X-ray computed tomography library of shark anatomy and lower jaw surface models

Evolutionary trends in the elasmobranch neurocranium

The neurocranium (braincase) is one of the defining vertebrate characters. Housing the brain and other key sensory organs, articulating with the jaws and contributing to the shape of the anteriormost portion of the body, the braincase is undoubtedly of great functional importance. Through studying relationships between braincase shape and ecology we can gain an improved understanding of form-function relationships in extant and fossil taxa. Elasmobranchii (sharks and rays) represent an important case study of vertebrate braincase diversity as their neurocranium is simplified and somewhat decoupled from other components of the cranium relative to other vertebrates. Little is known about the associations between ecology and braincase shape in this clade. In this study we report patterns of mosaic cranial evolution in Elasmobranchii that differ significantly from those present in other clades. The degree of evolutionary modularity also differs between Selachii and Batoidea. In both cases innovation in the jaw suspension appears to have driven shifts in patterns of integration and modularity, subsequently facilitating ecological diversification. Our results confirm the importance of water depth and biogeography as drivers of elasmobranch cranial diversity and indicate that skeletal articulation between the neurocranium and jaws represents a major constraint upon the evolution of braincase shape in vertebrates.

Morphological Variability and Function of Labial Cartilages in Sharks (Chondrichthyes, Elasmobranchii)

(1) Background: Labial cartilages (LCs), as their name suggests, lie in the folds of the connective tissue, the lips, framing the gape of elasmobranch chondrichthyans. As such, these cartilages lie laterally to the jaws and marginal teeth. They are considered to influence the ability of creating suction during the feeding process. As past studies have shown, LCs in sharks are as diverse as their varied feeding techniques and differ between species in number, size, shape, and position. This allows establishing parameters for inferring the feeding and hunting behaviors in these ecologically important fishes. (2) Methods: We present a study of LCs based on the CT scans of more than 100 extant shark species and, therefore, represent at least one member of every living family within the Euselachii, excluding batoids. (3) Results: Accordingly, sharks without labial cartilages or that have only small remnants are ram feeders or use pure biting and mainly occupy higher trophic levels (tertiary and quaternary consumers), whereas suction-feeding sharks have higher numbers (up to five pairs) of well-developed LCs and occupy slightly lower trophic levels (mainly secondary consumers). Species with unique feeding strategies, like the cookie-cutter shark (Isistius brasiliensis, an ectoparasite), display distinct shapes of LCs, while generalist species, conversely, exhibit a simpler arrangement of LCs. (4) Conclusions: We propose a dichotomous identification key to classify single LCs into different morphotypes and propose combinations of morphotypes that result in suction feeding differing in strength and, therefore, different hunting and feeding strategies. The conclusions of this study allow to infer information about feeding strategies not only in extant less-known sharks but also extinct sharks.

Skeletal convergence in thunniform sharks, ichthyosaurs, whales, and tunas, and its possible ecological links through the marine ecosystem evolution

Tunas, lamnid sharks, modern whales, and derived ichthyosaurs converged on the thunniform body plan, with a fusiform body, lunate caudal fin, compressed peduncle, and peduncle joint. This evolutionary convergence has been studied for a long time but little is known about whether all four clades share any skeletal characteristics. Comparisons of vertebral centrum dimensions along the body reveal that the four clades indeed share three skeletal characteristics (e.g., thick vertebral column for its length), while an additional feature is shared by cetaceans, lamnid sharks, and ichthyosaurs and two more by lamnid sharks and ichthyosaurs alone. These vertebral features are all related to the mechanics of thunniform swimming through contributions to posterior concentration of tail-stem oscillation, tail stem stabilization, peduncle joint flexibility, and caudal fin angle fixation. Quantitative identifications of these features in fossil vertebrates would allow an inference of whether they were a thunniform swimmer. Based on measurements in the literature, mosasaurs lacked these features and were probably not thunniform swimmers, whereas a Cretaceous lamniform shark had a mosaic of thunniform and non-thunniform features. The evolution of thunniform swimming appears to be linked with the evolution of prey types and, in part, niche availability through geologic time.

Paleomass for R-bracketing body volume of marine vertebrates with 3D models

Body mass is arguably the most important characteristic of an organism, yet it is often not available in biological samples that have been skeletonized, liquid-preserved, or fossilized. The lack of information is especially problematic for fossil species, for which individuals with body mass information are not available anywhere. Multiple methods are available for estimating the body mass of fossil terrestrial vertebrates but those for their marine counterparts are limited. Paleomass is a software tool for estimating the body mass of marine vertebrates from their orthogonal silhouettes through bracketing. It generates a set of two 3D models from these silhouettes, assuming superelliptical body cross-sections with different exponent values. By setting the exponents appropriately, it is possible to bracket the true volume of the animal between those of the two models. The original version phased out together with the language platform it used. A new version is reported here as an open-source package based on the R scripting language. It inherits the underlying principles of the original version but has been completely rewritten with a new architecture. For example, it first produces 3D mesh models of the animal and then measures their volumes and areas with the VCG library, unlike the original version that did not produce a 3D model but instead computed the volume and area segment by segment using parametric equations. The new version also exports 3D models in polygon meshes, allowing later tests by other software. Other improvements include the use of NACA foil sections for hydrofoils such as flippers, and optional interpolation with local regression. The software has a high accuracy, with the mean absolute errors of 1.33% when the silhouettes of the animals are known.

Shark mandible evolution reveals patterns of trophic and habitat-mediated diversification

Environmental controls of species diversity represent a central research focus in evolutionary biology. In the marine realm, sharks are widely distributed, occupying mainly higher trophic levels and varied dietary preferences, mirrored by several morphological traits and behaviours. Recent comparative phylogenetic studies revealed that sharks present a fairly uneven diversification across habitats, from reefs to deep-water. We show preliminary evidence that morphological diversification (disparity) in the feeding system (mandibles) follows these patterns, and we tested hypotheses linking these patterns to morphological specialisation. We conducted a 3D geometric morphometric analysis and phylogenetic comparative methods on 145 specimens representing 90 extant shark species using computed tomography models. We explored how rates of morphological evolution in the jaw correlate with habitat, size, diet, trophic level, and taxonomic order. Our findings show a relationship between disparity and environment, with higher rates of morphological evolution in reef and deep-water habitats. Deep-water species display highly divergent morphologies compared to other sharks. Strikingly, evolutionary rates of jaw disparity are associated with diversification in deep water, but not in reefs. The environmental heterogeneity of the offshore water column exposes the importance of this parameter as a driver of diversification at least in the early part of clade history.

The importance of the appendicular skeleton for the phylogenetic reconstruction of lamniform sharks (Chondrichthyes: Elasmobranchii)

Lamniform sharks are one of the more conspicuous groups of elasmobranchs, including several emblematic taxa as the white shark. Although their monophyly is well supported, the interrelationships of taxa within Lamniformes remains controversial because of the conflict among various previous molecular-based and morphology-based phylogenetic hypotheses. In this study, we use 31 characters related to the appendicular skeleton of lamniforms and demonstrate their ability to resolve the systematic interrelationships within this shark order. In particular, the new additional skeletal characters resolve all polytomies that were present in previous morphology-based phylogenetic analyses of lamniforms. Our study demonstrates the strength of incorporating new morphological data for phylogenetic reconstructions.

Head anatomy of a lantern shark wet-collection specimen (Chondrichthyes: Etmopteridae)

In this study, we apply a two-step (untreated and soft tissue stained) diffusible iodine-based contrast-enhanced micro-computed tomography array to a wet-collection Lantern Shark specimen of Etmopterus lucifer. The focus of our scanning approach is the head anatomy. The unstained CT data allow the imaging of mineralized (skeletal) tissue, while results for soft tissue were achieved after staining for 120 h in a 1% ethanolic iodine solution. Three-dimensional visualization after the segmentation of hard as well as soft tissue reveals new details of tissue organization and allows us to draw conclusions on the significance of organs in their function. Outstanding are the ampullae of Lorenzini for electroreception, which appear as the dominant sense along with the olfactory system. Corresponding brain areas of these sensory organs are significantly enlarged as well and likely reflect adaptations to the lantern sharks' deep-sea habitat. While electroreception supports the capture of living prey, the enlarged olfactory system can guide the scavenging of these opportunistic feeders. Compared to other approaches based on the manual dissection of similar species, CT scanning is superior in some but not all aspects. For example, fenestrae of the cranial nerves within the chondrocranium cannot be identified reflecting the limitations of the method, however, CT scanning is less invasive, and the staining is mostly reversible and can be rinsed out.

Diverse stem-chondrichthyan oral structures and evidence for an independently acquired acanthodid dentition

The teeth of sharks famously form a series of transversely organized files with a conveyor-belt replacement that are borne directly on the jaw cartilages, in contrast to the dermal plate-borne dentition of bony fishes that undergoes site-specific replacement. A major obstacle in understanding how this system evolved is the poorly understood relationships of the earliest chondrichthyans and the profusion of morphologically and terminologically diverse bones, cartilages, splints and whorls that they possess. Here, we use tomographic methods to investigate mandibular structures in several early branching 'acanthodian'-grade stem-chondrichthyans. We show that the dentigerous jaw bones of disparate genera of ischnacanthids are united by a common construction, being growing bones with non-shedding dentition. Mandibular splints, which support the ventro-lateral edge of the Meckel's cartilage in some taxa, are formed from dermal bone and may be an acanthodid synapomorphy. We demonstrate that the teeth of Acanthodopsis are borne directly on the mandibular cartilage and that this taxon is deeply nested within an edentulous radiation, representing an unexpected independent origin of teeth. Many or even all of the range of unusual oral structures may be apomorphic, but they should nonetheless be considered when building hypotheses of tooth and jaw evolution, both in chondrichthyans and more broadly.

Anatomical description of the skulls of peccaries (Tayassu tajacu, Linnaeus 1758) by computed tomography

ABSTRACT The aim of this study was to evaluate the anatomical structures of the skulls of peccaries to establish the basis for their clinical study and future preclinical research. Ten skulls of adult peccaries were subjected to tomographic examination. The data obtained were processed via three-dimensional image reconstruction software (3D images). The reconstructions obtained from the neurocranium of the studied specimens allowed the identification and description of the following structures: nasal bone, frontal bone, parietal bones, incisor bone, maxillary bone, zygomatic bone, temporal bone, palatal bone, occipital bone, vomer bone, pterygoid bone, sphenoid bone, paranasal sinuses and orbit. Computed tomography proved to be an important diagnostic tool in the investigation of the skull of this species, allowing the acquisition of anatomical values not yet documented for the species in the literature.

Cross-sectional anatomy, computed tomography, and magnetic resonance imaging of the banded houndshark (Triakis scyllium)

Due to their important phylogenetic position among extant vertebrates, sharks are an invaluable group in evolutionary developmental biology studies. A thorough understanding of shark anatomy is essential to facilitate these studies and documentation of this iconic taxon. With the increasing availability of cross-sectional imaging techniques, the complicated anatomy of both cartilaginous and soft tissues can be analyzed non-invasively, quickly, and accurately. The aim of this study is to provide a detailed anatomical description of the normal banded houndshark (Triakis scyllium) using computed tomography (CT) and magnetic resonance imaging (MRI) along with cryosection images. Three banded houndsharks were scanned using a 64-detector row spiral CT scanner and a 3 T MRI scanner. All images were digitally stored and assessed using open-source Digital Imaging and Communications in Medicine viewer software in the transverse, sagittal, and dorsal dimensions. The banded houndshark cadavers were then cryosectioned at approximately 1-cm intervals. Corresponding transverse cryosection images were chosen to identify the best anatomical correlations for transverse CT and MRI images. The resulting images provided excellent detail of the major anatomical structures of the banded houndshark. The illustrations in the present study could be considered as a useful reference for interpretation of normal and pathological imaging studies of sharks.

Was the Devonian placoderm Titanichthys a suspension feeder?

Large nektonic suspension feeders have evolved multiple times. The apparent trend among apex predators for some evolving into feeding on small zooplankton is of interest for understanding the associated shifts in anatomy and behaviour, while the spatial and temporal distribution gives clues to an inherent relationship with ocean primary productivity and how past and future perturbations to these may impact on the different tiers of the food web. The evolution of large nektonic suspension feeders-'gentle giants'-occurred four times among chondrichthyan fishes (e.g. whale sharks, basking sharks and manta rays), as well as in baleen whales (mysticetes), the Mesozoic pachycormid fishes and at least twice in radiodontan stem group arthropods (Anomalocaridids) during the Cambrian explosion. The Late Devonian placoderm Titanichthys has tentatively been considered to have been a megaplanktivore, primarily due to its gigantic size and narrow, edentulous jaws while no suspension-feeding apparatus have ever been reported. Here, the potential for microphagy and other feeding behaviours in Titanichthys is assessed via a comparative study of jaw mechanics in Titanichthys and other placoderms with presumably differing feeding habits (macrophagy and durophagy). Finite-element models of the lower jaws of Titanichthys termieri in comparison to Dunkleosteus terrelli and Tafilalichthys lavocati reveal considerably less resistance to von Mises stress in this taxon. Comparisons with a selection of large-bodied extant taxa of similar ecological diversity reveal similar disparities in jaw stress resistance. Our results, therefore, conform to the hypothesis that Titanichthys was a suspension feeder with jaws ill-suited for biting and crushing but well suited for gaping ram feeding.

Facial model collection for medical augmented reality in oncologic cranio-maxillofacial surgery

Medical augmented reality (AR) is an increasingly important topic in many medical fields. AR enables x-ray vision to see through real world objects. In medicine, this offers pre-, intra- or post-interventional visualization of "hidden" structures. In contrast to a classical monitor view, AR applications provide visualization not only on but also in relation to the patient. However, research and development of medical AR applications is challenging, because of unique patient-specific anatomies and pathologies. Working with several patients during the development for weeks or even months is not feasible. One alternative are commercial patient phantoms, which are very expensive. Hence, this data set provides a unique collection of head and neck cancer patient PET-CT scans with corresponding 3D models, provided as stereolitography (STL) files. The 3D models are optimized for effective 3D printing at low cost. This data can be used in the development and evaluation of AR applications for head and neck surgery.

Computed tomography data collection of the complete human mandible and valid clinical ground truth models

Image-based algorithmic software segmentation is an increasingly important topic in many medical fields. Algorithmic segmentation is used for medical three-dimensional visualization, diagnosis or treatment support, especially in complex medical cases. However, accessible medical databases are limited, and valid medical ground truth databases for the evaluation of algorithms are rare and usually comprise only a few images. Inaccuracy or invalidity of medical ground truth data and image-based artefacts also limit the creation of such databases, which is especially relevant for CT data sets of the maxillomandibular complex. This contribution provides a unique and accessible data set of the complete mandible, including 20 valid ground truth segmentation models originating from 10 CT scans from clinical practice without artefacts or faulty slices. From each CT scan, two 3D ground truth models were created by clinical experts through independent manual slice-by-slice segmentation, and the models were statistically compared to prove their validity. These data could be used to conduct serial image studies of the human mandible, evaluating segmentation algorithms and developing adequate image tools.

X-ray computed microtomography of Megachirella wachtleri

Understanding the origin and early evolution of squamates has been a considerable challenge given the extremely scarce fossil record of early squamates and their poor degree of preservation. In order to overcome those limitations, we conducted high-resolution X-ray computed tomography (CT) studies on the fossil reptile Megachirella wachtleri (Middle Triassic, northern Italy), which revealed an important set of features indicating this is the oldest known fossil squamate in the world, predating the previous oldest record by ca. 75 million years. We also compiled a new phylogenetic data set comprising a large sample of diapsid reptiles (including morphological and molecular data) to investigate the phylogenetic relationships of early squamates and other reptile groups along with the divergence time of those lineages. The re-description of Megachirella and a new phylogenetic hypothesis of diapsid relationships are presented in a separate study. Here we present the data descriptors for the tomographic scans of Megachirella, which holds fundamental information to our understanding on the early evolution of one of the largest vertebrate groups on Earth today.