A Virtual Necropsy: Applications of 3D Scanning for Marine Mammal Pathology and Education (original) (raw)
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The Natural History Museum of the University of Pisa hosts one of the most important osteological collections of cetaceans all over Europe, as well as a conspicuous paleontological collection, including several holotypes of Archaeoceti (archaic whales), Mysticeti (baleen whales), and Odontoceti (toothed whales). In order to valorize these collections, we used 3D technologies to digitize the most relevant specimens, create an online archive, and make the resulting models accessible and shareable with the broadest audience possible through social media profiles and internet browsers. Tens of specimens were surface-scanned using a structured-light scanner, and the resulting 3D models were processed for post-production through the 3D software Blender whenever necessary. All the 3D scans were then gathered in the online repository Sketchfab, which was chosen for its user-friendly interface and common usage among museum institutions. The result is a web page that hosts 35 surface scans of...
2022
Of all animals considered subjects for instrumentation for behavioral or physiological studies, cetaceans probably represent the greatest challenge to the engineer and biologist. Both the marine environment being harsh to electronics and the short time window available to attach instruments imply a need for innovative tagging solutions to facilitate better understanding of their life cycle, migration, physiology, behavior, health and genetics. Several sensor packages holding speci c data loggers e.g., time depth recorders, position, orientation, acoustic and video recorders for short to medium term studies, as well as tags developed for large scale migration telemetry studies are available as off-the-shelf devices, or in many cases as custom made sensor packages. Deployment of those instruments is often the limiting factor for data collection. The Aerial Remote Tag System (ARTS) is a exible system which can easily be adapted to deploy different tag sensor packages and biopsy collection devices. This paper presents the history and design of the ARTS, and accessories developed for instrumentation and biopsy sampling of cetaceans, such as the recent developed ARTS-LKDart for biopsy sampling. Deployment of archival tags usually requires radio tracking of the instrumented animal, or at least tracking of the tag for recovery. Thus, we also here describe the digital signal processing radio direction nder, Direction Finder Horten (DFHorten unit).
Building a Virtual Model of a Baleen Whale
This long term goal of this research is to eventually CT scan an adult baleen whale. The research effort will be subdivided into three phases. The current activity only covers Phase 1, the design and testing phase. No marine mammal specimens are needed in this initial design and testing phase. Going forward with Phases 2 and 3 will be dependant upon the success of Phase 1. OBJECTIVES Phase 1 will accomplish the following objectives: 1. Investigate, design, test, and purchase an insulated tow bag that will, in later phases, eventually be used to contain a whale carcass and transport it to a haul-out marina where it can be hoisted into a steel cradle.
Raverty et al. 2024 Gray Whale Necropsy Findings
Plos One
Beginning in December 2018, increased numbers of gray whale Eschrichtius robustus) strandings were reported along the west coast of Mexico, the United States, and Canada, prompting declaration of a gray whale Unusual Mortality Event (UME) by the United States National Marine Fisheries Service. Although strandings declined in 2020 and 2021 from a peak in 2019, the UME is still ongoing as of fall 2023. Between 17 December 2018 and 31 December 2021, 503 animals stranded along the west coast of North America, with 226 strandings in Mexico, 71 in California, 12 in Oregon, 56 in Washington, 21 in BritishColumbia, and 117 in Alaska. These included 187 males, 167 females, and 149 whales of undetermined sex; and 193 adults, 194 subadults, 40 calves, 1 fetus, and 75 whales of indetermined age class. We report on 61 of the 503 carcasses (12%) that had external and internal gross necropsy and/or histopathology data: of these 61 whales, findings that contributed to death were identified in 33 (54%) whales. Sixteen of the 61 (26%) were severely emaciated. Gross lesions of blunt force trauma consistent with vessel strike were identified in 11 of the 61 animals (18%), only two of which were emaciated. Two whales (3%) were entangled at time of death, and one died from entrapment. Signs of killer whale (Orcinus orca) interaction were documented in 19 of the 61 animals; five were deemed from recent interactions and three (5%) likely contributed to mortality. A specific cause of death could not be identified in 28 of 61 whales (46%). Additionally, logistical challenges and the advanced state of decomposition of most examined carcasses precluded detection of potential infectious or toxic causes of morbidity or mortality. Up to 2016, the eastern North Pacific population of gray whale population had generally been increasing since the cessation of historic whaling and a prior UME in 1999–2000. However, recent abundance and calf production estimates have declined, a trend that overlaps the current UME. The relative contributions of carrying capacity, environmental change, prey shifts, and infectious, toxic, and other processes to the increased gray whale mortalities have not yet been resolved. Nevertheless, the marked temporal increase in strandings, including findings of malnutrition in some of the whales, along with low calf production, likely represent consequences of complex and dynamic ecological interactions in the ocean impacting the population.
3d Scanning and Printing Faunal Remains for Accessibility in Future Education
2019
Comparative faunal collections are important for both research and learning, but being used as learning tools puts faunal remains at greater risk of damage. To help make elements from comparative collections available for research and education, we examine if 3D scanning and printing are yet precise enough to generate comparable models of faunal remains. For such materials to be useful, they must be accurate to the original element, quick and cheap to make, and be easily shared. By using online services to host scans, faunal remains become accessible to people all over the world who may not otherwise have certain specimens in their own comparative collections (Niven et al. 2009). Using the Matter and Form 3D scanner, we generated 3D scans of the stylohyoids of a domestic cattle and domestic sheep and assorted carpals of a domestic cattle, a mountain goat, a bighorn sheep, a pronghorn, and mule deer. These scans were meshed to create a 3D model of each element, which were then printed using two different 3D printing methods. Osteometrics were generated to help quantify the accuracy of the prints to the original elements and test which features became most distorted in the scanning process.
ARCTIC, 2014
The skeletal remains of an adult Sadlermiut woman with obvious trauma to her cranial and post-cranial skeleton were excavated from Native Point (KkHh-1), Southampton Island, Nunavut, in 1954. In order to determine the possible cause of this damage, we first documented the skeletal injuries using traditional bioarchaeological techniques. We then created a three-dimensional model of the cranium and mandible to permit better visualization and analysis of the cranial lesions, some of which were obscured by post-depositional weathering. This model was imported into a virtual environment in order to compare the lesions with the craniodental structure of four Arctic carnivore species available as digital models through the Virtual Zooarchaeology of the Arctic Project (VZAP), an online comparative faunal collection. We eliminated all but the polar bear (Ursus maritimus) using this process, which suggested that an individual of this species was responsible for the skeletal trauma. We further identified a minimum number of "bites" on the cranium, some with overlapping lesions, which suggested a possible attack sequence. Use of a virtual environment and an online comparative collection were critical to this process and represent a new technique for evaluating past skeletal trauma and its causes.
Visual health assessment of North Atlantic right whales ( Eubalaena glacialis ) using photographs
Canadian Journal of Zoology, 2004
Although trends in reproduction, mortality, and entanglement events have been analyzed for the endangered North Atlantic right whale (Eubalaena glacialis) population, no method has been available to assess individual right whale health. Here, we describe a technique for assessing health based on evaluation of selected physical parameters from archived photographs of right whales. A scoring system was developed to assess body and skin condition, blowhole cyamids, and rake marks in over 200 000 photographs. Comparison of body condition scores of females during calving and noncalving years found that females were significantly thinner in calving years and in the year after calving compared with the year before calving, showing that changes in body condition known to occur during the reproductive cycle can be successfully evaluated from photographs. Comparison of scores for all parameters between living whales and whales with more than a 5-year gap in sighting history ("presumed dead") found that presumed dead whales received health assessment scores indicating compromised health with body condition emerging as a key visual indicator. This health assessment method provides a new tool to monitor health trends in right whales at individual and population levels and may provide a model for assessments of other well-photographed cetaceans.
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Analysis of cetacean blow offers a unique potential for non-invasive assessments of their health. In recent years, the use of uncrewed aerial vehicles (UAVs) has revolutionized the way these samples are collected. However, the high cost and expertise associated with purpose-built waterproof UAVs, paired with the challenges of operating during difficult meteorological conditions, can be prohibitive for their standardized use worldwide. A pilot study was conducted in a Northern Norwegian fjord during winter, to assess the feasibility of using a minimally modified and affordable consumer drone to collect blow samples even during the polar nights’ challenging weather conditions. For each flight, six petri dishes were attached with velcro to a DJI Mavic 2 Pro. The flights were conducted under temperatures ranging from -1 to -18 degrees Celsius, wind speeds ranging from 9 to 31 km/h, and with the absence of the sun. During the 6-day-long boat survey, 16 blow samples were successfully coll...
Diseases of Aquatic Organisms, 2019
Seventy mortalities of North Atlantic right whales Eubalaena glacialis (NARW) were documented between 2003 and 2018 from Florida, USA, to the Gulf of St. Lawrence, Canada. These included 30 adults, 14 juveniles, 10 calves, and 16 of unknown age class. Females represented 65.5% (19/29) of knownsex adults. Fourteen cases had photos only; 56 carcasses received external examinations, 44 of which were also necropsied. Cause of death was determined in 43 cases, of which 38 (88.4%) were due to anthropogenic trauma: 22 (57.9%) from entanglement, and 16 (42.1%) from vessel strike. Gross and histopathologic lesions associated with entanglement were often severe and included deep lacerations caused by constricting line wraps around the flippers, flukes, and head/mouth; baleen plate mutilation; chronic extensive bone lesions from impinging line, and traumatic scoliosis resulting in compromised mobility in a calf. Chronically entangled whales were often in poor body condition and had increased cyamid burden, reflecting compromised health. Vessel strike blunt force injuries included skull and vertebral fractures, blubber and muscle contusions, and large blood clots. Propeller-induced wounds often caused extensive damage to blubber, muscle, viscera, and bone. Overall prevalence of NARW entanglement mortalities increased from 21% (1970−2002) to 51% during this study period. This demonstrates that despite mitigation efforts, entanglements and vessel strikes continue to inflict profound physical trauma and suffering on individual NARWs. These cumulative mortalities are also unsustainable at the population level, so urgent and aggressive intervention is needed to end anthropogenic mortality in this critically endangered species. North Atlantic right whale carcass found chronically entangled in fishing gear ~60 miles off the Virginia coast, and later towed to shore for necropsy. Investigating whale carcasses to determine cause of death requires specialized skills, logistics, and dedicated funding.