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Thoracotremata belong to the large group of \"true\" crabs (infraorder Brachyura), and they exhibit a wide range of physiological and morphological adaptations to living in terrestrial, freshwater and marine habitats. Moreover, the clade comprises various symbiotic taxa (Aphanodactylidae, Cryptochiridae, Pinnotheridae, some Varunidae) that are specialised in living with invertebrate hosts, but the evolutionary history of these symbiotic crabs is still partially unresolved. Here we assembled and characterised the complete mitochondrial genomes (hereafter mitogenomes) of three gall crab species (Cryptochiridae): , and . A phylogenetic tree of the Thoracotremata was reconstructed using 13 protein-coding genes and two ribosomal RNA genes retrieved from three new gall crab mitogenomes and a further 72 available thoracotreme mitogenomes. Furthermore, we applied a comparative analysis to characterise mitochondrial gene order arrangement, and performed a selection analysis to test for selective pressure of the protein-coding genes in symbiotic Cryptochiridae, Pinnotheridae, and Varunidae ( and ). The results of the phylogenetic reconstruction confirm the monophyly of Cryptochiridae, which clustered separately from the Pinnotheridae. The latter clustered at the base of the tree with robust branch values. The symbiotic varunids and clustered together in a clade with free-living Varunidae species, highlighting that symbiosis in the Thoracotremata evolved independently on multiple occasions. Different gene orders were detected in symbionts and free-living species when compared with the ancestral brachyuran gene order. Lastly, the selective pressure analysis detected two positively selected sites in the gene of Cryptochiridae, but the evidence for positive selection in Pinnotheridae and and was weak. Adaptive evolution of mitochondrial protein-coding genes is perhaps related to the presumably higher energetic demands of a symbiotic lifestyle.

Caribbean reefs face increasingly frequent and intense bleaching events, adding to the numerous other threats impacting these ecosystems. Addressing these challenges requires global action to reduce climate drivers, along with local efforts like reef restoration. Active restoration using thermotolerant coral colonies offers a potential strategy to alleviate these impacts; however, gaps remain in identifying context-specific temperature thresholds to guide colony selection and standardize thermotolerance assessment methods. This study addressed these gaps in two phases. First, by determining practical thresholds to differentiate species responses to heat stress; and second, by developing a framework to identify and prioritize resilient colonies for restoration. In the first phase, 70 colonies of Acropora cervicornis , Diploria labyrinthiformis , Montastraea cavernosa , Orbicella annularis , O. faveolata , Porites astreoides , and P. porites were sampled from reefs in the southeastern Dominican Republic. Heat stress responses were assessed through 3-hour heat pulse assays above the local maximum monthly mean (MMM) temperature, combining visual bleaching ranks, pixel intensity as a proxy for chlorophyll loss, and pulse amplitude modulated (PAM) fluorometry. Species-specific T 50 thresholds were identified as the temperatures where 50% of colonies showed signs of stress. In the second phase, intraspecific thermotolerance was further examined for D. labyrinthiformis , M. cavernosa , O. annularis , O. faveolata , and P. astreoides using 99 colonies from known parent sources. Heat pulse assays at control (MMM) and T 50 temperatures were repeated four times to assign colony-specific thermal performance scores. This study integrates inter- and intraspecific thermotolerance data into a practical selection framework, offering valuable insights to guide restoration under climate change.

The exact nature of the relationship between symbiont fauna and their hosts is often unclear, but knowing more about these intricate ecological interactions is vital to understand the trophic positions of host-associated fauna, and can aid in accurate constructions of food-webs on coral reefs. Scleractinian corals are hosts to hundreds of symbiont taxa, including fish and many invertebrate species. Some of these associated fauna are beneficial to their coral host(s), whereas other taxa can have detrimental effects, yet their impact is often difficult to determine. Coral-dwelling gall crabs (Cryptochiridae) are obligate, often host-specific, symbionts of scleractinian corals but the nature of this relationship is still under debate. Three Atlantic gall crab species ( Kroppcarcinus siderastreicola , Opecarcinus hypostegus and Troglocarcinus corallicola ) and their coral hosts’ tissue/mucus were collected from reefs in Guadeloupe. Stable carbon and nitrogen isotope values were measured for 57 crabs inhabiting host coral colonies belonging to seven different coral species (although only 27 colonies from five coral species were collected), alongside other potential food sources (epilithic algal matrix, plankton and particulate organic matter). The carbon and nitrogen isotope values of gall crabs relative to those of their respective coral host(s) and other possible food sources showed that coral tissue/mucus was the main food source for the crabs. The results of the mixing models further supported this finding, suggesting that corals are responsible for 40–70% of the crabs’ diet. In T. corallicola , the isotopic signature differed significantly between sexes, possibly caused by the high sexual dimorphism observed in this species. Here we showed that Atlantic gall crabs mainly dine on coral tissue and/or mucus excreted by their coral hosts, highlighting their nutritional dependence on their host. However, since coral mucus is continuously exuded by scleractinians, hence the energetic or metabolic drain for corals is expected to be minimal. Gall crabs depend on their coral hosts for settlement cues as larvae, for habitat as adults and - highlighted by this study - for food, essential for their subsistence. This obligate dependence on their hosts for all parts of their life makes them extremely vulnerable to reef degradation, and underlines the importance in understanding the exact nature of a relationship between symbiont and coral host.

Coeloplanidae, the largest family of benthic ctenophores, comprises 33 species, all described based on traditional morphological characteristics, such as coloration, length, and number of aboral papillae, which are highly variable and can be affected by fixation methods and environmental conditions. Thus, there is a need for reliable genetic markers to complement the morphological identifications at the species level. Here, we analyzed 95 specimens from 11 morphologically distinct species of benthic ctenophores from the Red Sea and Sulu Sea, and tested selected regions of four genetic markers (ITS1, 18S rRNA, 28S rRNA and COI) for their ability to differentiate between species. We show that the barcoding region of the mitochondrial gene, cytochrome oxidase subunit I (COI), is highly variable among species of Coeloplanidae, and effectively discriminates between species in this family. The average Kimura-2-parameter (K2P) distance between species-level clades was 10%, while intraspecific variation was ~30 times lower (0.36%). COI-based phylogeny supported the delineation of four recently described new species from the Red Sea. The other nuclear markers tested were found to be too conserved in order to separate between species. We conclude that COI is a potential molecular barcode for the family Coeloplanidae and suggest to test it in pelagic ctenophores.

Though taxonomists have been classifying species since 1758, the methods and biases of their naming practices have recently come under scrutiny. Despite some compelling claims on e.g ., historical imperialism in the published literature, the knowledge base for making such assertions is small, as nomenclatural trends have only been researched in a select few taxa. Here, we investigate naming practices in Decapoda, one of the most studied crustacean groups, thereby extending the knowledge base to the marine realm in contrast to a previously studied cohort of largely terrestrial taxa. To date almost 18,000 species of decapods are known, from which a total of 22,363 unique names are analysed, as neither nomenclatorial nor taxonomic status has any bearing on the naming process. Despite taxonomists being inspired by a multitude of cultural influences, historically the majority of names were derived from the morphology of the animals. This dominance declined in the Victorian era, with a concomitant rise in the use of both geographically inspired names and eponyms (species named after people). Post-1958, a near-even split is achieved between these three categories, while other etymological classifications stake a minority claim on the dataset. Although a historic and contemporary gender imbalance is present amongst eponyms honouring scientists, contrary to previous findings our results detect no actual bias in naming practices, instead indicating that female scientists have been honoured in proportion to their collective presence in the field. Though previous studies have flagged a significant proportion of eponyms named for colonialist figures, these were found in relatively small numbers among Decapoda.

The evolution of symbiotic relationships involving reef corals has had much impact on tropical marine biodiversity. Because of their endosymbiotic algae (zooxanthellae) corals can grow fast in tropical shallow seas where they form reefs that supply food, substrate and shelter for other organisms. Many coral symbionts are host-specific, depending on particular coral species for their existence. Some of these animals have become popular objects for underwater photographers and aquarists, whereas others are hardly noticed or considered pests. Loss of a single coral host species also leads to the disappearance of some of its associated fauna. In the present study we show which mushroom corals (Scleractinia: Fungiidae) are known to act as hosts for other organisms, such as acoel flatworms, copepods, barnacles, gall crabs, pontoniine shrimps, mytilid bivalves, epitoniid snails, coralliophilid snails, fish and certain types of zooxanthellae. Several of these associated organisms appear to be host-specific whereas other species are generalists and not even necessarily restricted to fungiid hosts. Heliofungia actiniformis is one of the most hospitable coral species known with a recorded associated fauna consisting of at least 23 species. The availability of a phylogeny reconstruction of the Fungiidae enables comparisons of closely related species of mushroom corals regarding their associated fauna. Application of a phylogenetic ecological analysis indicates that the presence or absence of associated organisms is evolutionarily derived or habitat-induced. Some associations appear to be restricted to certain evolutionary lineages within the Fungiidae, whereas the absence of associated species may be determined by ecomorphological traits of the host corals, such as coral dimensions (coral diameter and thickness) and polyp shape (tentacle size).

Members of the Cryptochiridae are small, fragile, symbiotic crabs that live in domiciles in modern corals. Despite their worldwide occurrence with over 50 species known today, their fossil record is unknown. We provide the first unambiguous evidence of cryptochirids in the fossil record through their crescentic pits, typical for certain cryptochirids, in Western Atlantic fossil corals, while the Eocene genus Montemagrechirus is excluded from the Cryptochiridae and referred to Montemagrechiridae fam. nov. Nine Pleistocene corals with crescentic pits originate from Florida (USA) and single specimens with pits come from the late Pleistocene of Cuba and the late Pliocene of Florida, all of which are measured for growth analyses. These pits represent trace fossils named Galacticus duerri igen. nov., isp. nov. A study of modern cryptochirid domicile shape (crescentic pit, circular-oval pit, or a true gall) shows that species within crab genera tend to inhabit the same pit shape. Crescentic pits in corals occur not only in the Western Atlantic today, but also in the Indo-West Pacific and in the Eastern Pacific. Thus, examination of Cenozoic fossil coral collections from these regions should yield further examples of cryptochirid pits, which would help to constrain the antiquity of this cryptic crab family.

Coral‐associated fauna is a relatively understudied topic. Hence, the nature of the relationship between an associated organism and its host is usually unknown. In the present study, the obligate associations between gall crabs (Decapoda: Cryptochiridae) and mushroom corals (Scleractinia: Fungiidae) are reviewed from a phylogenetic perspective. Based on field surveys, examination of museum material and a literature review, a total of 35 fungiid species have been found that act as hosts for four gall crab species. Fungiid‐associated gall crabs appear to be more geographically widespread than previously known, with new records showing their occurrences from the Red Sea and western Indian Ocean all the way to the central Pacific Ocean. The obligate nature of the association between cryptochirids and their hosts makes them an ideal model taxon to test for possible cospeciation events. The congruence between their phylogenies was tested by using the program Jane 4.0, resulting in cospeciation and duplication events between the crabs and their host corals. The sharing of several closely related host coral species by the same gall crab species or genus may provide support to models indicating phylogenetic relationships within the Scleractinia. The obligate associations between gall crabs (Cryptochiridae) and their mushroom coral hosts (Fungiidae) are reviewed from a phylogenetic perspective. A test of congruence between the crab and coral phylogenies identified multiple cospeciation and duplication events. The sharing of several closely related host coral species by a gall crab species or genus may provide support to models indicating phylogenetic relationships within the Scleractinia.

Very shallow coral reefs (<5 m deep) are naturally exposed to strong sea surface temperature variations, UV radiation and other stressors exacerbated by climate change, raising great concern over their future. As such, accurate and ecologically informative coral reef maps are fundamental for their management and conservation. Since traditional mapping and monitoring methods fall short in very shallow habitats, shallow reefs are increasingly mapped with Unmanned Aerial Vehicles (UAVs). UAV imagery is commonly processed with Structure-from-Motion (SfM) to create orthomosaics and Digital Elevation Models (DEMs) spanning several hundred metres. Techniques to convert these SfM products into ecologically relevant habitat maps are still relatively underdeveloped. Here, we demonstrate that incorporating geomorphometric variables (derived from the DEM) in addition to spectral information (derived from the orthomosaic) can greatly enhance the accuracy of automatic habitat classification. Therefore, we mapped three very shallow reef areas off KAUST on the Saudi Arabian Red Sea coast with an RTK-ready UAV. Imagery was processed with SfM and classified through object-based image analysis (OBIA). Within our OBIA workflow, we observed overall accuracy increases of up to 11% when training a Random Forest classifier on both spectral and geomorphometric variables as opposed to traditional methods that only use spectral information. Our work highlights the potential of incorporating a UAV’s DEM in OBIA for benthic habitat mapping, a promising but still scarcely exploited asset.

Coral reefs are home to the greatest diversity of marine life, and many species on reefs live in symbiotic associations. Studying the historical biogeography of symbiotic species is key to unravelling (potential) coevolutionary processes and explaining species richness patterns. Coral-dwelling gall crabs (Cryptochiridae) live in obligate symbiosis with a scleractinian host, and are ideally suited to study the evolutionary history between heterogeneous taxa involved in a symbiotic relationship. The genus Opecarcinus Kropp and Manning, 1987, like its host coral family Agariciidae, occurs in both Indo-Pacific and Caribbean seas, and is the only cryptochirid genus with a circumtropical distribution. Here, we use mitochondrial and nuclear DNA gene fragments of Opecarcinus specimens sampled from 21 Indo-Pacific localities and one Atlantic (Caribbean) locality. We applied several species delimitation tests to characterise species diversity, inferred a Bayesian molecular-clock time-calibrated phylogeny to estimate divergence times and performed an ancestral area reconstruction. Time to the most recent common ancestor (tMRCA) of Opecarcinus is estimated at 15−6 Mya (middle Miocene—late Miocene). The genus harbours ~ 15 undescribed species as well as several potential species complexes. There are indications of strict host-specificity patterns in certain Opecarcinus species in the Indo-Pacific and Atlantic, however, a robust phylogeny reconstruction of Agariciidae corals—needed to test this further—is currently lacking. The Indo-West Pacific was inferred to be the most probable ancestral area, from where the Opecarcinus lineage colonised the Western Atlantic and subsequently speciated into O. hypostegus. Opecarcinus likely invaded from the Indo-West Pacific across the East Pacific Barrier to the Atlantic, before the full closure of the Isthmus of Panama. The subsequent speciation of O. hypostegus, is possibly associated with newly available niches in the Caribbean, in combination with genetic isolation following the closure of the Panama Isthmus.