don\u27t) Know and Perspectives for a Sharper Future

Amphibian larvae typically inhabit relatively shallow freshwater environments, and within these boundaries there is considerable diversity in the structure of the habitats exploited by different species. This diversity in habitat structure is usually taken into account in relation to aspects such as locomotion and feeding, and plays a fundamental role in the classification of tadpoles into ecomorphological guilds. However, its impact in shaping the sensory worlds of different species is rarely addressed, including the optical qualities of each of these types of water bodies and the challenges and limitations that they impose on the repertoire of visual abilities available for a typical vertebrate eye. In this Perspective article, we identify gaps in knowledge on (1) the role of turbidity and light-limited environments in shaping the larval visual system; and (2) the possible behavioral and phenotypic responses of larvae to such environments. We also identify relevant unaddressed study systems paying special attention to phytotelmata, whose small size allows for extensive quantification and manipulation providing a rich and relatively unexplored research model. Furthermore, we generate hypotheses ranging from proximate shifts (i.e., red-shifted spectral sensitivity peaks driven by deviations in chromophore ratios) to ultimate changes in tadpole behavior and phenotype, such as reduced foraging efficiency and the loss of antipredator signaling. Overall, amphibians provide an exciting opportunity to understand adaptations to visually limited environments, and this framework will provide novel experimental considerations and interpretations to kickstart future research based on understanding the evolution and diversity of strategies used to cope with limited visibility

Genome Assembly of the Dyeing Poison Frog Provides Insights into the Dynamics of Transposable Element and Genome-Size Evolution

Genome size varies greatly across the tree of life and transposable elements are an important contributor to this variation. Among vertebrates, amphibians display the greatest variation in genome size, making them ideal models to explore the causes and consequences of genome size variation. However, high-quality genome assemblies for amphibians have, until recently, been rare. Here, we generate a high-quality genome assembly for the dyeing poison frog, Dendrobates tinctorius. We compare this assembly to publicly available frog genomes and find evidence for both large-scale conserved synteny and widespread rearrangements between frog lineages. Comparing conserved orthologs annotated in these genomes revealed a strong correlation between genome size and gene size. To explore the cause of gene-size variation, we quantified the location of transposable elements relative to gene features and find that the accumulation of transposable elements in introns has played an important role in the evolution of gene size in D. tinctorius, while estimates of insertion times suggest that many insertion events are recent and species-specific. Finally, we carry out population-scale mobile-element sequencing and show that the diversity and abundance of transposable elements in poison frog genomes can complicate genotyping from repetitive element sequence anchors. Our results show that transposable elements have clearly played an important role in the evolution of large genome size in D. tinctorius. Future studies are needed to fully understand the dynamics of transposable element evolution and to optimize primer or bait design for cost-effective population-level genotyping in species with large, repetitive genomes.</p

Genome assembly of the dyeing poison frog provides insights into the dynamics of transposable element and genome-size evolution

Genome size varies greatly across the tree of life and transposable elements are an important contributor to this variation. Among vertebrates, amphibians display the greatest variation in genome size, making them ideal models to explore the causes and consequences of genome size variation. However, high-quality genome assemblies for amphibians have, until recently, been rare. Here, we generate a high-quality genome assembly for the dyeing poison frog, Dendrobates tinctorius. We compare this assembly to publicly available frog genomes and find evidence for both large-scale conserved synteny and widespread rearrangements between frog lineages. Comparing conserved orthologs annotated in these genomes revealed a strong correlation between genome size and gene size. To explore the cause of gene-size variation, we quantified the location of transposable elements relative to gene features and find that the accumulation of transposable elements in introns has played an important role in the evolution of gene size in D. tinctorius, while estimates of insertion times suggest that many insertion events are recent and species-specific. Finally, we carry out population-scale mobile-element sequencing and show that the diversity and abundance of transposable elements in poison frog genomes can complicate genotyping from repetitive element sequence anchors. Our results show that transposable elements have clearly played an important role in the evolution of large genome size in D. tinctorius. Future studies are needed to fully understand the dynamics of transposable element evolution and to optimize primer or bait design for cost-effective population-level genotyping in species with large, repetitive genomes