Life Sciences Commons^™

Genomic Adaptations And Evolutionary History Of The Extinct Scimitar-Toothed Cat, Homotherium Latidens, Ross Barnett, Michael V. Westbury, Marcela Sandoval-Velasco, Filipe Garrett Vieira, Sungwon Jeon, Grant Zazula, Michael D. Martin, Simon Y.W. Ho, Niklas Mather, Shyam Gopalakrishnan, Jazmín Ramos-Madrigal, Marc De Manuel, M. Lisandra Zepeda-Mendoza, Agostinho Antunes, Aldo Carmona Baez, Binia De Cahsan, Greger Larson, Stephen J. O'Brien, Eduardo Eizirik, Warren E. Johnson, Klaus Peter Koepfli, Andreas Wilting, Jörns Fickel, Love Dalén, Eline D. Lorenzen, Tomas Marques-Bonet, Anders J. Hansen, Guojie Zhang, Jong Bhak

Biology Faculty Articles

Homotherium was a genus of large-bodied scimitar-toothed cats, morphologically distinct from any extant felid species, that went extinct at the end of the Pleistocene [1–4]. They possessed large, saber-form serrated canine teeth, powerful forelimbs, a sloping back, and an enlarged optic bulb, all of which were key characteristics for predation on Pleistocene megafauna [5]. Previous mitochondrial DNA phylogenies suggested that it was a highly divergent sister lineage to all extant cat species [6–8]. However, mitochondrial phylogenies can be misled by hybridization [9], incomplete lineage sorting (ILS), or sex-biased dispersal patterns [10], which might be especially relevant for Homotherium since widespread …

Using Structural Equation Modeling To Model Compliance With Covid-19 Related Non-Pharmaceutical Interventions Amongst University Students In The United States, Spencer G. Shumway, Jonas D. Hopper, Ethan R. Tolman, Daniel G. Ferguson, Gabriella Hubble, David Patterson, Jamie Jensen

ScholarsArchive Data

There are two data files. The "General Data" comes from a nationwide poll using Qualtrics polling software. The "Utah Data" comes from undergraduate biology students at UVU and BYU. The survey gathered demographic data and attitudes toward the COVID pandemic.

Bullseye Snakehead Fish (Channa Marulius) Neurocranium, James A. Moss, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium had an estimated length of 11 cm, Bullseye Snakehead (Channa marulius), invasive species collected from South Florida

[Silk Snapper, Lutjanus Vivanus] Neurocranium, Rachel Taylor, David W. Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Silk snapper, Lutjanus vivanus, apart of the Lutjanidae family. A species of red snapper commonly found in the Atlantic and Gulf of Mexico.

Neurocranium prep submission for Dr. Kertstetter, MBIO 3700 Biology of Fishes

Wahoo (Acanthocybium Solandri) Neurocranium, Emily M. Salonia, Mariah Medina, David W. Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium from 18.8 cm total length (TL) Wahoo (Acanthocybium solandri) collected from Dr. Kerstetter's Fisheries and Avian Ecology Laboratory at Nova Southeastern University Oceanographic Center on 31/8/20 by Emily Salonia.

Atlantic Mackerel (Scomber Scombrus) Neurocranium, Victor A. Reyes, David W. Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Atlantic Mackerel (Scomber scombrus), collected on 12/9/20 by Victor Reyes

Queen Snapper(Etelis Oculatus), Katelyn Digirolomo, David W. Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium from 10.5cm total length(TL) of a Queen Snapper, Etelis oculatus. Collected from Lee Be Fish in Naples Florida on September 12th 2020 by Katelyn DiGirolomo.

Lane Snapper (Lutjanus Synagris) Neurocranium, Jordan Warren, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

No abstract provided.

Blackfin Tuna (Thunnus Atlanticus) Neurocranium, Chase Adam Dejarnett, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Blackfin Tuna (Thunnus atlanticus)

Neurocranium prep for Biology of Fishes coursework at Nova Southeastern University

Milkfish (Chanos Chanos) Neurocranium, Golda Stewart, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium from Milkfish (Chanos chanos), collected from Foodtown on 08/09/2020 by Golda Stewart.

Atlantic Salmon (Salmo Salar) Neurocranium, Connor Depriest, Nadia Abeido, David Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

9.0 cm in length. Neurocranium scan of an Atlantic Salmon (Salmo salar). Collected from Two Bills Seafood on 04/09/20 by Nadia Abeido and Connor Depriest.

Red Lionfish (Pterois Volitans) Neurocranium, Matthew B. Edwards, David W. Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium from a Lionfish (Pterois volitans) collected from whole foods supermarket on 11/9/2020

Escolar (Lepidocybium Flavobrunneum) Neurocranium, Meredith M. Pratt, Katerina D. Sawickij, David W. Kerstetter

All Scans: Kerstetter Fisheries and Avian Ecology 3D Scan Series

Neurocranium prep of escolar Lepidocybium flavobrunneum obtained from longlining vessel.

Shadowed Image Particle Profiling Evaluation Recorder (Sipper) Plankton And Marine Snow Abundance And Distribution Data Collected Aboard Multiple Research Cruises In The Northeastern Gulf Of Mexico From 2010-05-12 To 2010-09-16, Kendra L. Daly, Andrew W. Remsen, Kurt Kramer

C-IMAGE data

This dataset contains the abundance and distribution of marine snow, phytoplankton, zooplankton, and larval fish, along with environmental parameters, collected aboard several research vessels (RV Weatherbird II, MV Specialty Diver, RV Gordon Gunter) in the northeastern Gulf of Mexico from 2010-05-12 to 2010-09-16. A high speed Dalsa Piranha-2 line-scan camera and a pseudo-collimated LED generated light sheet was used to image the shadows and outlines of resolvable particles that passed through a 100 cm2 field of view. The operational optical resolution of the system was ~65 um. The camera was towed at speeds between 2-3 knots in an oblique profile …

Glucocorticoids, Energy Metabolites, And Immunity Vary Across Allostatic States For Plateau Side-Blotched Lizards (Uta Stansburiana Uniformis) Residing In A Heterogeneous Thermal Environment, Susannah S. French, Spencer B. Hudson

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Reptiles rely on thermal heat exchange to achieve body temperatures (Tbody) conducive to maintaining homeostasis. Diurnal changes in the thermal environment are therefore liable to influence allostatic mediation of survival processes (e.g., immunity) during environmental challenges or stressors. However, the extent to which Tbody prompts individual variation in physiology remains largely unexplored in reptiles. Our study tested how circulating energy-mobilizing hormone, energy metabolites, and immunity can vary across basal and stress-induced allostatic states for plateau side-blotched lizards (Uta stansburiana uniformis) residing in a heterogeneous thermal environment. We collected baseline and acute stress blood samples from male lizards to compare changes …

Sabie Water Use, Andrew Kulmatiski

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Plant root distributions are thought to determine plant growth and coexistence, but are notoriously difficult to measure. This dataset describes the concentration of deuterium oxide in plant tissues in plots where deuterium oxide was injected to target depths.

Dna Barcoding Of Fish Eggs Collected Aboard R/V Weatherbird Ii Cruise Wb1731 Across The Florida Straits And Off Of Northwestern Cuba From 2017-05-13 To 2017-05-25, Makenzie Kerr, Mya Breitbart, Steven Murawski, Ernst B. Peebles, Maickel Armenteros, Jeremy Browning, Eva-Maria Bønnelycke, Chuanmin Hu, Yingjun Zhang

C-IMAGE data

This dataset contains DNA barcoding results of fish eggs collected along the northwestern coast of Cuba and across the Florida Straits from 2017-05-13 to 2017-05-25 using bongo plankton nets. The dataset also includes cruise data from twenty-three different stations collected during R/V Weatherbird II cruise WB1731. Individual eggs were DNA barcoded to identify species of fish spawning in the area. This dataset supports the publication: Kerr, M., Browning, J., Bønnelycke, E.M., Zhang, Y., Hu, C., Armenteros, M., Murawski, S., Peebles, E. and Breitbart, M. (2020). DNA barcoding of fish eggs collected off northwestern Cuba and across the Florida Straits demonstrates …

Profiling Of Small Non-Coding Rna In Bovine Somatic Cell Nuclear Transfer Embryos During Early Development Through The Maternal-To-Embryonic Transition, Abby D. Benninghoff, Jocelyn Cuthbert

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Supplementary File 1. Read lengths and annotation summaries of sncRNA: Microsoft Excel document with information from small RNA sequencing on the aligned, annotated reads.

Supplementary File 2. Normalized and variance-stabilized values for annotated sncRNAs: Microsoft Excel document with normalized and variance-stabilized reads generated by RNA sequencing of small non-coding RNA from cattle embryos.

Supplementary File 3. Results of DESeq2 analyses for miRNAs, tRNA fragments and piRNAs: Microsoft Excel document with results of DESeq2 differential expression analysis comparing scNT vs IVF embryos at each developmental stage and sequential comparisons of developmental stage for both IVF and scNT embryos.

Supplementary File 4. …

Mapping Transcriptional Changes Associated With The Maternal-To-Embryonic Transition In Bovine Embryos To Small Non-Coding Rna Profiles In Both In Vitro-Fertilized And Scnt Cattle Embryos, Abby D. Benninghoff, Jocelyn Cuthbert

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Supplementary File 1. Normalized reads for annotated mRNA transcripts. Microsoft Excel document providing normalized sequencing reads per sample.

Supplementary File 2. Results of DESeq2 analyses for annotated mRNAs. Microsoft Excel document with results of DESeq2 differential expression analysis comparing scNT vs IVF embryos at each developmental stage and sequential comparisons of developmental stage for both IVF and scNT embryos.

Supplementary File 3. Results of Metascape ontology analyses for differentially expressed mRNAs. Microsoft Excel document with results of Metascape ontology analyses for biological processes associated with predicted mRNA targets of differentially expressed miRNAs.

Supplementary File 4. Cytoscape networks for differentially expressed …

Dataset For "Attributes Of Phragmites Australis In Response To Climate Change Using A Common Garden Study", Stephen L. Young

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The response of plant species to environmental change, including climate, is based on phenotypic plasticity. Empirical research can help in understanding how invasive plants adapt to changing conditions for successful establishment. Our goal was to assess the effect of environment of origin and ecotypic variation on phenotypic response of native and invasive Phragmites australis using morphological and ecophysiological measurements. We established a common garden study using seeds collected from Southwest, Midwest, and Great Lakes regions that crossed longitudinal and latitudinal gradients of the US. Within and end of growing season measurements were made for morphological (e.g., height, leaf size, inflorescence) …

End-Grain Of 10 North American Hardwoods, Lopes Dercilio Verly Junior, Greg W. Burgreen, Edward D. Entsminger

College of Forest Resources Publications and Scholarship

This technical note determines the feasibility of using an InceptionV4_ResNetV2 convolutional neural network (CNN) to correctly identify hardwood species from macroscopic images. The method is composed of a commodity smartphone fitted with a 14× macro lens for photography. The end-grains of ten different North American hardwood species were photographed to create a dataset of 1709 images. The stratified 5-fold cross-validation machine-learning method was used, in which the number of testing samples varied from 341 to 342. Data augmentation was performed on-the-fly for each training set by rotating, zooming, and flipping images. It was found that the CNN could correctly identify …

Data From: Consumption Of The Total Western Diet Promotes Colitis And Inflammation-Associated Colorectal Cancer In Mice, Abby D. Benninghoff

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Gene expression data for colon tissues obtained prior to, during, and after onset of colitis in mice fed either a standard or Western type diet.

File 1: probe annotations.

File 2: nSolver differential expression analysis results.

File 3: Gene set analysis

File 4: nSolver pathway scores

File 5: STRING-db networks and clusters

File 6: Metascape ontology results

File 7: nSolver cell type profiling scores

Carbon Dioxide Attracts Nesting Behavior In Captive African Naked Mole-Rats, Dan Mccloskey

Publications and Research

This dataset contains raw Radio Frequency Identification data for a 185 hour gas infusion study conducted in the TT-2 colony at the College of Staten Island in May-June 2019. The purpose of this experiment was to determine whether colony members would be attracted to a chamber with elevated carbon dioxide levels matching the highest values recorded in the typical colony nest. The results show a significant attraction to the CO2-infused chamber during and after the period of CO2 in=fusion, with the relocation of the colony nest to this site for the first time in the history of this colony. These …

Digitized Galapagos Tortoise Whaling Data From 1831-1868, Cyler Norman Conrad, Noah Garwood, James P. Gibbs

Anthropology Datasets

This repository includes a spreadsheet of digitized Galapagos tortoise count data originally transcribed from whaling and sealing logbooks by Charles H. Townsend and published in 1925. Notes are included which describe how the counts were digitized. Data published in Townsend (1925) and digitized here are presented in: Conrad, C. and Gibbs, J.P. (in preparation). Chapter 4: The Era of Exploitation: 1535-1959. In Galapagos Giant Tortoises, Gibbs, James P., Linda J. Cayot and Wacho Tapia (eds.). Elsevier.

Human Papilloma Virus Vaccine, Lucia Soca Gallego, Alvio Dominguez, Mayur S. Parmar

HPD Articles

No abstract provided.

Flucytosine, Inderbir S. Padda, Mayur S. Parmar

HPD Articles

No abstract provided.

Reserpine, Michelle Cheung, Mayur S. Parmar

HPD Articles

No abstract provided.

Biomechanics In The 4haie Study: Air Pollution And Musculoskeletal Health - An Update, Daniel Jandacka, Jaroslav Uchityil, David Zahradník, Roman Farana, Dominik Villimek, Jiri Skypala, Jan Urbaczka, Jan Plesek, Adam Motyka, Denisa Blaschova, Gabriela Beinhauerova, Marketa Rygelová, Pavel Brtva, Zuzana Golembiovska, Klara Balazova, Jan Malus, Veronika Horka, Julia F. Silvernail, Gareth Irwin, Miika T. Nieminen, Victor Casula, Vlado Juras, Milos Golian, Steriani Elavsky, Lenka Knapova, Radim Sram, Joseph Hamill

Kinesiology and Nutrition Sciences Faculty Publications

The overall purpose of the 4HAIE study was to assess the influence of the interaction between air pollution and biomechanical, physiological and psychosocial factors on the incidence of injuries, health and well-being. A total of 1,500 active runners and inactive controls aged 18-65 will be recruited. Herein, we describe the biomechanical study design with data examples to investigate musculoskeletal and neuro-mechanics health in different air quality regions.

Footstrike Patterns Of High And Mid-Mileage Non-Rearfoot Runners During An Exhaustive Run, Jan Urbaczka, Julia F. Silvernail, Daniel Jandacka

Kinesiology and Nutrition Sciences Faculty Publications

The purpose of this study was to identify the effect of fatigue on footstrike patterns in two groups of habitually non-rearfoot runners. Twenty-eight runners participating in this study were divided into two groups by their weekly mileage. Participants completed a VO2max test to determine the velocity for the fatiguing run. Kinematic, physiological and biochemical data from the beginning and the remaining 3 minutes of fatiguing treadmill run were obtained. The overall time for fatiguing run exceeded 40 minutes (t = 48,1 ± 3,6 min.). The foot angle at the instant of initial contact significantly changed in both groups following fatigue. …

Footfall Pattern During Running In Preschool Children According To Age And Footwear, Jan Plesek, Julia F. Silvernail, Joseph Hamill, Daniel Jandacka

Kinesiology and Nutrition Sciences Faculty Publications

The aim of this study was to compare the footfall pattern (FP) in different age groups of preschool children while they ran in standard running shoes (SRS) and barefoot. Forty-eight children aged 3-6 years participated in the study and were split into 4 age groups (n=12). All children performed a simple running game (based on the shuffle run) in SRS and barefoot. The length of the runway was adjusted for each age group. Kinematic and kinetic data were collected using 3-D motion capture system. We analyzed strike index (SI) and sagittal plane ankle angle (AA) at initial contact (IC) from …