Life Sciences Commons^™

Cell Membrane-Anchored And Tumor-Targeted Il-12 T-Cell Therapy Destroys Cancer-Associated Fibroblasts And Disrupts Extracellular Matrix In Heterogenous Osteosarcoma Xenograft Models, Jiemiao Hu, Alexander J Lazar, Davis Ingram, Wei-Lien Wang, Wendong Zhang, Dristhi Ragoonanan, Xueqing Xia, Kris Mahadeo, Richard Gorlick, Shulin Li

Faculty, Staff and Student Publications

Background: The extracellular matrix (ECM) and cancer-associated fibroblasts (CAFs) play major roles in tumor progression, metastasis, and the poor response of many solid tumors to immunotherapy. CAF-targeted chimeric antigen receptor-T cell therapy cannot infiltrate ECM-rich tumors such as osteosarcoma.

Method: In this study, we used RNA sequencing to assess whether the recently invented membrane-anchored and tumor-targeted IL-12-armed (attIL12) T cells, which bind cell-surface vimentin (CSV) on tumor cells, could destroy CAFs to disrupt the ECM. We established an in vitro model of the interaction between osteosarcoma CAFs and attIL12-T cells to uncover the underlying mechanism by which attIL12-T cells penetrate …

Effects Of Kras Genetic Interactions On Outcomes In Cancers Of The Lung, Pancreas, And Colorectum, Isabella N Grabski, John V Heymach, Kenneth L Kehl, Scott Kopetz, Ken S Lau, Deborah Schrag, Rafael A Irizarry, Kevin M Haigis

Faculty, Staff and Student Publications

Background: KRAS is among the most commonly mutated oncogenes in cancer, and previous studies have shown associations with survival in many cancer contexts. Evidence from both clinical observations and mouse experiments further suggests that these associations are allele- and tissue-specific. These findings motivate using clinical data to understand gene interactions and clinical covariates within different alleles and tissues.

Methods: We analyze genomic and clinical data from the AACR Project GENIE Biopharma Collaborative for samples from lung, colorectal, and pancreatic cancers. For each of these cancer types, we report epidemiological associations for different KRAS alleles, apply principal component analysis (PCA) to …

Toward Standardization, Harmonization, And Integration Of Social Determinants Of Health Data: A Texas Clinical And Translational Science Award Institutions Collaboration, Catherine K Craven, Linda Highfield, Mujeeb Basit, Elmer V Bernstam, Byeong Yeob Choi, Jonathan A Gelfond, Vaishnavi Kannan, Paula K Shireman, Heidi Spratt, Kayla J Torres Morales, Chen-Pin Wang, Zhan Wang, Meredith N Zozus, Edward C Sankary, Susanne Schmidt

Faculty, Staff and Student Publications

INTRODUCTION: The focus on social determinants of health (SDOH) and their impact on health outcomes is evident in U.S. federal actions by Centers for Medicare & Medicaid Services and Office of National Coordinator for Health Information Technology. The disproportionate impact of COVID-19 on minorities and communities of color heightened awareness of health inequities and the need for more robust SDOH data collection. Four Clinical and Translational Science Award (CTSA) hubs comprising the Texas Regional CTSA Consortium (TRCC) undertook an inventory to understand what contextual-level SDOH datasets are offered centrally and which individual-level SDOH are collected in structured fields in each …

Prediction Of Hydrogel Degradation Time Based On Central Composite Design, Manlai Zhang, Xiaohui Li

Faculty, Staff and Student Publications

In this study, a self-degrading hydrogel was formed by free-radical-initiated copolymerization, which can be used for oil and gas well strip pressure operations. Fourier transform infrared spectroscopy (FTIR), nuclear magnetic resonance (1H NMR), scanning electron microscopy (SEM), and thermogravimetry-mass spectrometry (TGA-MS) were used to study the reaction mechanism as well as the microstructure of the gels. Then, the effects of the four factors and their interactions on gel degradation time were determined by central composite design (CCD). Then, the effects of copolymer concentration, cross-linker, initiator, and reaction temperature and their interactions on gel degradation time were determined by central composite …

Using Interprofessional Collaboration To Bridge Athletic Training And Strength And Condition Programs In High School Settings To Reduce Injuries, Craig Hermans

Doctoral Dissertations and Projects

The purpose of this practicum is to identify the differences between between the athletic training professional and the strength and conditioning professional in a school which may cause barriers in using interprofessional collaboration. Currently, the rate of reinjury in a student-athlete population is quite high due, in part, to the different focuses between athletic trainers and that of strength and conditioning coaches. This practicum prepares a compiled review of the literature of research as well as independent research evaluating the student/athletes’ recovery from injury in relation to reinjury. The findings from the research serve a purpose to establish a deeper …

A Survey Of Proximal Sensilla Associated With Denticle Subrows On Scorpion Pedipalp Fingers (Arachnida: Scorpiones), With Observations On Scorpion Fluorescence, Graeme Lowe, Victor Fet

Euscorpius

Sensilla on the dentate margins of scorpion pedipalp fingers, associated with denticle subrows or terminal denticles, were surveyed by white light, UV fluorescence and scanning electron microscopy. A total of 163 species belonging to 103 genera from 19 families were examined, representing all major phylogenetic lineages in the order. In the majority of species (141/152) with dentition organized into linear subrows of median denticles, a small socketed sensillum with a short shaft was observed at the proximal terminus of each subrow, termed a ‘subrow proximal sensilla’ (SPS). With few exceptions, SPS were non-fluorescent (‘Type N’) in buthids, and fluorescent (‘Type …

Root Distributions Predict Shrub–Steppe Responses To Precipitation Intensity, Andrew Kulmatiski, Martin C. Holdrege, Cristina Chirvasǎ, Karen H. Beard

Wildland Resources Faculty Publications

Precipitation events are becoming more intense around the world, changing the way water moves through soils and plants. Plant rooting strategies that sustain water uptake under these conditions are likely to become more abundant (e.g., shrub encroachment). Yet, it remains difficult to predict species responses to climate change because we typically do not know where active roots are located or how much water they absorb. Here, we applied a water tracer experiment to describe forb, grass, and shrub root distributions. These measurements were made in 8 m by 8 m field shelters with low or high precipitation intensity. We used …

A Cyclin D1 Intrinsically Disordered Domain Accesses Modified Histone Motifs To Govern Gene Transcription, Xuanmao Jiao, Gabriele Di Sante, Mathew Casimiro, Agnes Tantos, Anthony Ashton, Zhiping Li, Yen Quach, Dharmendra Bhargava, Agnese Di Rocco, Claudia Pupo, Marco Crosariol, Tamas Lazar, Peter Tompa, Chenguang Wang, Zuoren Yu, Zhao Zhang, Kawthar Aldaaysi, Ratna Vadlamudi, Monica Mann, Emmanuel Skordalakes, Andrew Kossenkov, Yanming Du, Richard Pestell

Department of Pharmacology, Physiology, and Cancer Biology Faculty Papers

The essential G₁-cyclin, CCND1, is frequently overexpressed in cancer, contributing to tumorigenesis by driving cell-cycle progression. D-type cyclins are rate-limiting regulators of G₁-S progression in mammalian cells via their ability to bind and activate CDK4 and CDK6. In addition, cyclin D1 conveys kinase-independent transcriptional functions of cyclin D1. Here we report that cyclin D1 associates with H2B^S14 via an intrinsically disordered domain (IDD). The same region of cyclin D1 was necessary for the induction of aneuploidy, induction of the DNA damage response, cyclin D1-mediated recruitment into chromatin, and CIN gene transcription. In response to …

Extreme Drought Impacts Have Been Underestimated In Grasslands And Shrublands Globally, Melinda D. Smith, Kate D. Wilkins, Martin C. Holdrege, Peter Wilfahrt, Scott L. Collins, Alan K. Knapp, Osvaldo E. Sala, Jeffrey S. Dukes, Richard P. Phillips, Laura Yahdjian, Laureano A. Gherardi, Timothy Ohlert, Claus Beier, Lauchlan H. Fraser, Anke Jentsch, Michael E. Loik, Fernando T. Maestre, Sally A. Power, Qiang Yu, Andrew J. Felton, Seth M. Munson, Yiqi Luo, Hamed Abdoli, Mehdi Abedi, Concepción L. Alados, Juan Alberti, Moshe Alon, Hui An, Brian Anacker, Maggie Anderson, Harald Auge, Seton Bachle, Khadijeh Bahalkeh, Michael Bahn, Amgaa Batbaatar, Taryn Bauerle, Karen H. Beard, Et. Al.

Wildland Resources Faculty Publications

Climate change is increasing the frequency and severity of short-term (~1 y) drought events—the most common duration of drought—globally. Yet the impact of this intensification of drought on ecosystem functioning remains poorly resolved. This is due in part to the widely disparate approaches ecologists have employed to study drought, variation in the severity and duration of drought studied, and differences among ecosystems in vegetation, edaphic and climatic attributes that can mediate drought impacts. To overcome these problems and better identify the factors that modulate drought responses, we used a coordinated distributed experiment to quantify the impact of short-term drought on …

Naturally Derived Phenethyl Isothiocyanate Modulates Induction Of Oxidative Stress Via Its N-Acetylated Cysteine Conjugated Form In Malignant Melanoma, Sotiris Kyriakou, Nikoletta Demosthenous, Tom Amery, Kyle J. Stewart, Paul G. Winyard, Rodrigo Franco, Aglaia Pappa, Mihalis I. Panayiotidis

School of Veterinary and Biomedical Sciences: Faculty Publications

Phenethyl isothiocyanate (PEITC) is a secondary metabolic product yielded upon the hydrolysis of gluconasturtiin and it is highly accumulated in the flowers of watercress. The aim of the current study was to assess the role of a naturally derived PEITC-enriched extract in the induction of oxidative stress and to evaluate its anti-melanoma potency through the regulation of its metabolism with the concurrent production of the N-acetyl cysteine conjugated by-product. For this purpose, an in vitro melanoma model was utilized consisting of human primary (A375) cells as well as metastatic (COLO-679) malignant melanoma cells together with non-tumorigenic immortalized keratinocytes (HaCaT). …

Gut Epithelial Interleukin-17 Receptor A Signaling Can Modulate Distant Tumors Growth Through Microbial Regulation, Vidhi Chandra, Le Li, Olivereen Le Roux, Yu Zhang, Rian M Howell, Seyda Baydogan, Erick Riquelme, Joseph Petrosino, Michael P Kim, Krishna P L Bhat, James R White, Jay K Kolls, Yuliya Pylayeva-Gupta, Florencia Mcallister

Faculty, Staff and Student Publications

Microbes influence cancer initiation, progression and therapy responsiveness. IL-17 signaling contributes to gut barrier immunity by regulating microbes but also drives tumor growth. A knowledge gap remains regarding the influence of enteric IL-17-IL-17RA signaling and their microbial regulation on the behavior of distant tumors. We demonstrate that gut dysbiosis induced by systemic or gut epithelial deletion of IL-17RA induces growth of pancreatic and brain tumors due to excessive development of Th17, primary source of IL-17 in human and mouse pancreatic ductal adenocarcinoma, as well as B cells that circulate to distant tumors. Microbial dependent IL-17 signaling increases DUOX2 signaling in …

Gene Flow And Isolation In The Arid Nearctic Revealed By Genomic Analyses Of Desert Spiny Lizards, Carlos J. Pavón-Vázquez, Qaantah Rana, Keaka Farleigh, Erika Crispo, Mimi Zeng, Jeevanie Liliah, Daniel Mulcahy, Alfredo Ascanio, Tereza Jezkova, Adam D. Leaché, Tomas Flouri, Ziheng Yang, Christopher Blair

Publications and Research

The opposing forces of gene flow and isolation are two major processes shaping genetic diversity. Understanding how these vary across space and time is necessary to identify the environmental features that promote diversification. The detection of considerable geographic structure in taxa from the arid Nearctic has prompted research into the drivers of isolation in the region. Several geographic features have been proposed as barriers to gene flow, including the Colorado River, Western Continental Divide, and a hypothetical Mid-Peninsular Seaway in Baja California. However, recent studies suggest that the role of barriers in genetic differentiation may have been overestimated when compared …

The Irish National Chronic Obstructive Pulmonary Disease Quality Improvement Collaborative: An Adaptive Learning Collaborative, Orla Woods, Rachel Macdonell, John Brennan, Lucia Prihodova, Breda Cushen, Timothy J Mcdonnell

Faculty, Staff and Student Publications

BACKGROUND: Chronic obstructive pulmonary disease (COPD) is the the most common disease-specific cause of adult emergency hospital admissions in Ireland. Preliminary groundwork indicated that treatment of acute exacerbations of COPD (AECOPD) in Ireland is not standardised between public hospitals. Applying Institute for Healthcare Improvement Breakthrough Series and Model for Improvement methodologies, Royal College of Physicians of Ireland designed and conducted a novel flexible and adaptive quality improvement (QI) collaborative which, using embedded evaluation, aimed to deliver QI teaching to enable teams to implement bespoke, locally applicable changes to improve and standardise acute COPD care at presentation, admission and discharge stages …

Polatuzumab Vedotin, Venetoclax, And An Anti-Cd20 Monoclonal Antibody In Relapsed/Refractory B-Cell Non-Hodgkin Lymphoma, Simona F Shaitelman, Wendy A Woodward

Faculty, Staff and Student Publications

Neoadjuvant chemotherapy plus immunotherapy for triple-negative breast cancer (TNBC) is associated with improved but incomplete response. In this issue of Cancer Cell, Shiao et al. characterize longitudinal biopsies from a window of opportunity study with single-cell RNA sequencing (scRNA-seq) and spatial proteomic profiling and elucidate synergy between radiotherapy (RT) and pembrolizumab.

Product Attributes Of Car T-Cell Therapy Differentially Associate With Efficacy And Toxicity In Second-Line Large B-Cell Lymphoma (Zuma-7), Simone Filosto, Saran Vardhanabhuti, Miguel A Canales, Xavier Poiré, Lazaros J Lekakis, Craig A Portell, Christina To, Marco Schupp, Soumya Poddar, Tan Trinh, Carmen M Warren, Ethan G Aguilar, Justin Budka, Paul Cheng, Justin Chou, Adrian Bot, Rhine R Shen, Jason R Westin

Faculty, Staff and Student Publications

Treatment resistance and toxicities remain a risk following chimeric antigen receptor (CAR) T-cell therapy. Herein, we report pharmacokinetics, pharmacodynamics, and product and apheresis attributes associated with outcomes among patients with relapsed/refractory large B-cell lymphoma (LBCL) treated with axicabtagene ciloleucel (axi-cel) in ZUMA-7. Axi-cel peak expansion associated with clinical response and toxicity, but not response durability. In apheresis material and final product, a naive T-cell phenotype (CCR7+CD45RA+) expressing CD27 and CD28 associated with improved response durability, event-free survival, progression-free survival, and a lower number of prior therapies. This phenotype was not associated with high-grade cytokine release syndrome (CRS) or neurologic events. …

Modeling Methyl-Sensitive Transcription Factor Motifs With An Expanded Epigenetic Alphabet, Coby Viner, Charles A Ishak, James Johnson, Nicolas J Walker, Hui Shi, Shu Yi Shen, David J Adams, Anne C Ferguson-Smith, Daniel D De Carvalho, Sarah J Hainer, Timothy L Bailey, Michael M Hoffman

Faculty, Staff and Student Publications

BACKGROUND: Transcription factors bind DNA in specific sequence contexts. In addition to distinguishing one nucleobase from another, some transcription factors can distinguish between unmodified and modified bases. Current models of transcription factor binding tend not to take DNA modifications into account, while the recent few that do often have limitations. This makes a comprehensive and accurate profiling of transcription factor affinities difficult.

RESULTS: Here, we develop methods to identify transcription factor binding sites in modified DNA. Our models expand the standard A/C/G/T DNA alphabet to include cytosine modifications. We develop Cytomod to create modified genomic sequences and we also enhance …

Course Portfolio For Biochemistry 1: Structure And Metabolism (Bioc431), Didier Mena

UNL Faculty Course Portfolios

This benchmark portfolio encapsulates a comprehensive exploration aimed at enhancing the educational landscape of the BIOC431 course, a part of the general biochemistry course series (431 and 432). These courses are designed to offer a general introduction to the structure and function of cells in the body, along with their chemical reactions. Specifically, BIOC431 focuses on the structure, function, and metabolism of proteins, lipids, carbohydrates, and other major metabolic pathways. The three primary objectives addressed in this portfolio were the reevaluation of learning objectives, reassessment of assessment methods, and documentation of effective classroom strategies. Through background design, the learning objectives …

Clinical Efficacy Of 5-Fluorouracil And Bleomycin In Dermatology, Suyeon Kim, Yu Ri Woo, Sang Hyun Cho, Jeong Deuk Lee, Hei Sung Kim

Faculty, Staff and Student Publications

Bleomycin and 5-fluorouracil (5-FU) are widely used in various dermatological disorders. Both drugs are well-recognized as antineoplastic drugs and exert their effect by blocking the cell cycle. Topical and intralesional formulations are available and have been studied in both non-neoplastic and cancerous lesions. However, data comparing the effect of bleomycin and 5-FU in the dermatological disorders are limited. This review outlines the action mechanisms of both drugs and compares their clinical efficacies in a wide range of dermatologic diseases including hypertrophic scar, wart, skin cancer, vascular malformation, hemangioma, and vitiligo, and discusses the overall safety of the drugs. Intralesional bleomycin …

Analyzing Water Resource Challenges In The Us Eastern Zone, Yaw Twumasi, E. C. Merem, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

One major narrative over the last several years, consistent with the US Northeast region in policy discourse rests on its perception as a hub with high concentration of city bright lights and skyscrapers but short on water usage. In the process, no one thinks about how the rising demands from urban residential areas to hydroelectricity and climate change stressors impact the hydrology. Yet, what is forgotten is that the economic engine driving the region comes from the interactions in a complex hydrological network anchored in water distribution dependency. At the same time, a closer look at various states indicates that …

Evaluating Climate Change Hazards Within The Us Midwest Zone, Yaw Twumasi, E. C. Merem, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

The US Midwest region known for its web of lakes, rivers and vast swaths of farmland ranks high as the nation’s food basket. Being a huge agricultural hub tied to global markets, the region’s immediate influence spans across multiplicity of states supported by a flourishing supply chain network sustained by farming centers and activities in and outside of the Midwest. Notwithstanding the region’s place as an active farm hub, it is slowly emerging as an epicenter of changing climatic hazards with the manifestations evident in different forms over the years. With many of the risks and recurrent changes now a …

The Effects Of Changing Climate In The Us Western Region, Yaw Twumasi, E. C. Merem, Y. A. Twumasi, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

he Pacific Northwest region of the US has over the years, outpaced other zones in the country in every socio-economic indicator. Known for its enviable physical attributes of high montane ecosystem and warm weather all year round in some places together with abundant biodiversity. The region’s position as among the fastest growing areas in the nation under vast swaths of land with large population concentration in big cities has made it the perennial destination for many. Aside from all these, in the last several years, the zone continues to be the epicenter of the most dangerous natural disasters prompted by …

The Analysis Of Extreme Climate Threats In Maryland’S Lower Region Along The Us Mid Atlantic, Yaw Twumasi, E. C. Merem, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

The state of Maryland for all intents and purposes stands out as a pacesetter in different aspects of environmental planning more than other states. Known for having the first established planning commission in the United States decades ago before its neighbors and a longstanding tradition in orderly planning. One would think such illustrious trajectory, that Maryland enjoys, guarantees immunity from common exposures to climate change dangers based on experience. However, that is not really the case in the Mid Atlantic zone. The same state that boasts of some of the most successful farming operations and a flourishing economy heavily reliant …

Assessing Climate Change Dangers Within The South Florida Region Of Us Southeast, Yaw Twumasi, E. C. Merem, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

In the last several decades, the southern portion of Florida continues to be an attraction, and destination for tourism given its warm environment. Aside from the benefits that accrues the region, with that have come many challenges rooted in climatic uncertainty. To that effect, it is inconceivable to venture into climate change risks analysis overtime, without cognizance of the scale and responses in Florida as a mitigation template considering the frequency therein. In the process, no matter what, the Southern Florida zone remains an epicenter of most natural disasters in the Southeast region of the US based on location and …

Analyzing The Capacities Of Cotton Production In Sudan, Yaw Twumasi, E. C. Merem, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

In the political economy of the nation of Sudan, cotton ranks significantly high as an essential component of the revenue generation sources. Considering the significance of the crop in the country, cotton has not only been exported to various countries, but some portions of the produce are also used up internally. With that also came, large scale cultivation of the cotton produce on vast swaths of land over the years amidst demands and fluctuations in the marketplace. Given the effects of cotton production on the environment from the use of chemicals and widespread water use, there came changes in the …

Investigating The Ecological Effects Of Agricultural Assistance Schemes In California’S Central Valley Area, Yaw Twumasi, E. C. Merem, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

Amidst ongoing changes in the farm sector, the disbursement of farm aid, continues to improve the welfare of growers involved in agricultural activities within the South-Central region of California. Aside from its role as a vital tool meant to maintain the delivery of government assisted farm programming directed at the needy. In the last several decades in the country, the disbursement of federal agricultural assisted programs has risen enormously in line with commitments geared at accelerating the productive capacity of farms considered eligible. With the financial packages earmarked for agri-business tied to few commodities (cotton, corn, rice, wheat), as well …

Exploring Shifts In Yam Production Trends Along Nigeria’S Southern Region, Yaw Twumasi, E. C. Merem, S. Fageir, D. Olagbegi, J. Wesley, R. Coney, Y. Babalola, T. Thomas, A. Hines, G. Hirse, G. S. Ochai, E. Nwagboso, M. Crisler, S. Leggett, J. Offiah, S. Emeakpor

Faculty Publications

Yam as a staple commodity in Nigeria, remains generally grown in different places within the ecological zones and food hubs in the nation. Notwithstanding all that, being integral part of the nation’s food security in a setting where Nigeria ranks high as the largest producer globally. Still, yam continues to find ample use with essential role for numerous purposes. Classified as an important food crop, the use of yam runs deeper, given its high demands for religious, socio-cultural practices, the economy, industries, and the marketplace. Even at that and considering the vast presence of yams over large swaths of land …

Crop Classification In South Korea For Multitemporal Planetscope Imagery Using Sfc-Densenet-Am, Seonkyeong Seong, Anjin Chang, Junsang Mo, Sangil Na, Hoyong Ahn, Jaehong Oh, Jaewan Choi

Agricultural and Environmental Sciences Faculty Research

In this manuscript, a new methodology based on a deep learning model using a Siamese network and attention module was proposed to classify crop cultivation areas, such as onion and garlic, from multitemporal PlanetScope images in South Korea. To consider the seasonal characteristics of crops in the model, training data were constructed from multitemporal satellite images. It was generated using PlanetScope satellite imagery from January and April, corresponding to the seasonal growth period of onion and garlic, in South Korea. Image patches were generated by considering the ratio of crops to minimize the influence of imbalanced data in the training …

Tail-Tape-Fused Virion And Non-Virion Rna Polymerases Of A Thermophilic Virus With An Extremely Long Tail, Anastasiia Chaban, Leonid Minakhin, Ekaterina Goldobina, Brain Bae, Yue Hao, Sergei Borukhov, Leena Putzeys, Maarten Boon, Florian Kabinger, Rob Lavigne, Kira S Makarova, Eugene V Koonin, Satish K Nair, Shunsuke Tagami, Konstantin Severinov, Maria L Sokolova

Rowan-Virtua School of Osteopathic Medicine Departmental Research

Thermus thermophilus bacteriophage P23-45 encodes a giant 5,002-residue tail tape measure protein (TMP) that defines the length of its extraordinarily long tail. Here, we show that the N-terminal portion of P23-45 TMP is an unusual RNA polymerase (RNAP) homologous to cellular RNAPs. The TMP-fused virion RNAP transcribes pre-early phage genes, including a gene that encodes another, non-virion RNAP, that transcribes early and some middle phage genes. We report the crystal structures of both P23-45 RNAPs. The non-virion RNAP has a crab-claw-like architecture. By contrast, the virion RNAP adopts a unique flat structure without a clamp. Structure and sequence comparisons of …

Vibroscape Analysis Reveals Acoustic Niche Overlap And Plastic Alteration Of Vibratory Courtship Signals In Ground-Dwelling Wolf Spiders, Noori Choi, Pat Miller, Eileen A. Hebets

School of Biological Sciences: Faculty Publications

To expand the scope of soundscape ecology to encompass substrate-borne vibrations (i.e. vibroscapes), we analyzed the vibroscape of a deciduous forest floor using contact microphone arrays followed by automated processing of large audio datasets. We then focused on vibratory signaling of ground-dwelling Schizocosa wolf spiders to test for (i) acoustic niche partitioning and (ii) plastic behavioral responses that might reduce the risk of signal interference from substrate-borne noise and conspecific/heterospecific signaling. Two closely related species - S. stridulans and S. uetzi - showed high acoustic niche overlap across space, time, and dominant frequency. Both species show plastic behavioral …

Through Their Eyes: Illuminating The Nature Of Animal Use In Conservation Research Through An Analysis Of Peer-Reviewed Literature In The Journal Conservation Biology, Sarah Hollmann

Theses and Dissertations

Non-human animals habitually have been treated as a resource in the service of humans and human-driven values. The field of conservation is not immune to this fact. But, because conservation is seemingly dedicated to the saving and protection of species and nature, until recently the field historically has been given a pass for the use and treatment of animals that are done “in the name of conservation”. This treatment is evident in common conservation practices such as capture, captivity, invasive sampling, aversive treatment, experimental manipulation, and intentional killing. A principal question we are asking is how individual animals are impacted …