Digital Commons Network^™

Comparison Of The Transcriptomic Signatures In Pediatric And Adult Cml, Minyoung Youn, Stephanie M. Smith, Alex Gia Lee, Hee-Don Chae, Elizabeth Spiteri, Jason Erdmann, Ilana Galperin, Lara Murphy Jones, Michele Donato, Parveen Abidi, Henrique Bittencourt, Norman Lacayo, Gary Dahl, Catherine Aftandilian, Kara L. Davis, Jairo A. Matthews, Steven M. Kornblau, Min Huang, Nathan Sumarsono, Michele S. Redell, Cecilia H. Fu, I-Ming Chen, Todd A. Alonzo, Elizabeth Eklund, Jason Gotlib, Purvesh Khatri, E Alejandro Sweet-Cordero, Nobuko Hijiya, Kathleen M. Sakamoto

Pathology Research and Scholarship

Children with chronic myeloid leukemia (CML) tend to present with higher white blood counts and larger spleens than adults with CML, suggesting that the biology of pediatric and adult CML may differ. To investigate whether pediatric and adult CML have unique molecular characteristics, we studied the transcriptomic signature of pediatric and adult CML CD34+ cells and healthy pediatric and adult CD34+ control cells. Using high-throughput RNA sequencing, we found 567 genes (207 up- and 360 downregulated) differentially expressed in pediatric CML CD34+ cells compared to pediatric healthy CD34+ cells. Directly comparing pediatric and adult CML CD34+ cells, 398 genes (258 …

Sex- And Age - Specific Migratory Strategies Of Blue Whales In The Northeast Pacific, Christina Blevins

Biology ETDs

Sequential subsampling of blue whale baleen plates can yield information of individual migratory plasticity of this endangered species in the northeast Pacific Ocean. We measured δ13C and δ15N isotope values along baleen from thirteen whales of different age and sex. Results showed sex/age-specific migratory strategies. Adult females exhibited relatively stable cyclical movements between temperate and subtropical regions. Adult males exhibited two strategies, most remained within temperate latitudes, whereas two migrated to subtropical latitudes. Movement patterns in juveniles were erratic. These patterns are potentially driven by energetic requirements of females, intraspecific competitions among adult males, and inexperience in locating prey in …

Generalized Pythagorean Neutrosophic Sets In The Study Of Group Theory, Somen Debnath

Neutrosophic Sets and Systems

No abstract provided.

Practical Applications Of The Independent Neutrosophic Components And Of The Neutrosophic Offset Components, Florentin Smarandache

Neutrosophic Sets and Systems

No abstract provided.

Single Valued Neutrosophic Vikor And Its Application To Wastewater Treatment Selection, Nor Liyana Amalini Mohd Kamal, Lazim Abdullah, Fu Ming Yee, Ilyani Abdullah, Nazanin Vafaei

Neutrosophic Sets and Systems

No abstract provided.

Windblown Transport Of Toxic Metals In Airborne Particulate Matter Near The Jackpile-Paguate Uranium Mine On Laguna Pueblo, New Mexico, Savannah S. Larosa-Lopresti

Earth and Planetary Sciences ETDs

Abandoned uranium mines across the U.S. disproportionately affect indigenous communities who suffer numerous intergenerational health consequences from chronic exposure to toxic metal mixtures. The Jackpile-Paguate Uranium Mine on Laguna Pueblo in west-central New Mexico was designated a Superfund Site in 2013 and exposure risks from inhalation of toxic metals in airborne particulate matter are of concern for the local tribal communities. This research aims to examine atmospheric parameters driving windblown transport of respirable particulate matter in the region, to determine concentrations of heavy metals including U, V, Pb, and As due to the link with potential health risks, and to …

Genomes For Kids: The Scope Of Pathogenic Mutations In Pediatric Cancer Revealed By Comprehensive Dna And Rna Sequencing, Scott Newman, Joy Nakitandwe, Chimene A Kesserwan, Elizabeth M Azzato, David A Wheeler, Michael Rusch, Sheila Shurtleff, Dale J Hedges, Kayla V Hamilton, Scott G Foy, Michael N Edmonson, Andrew Thrasher, Armita Bahrami, Brent A Orr, Jeffery M Klco, Jiali Gu, Lynn W Harrison, Lu Wang, Michael R Clay, Annastasia Ouma, Antonina Silkov, Yanling Liu, Zhaojie Zhang, Yu Liu, Samuel W Brady, Xin Zhou, Ti-Cheng Chang, Manjusha Pande, Eric Davis, Jared Becksfort, Aman Patel, Mark R Wilkinson, Delaram Rahbarinia, Manish Kubal, Jamie L Maciaszek, Victor Pastor, Jay Knight, Alexander M Gout, Jian Wang, Zhaohui Gu, Charles G Mullighan, Rose B Mcgee, Emily A Quinn, Regina Nuccio, Roya Mostafavi, Elsie L Gerhardt, Leslie M Taylor, Jessica M Valdez, Stacy J Hines-Dowell, Alberto S Pappo, Giles Robinson, Liza-Marie Johnson, Ching-Hon Pui, David W Ellison, James R Downing, Jinghui Zhang, Kim E Nichols

Pediatrics Research and Scholarship

Genomic studies of pediatric cancer have primarily focused on specific tumor types or high-risk disease. Here, we used a three-platform sequencing approach, including whole-genome sequencing (WGS), whole-exome sequencing (WES), and RNA sequencing (RNA-seq), to examine tumor and germline genomes from 309 prospectively identified children with newly diagnosed (85%) or relapsed/refractory (15%) cancers, unselected for tumor type. Eighty-six percent of patients harbored diagnostic (53%), prognostic (57%), therapeutically relevant (25%), and/or cancer-predisposing (18%) variants. Inclusion of WGS enabled detection of activating gene fusions and enhancer hijacks (36% and 8% of tumors, respectively), small intragenic deletions (15% of tumors), and mutational signatures revealing …

An Investigation Of Phosphorus Removal By Purple Bacteria In Dairy Wastewater Lagoons, Lauren M. Gomez, Andrew J. Schuler, Jose M. Cerrto, David T. Hanson

Civil Engineering ETDs

The objective of this study was to determine whether the polyphosphate metabolism in purple photosynthetic bacteria (PPB) is similar to that of wastewater polyphosphate-accumulating organisms (PAOs) such as Accumulibacter. Dairy lagoon samples were studied in continuous and batch laboratory tests to evaluate whether cyclic light and dark conditions for PPB are similar to aerobic and anaerobic conditions for PAOs in domestic wastewater treatment systems. 16s rRNA gene amplicon sequencing indicated the presence of the purple sulfur bacterium Thiolamprovum (53.92%) in one lagoon source, and Thiodictyon (3.50%) in a second lagoon. Phosphorus contents were at least 0.7% higher than the …

Glomerular Disease In Temporal Association With Sars-Cov-2 Vaccination: A Series Of 29 Cases, Tiffany N. Caza, Clarissa A. Cassol, Nidia Messias, Andrew Hannoudi, Randy S. Haun, Patrick D. Walker, Rebecca M. May, Regan M. Seipp, Elizabeth J. Betchick, Hassan Amin, Mandolin S. Ziadie, Michael Haderlie, Joy Eduwu-Okwuwa, Irina Vancea, Melvin Seek, Essam B. Elashi, Ganesh Shenoy, Sayeed Khalillullah, Jesse A. Flaxenburg, John Brandt, Matthew J. Diamond, Adam Frome, Eugene H. Kim, Gregory Schlessinger, Erlandas Ulozas, Janice L. Weatherspoon, Ethan Thomas Hoerschgen, Steven L. Fabian, Sung Yong Bae, Bilal Iqbal, Kanwalijit K. Chouhan, Zeina Karam, James T. Henry, Christopher P. Larsen

Pediatrics Research and Scholarship

Background: Immune responses to vaccination are a known trigger for a new onset of glomerular disease or disease flare in susceptible individuals. Mass immunization against SARS-CoV-2 in the COVID-19 pandemic provides a unique opportunity to study vaccination-associated autoimmune kidney diseases. In the recent literature, there are several patient reports demonstrating a temporal association of SARS-CoV-2 immunization and kidney diseases.

Methods: Here, we present a series of 29 cases of biopsy-proven glomerular disease in patients recently vaccinated against SARS-CoV-2 and identified patients who developed a new onset of IgA nephropathy, minimal change disease, membranous nephropathy, ANCA-associated GN, collapsing glomerulopathy, or diffuse …

Egfr Transactivates Ron To Drive Oncogenic Crosstalk, Carolina Franco Nitta, Ellen W. Green, Elton D. Jhamba, Justine M. Keth, Iraís Ortiz-Caraveo, Rachel M. Grattan, David J. Schodt, Aubrey C. Gibson, Ashwani Rajput, Keith A. Lidke, Bridget S. Wilson, Mara P. Steinkamp, Diane S. Lidke

Pathology Research and Scholarship

Crosstalk between different receptor tyrosine kinases (RTKs) is thought to drive oncogenic signaling and allow therapeutic escape. EGFR and RON are two such RTKs from different subfamilies, which engage in crosstalk through unknown mechanisms. We combined high-resolution imaging with biochemical and mutational studies to ask how EGFR and RON communicate. EGF stimulation promotes EGFR-dependent phosphorylation of RON, but ligand stimulation of RON does not trigger EGFR phosphorylation - arguing that crosstalk is unidirectional. Nanoscale imaging reveals association of EGFR and RON in common plasma membrane microdomains. Two-color single particle tracking captured formation of complexes between RON and EGF-bound EGFR. Our …

Nuanced Networks: How Social Relationships And Power Influence Participation In Private Lands Conservation Programs, Ellen Loechner

Geography ETDs

Because the majority of land in the Midwestern United States is privately owned, the responsibility for creating and maintaining space for wildlife conservation falls upon private landowners. Numerous state and federal agencies and non-governmental organizations (NGOs) host private lands conservation programs that offer landowners financial and technical support to complete conservation projects on their property (Echols, Front, and Cummins 2019). While the individual motivations and priorities of a landowner may inform how they use and manage their property, a landowner’s ability to connect with the agricultural and conservation communities may determine if they have the opportunity to participate in these …

Microrna Analysis Of Human Stroke Brain Tissue Resected During Decompressive Craniectomy/Stroke-Ectomy Surgery, Andrew P. Carlson, William Mckay, Jeremy S. Edwards, Radha Swaminathan, Karen S. Santacruz, Ron L. Mims, Howard Yonas, Tamara Roitbak

Pathology Research and Scholarship

BACKGROUND: Signaling pathways mediated by microRNAs (miRNAs) have been identified as one of the mechanisms that regulate stroke progression and recovery. Recent investigations using stroke patient blood and cerebrospinal fluid (CSF) demonstrated disease-specific alterations in miRNA expression. In this study, for the first time, we investigated miRNA expression signatures in freshly removed human stroke brain tissue.

METHODS: Human brain samples were obtained during craniectomy and brain tissue resection in severe stroke patients with life-threatening brain swelling. The tissue samples were subjected to histopathological and immunofluorescence microscopy evaluation, next generation miRNA sequencing (NGS), and bioinformatic analysis.

RESULTS: miRNA NGS analysis detected …

Interferometric Lithography- An Approach To Large Area And Cost Effective Nanopatterning, Vineeth Sasidharan

Optical Science and Engineering ETDs

In this dissertation interferometric lithography is approached in two different ways to address two important constraints of nanopatterning. One approach solves the problem of scaling up interferometric lithography to wafer scale (4 inch or larger) area. Through the second approach we have developed a nanopatterning technique based on interferometric lithography by using an inexpensive (~$100) diode laser as source, making interferometric lithography a very cost-effective technique.

Wafer-scale large-area nanopatterning was developed using an amplitude grating mask as a grating beam splitter along with spatial averaging of laser intensity by wobbling. The longitudinal and transverse coherence issues both are eased by …

Bioengineered Models To Study Microenvironmental Regulation Of Glioblastoma Metabolism, Joseph Chen, Hyunchul Lee, Philipp Schmitt, Caleb J. Choy, Donald M. Miller, Brian J. Williams, Elaine L. Bearer, Hermann B. Frieboes

Pathology Research and Scholarship

Despite extensive research and aggressive therapies, glioblastoma (GBM) remains a central nervous system malignancy with poor prognosis. The varied histopathology of GBM suggests a landscape of differing microenvironments and clonal expansions, which may influence metabolism, driving tumor progression. Indeed, GBM metabolic plasticity in response to differing nutrient supply within these microenvironments has emerged as a key driver of aggressiveness. Additionally, emergent biophysical and biochemical interactions in the tumor microenvironment (TME) are offering new perspectives on GBM metabolism. Perivascular and hypoxic niches exert crucial roles in tumor maintenance and progression, facilitating metabolic relationships between stromal and tumor cells. Alterations in extracellular …

Relief And Reward Drinking Across Time In Community And Treatment-Seeking Samples, Julia E. Swan

Psychology ETDs

Classifying people with alcohol use disorder into homogenous groups based on observed characteristics (i.e., phenotypes) could match individuals to specific treatments. The reward-relief phenotype classifies individuals based on whether they drink to enhance rewarding experiences and/or to relieve negative states. The current study is a secondary data analysis of a community sample of non-treatment seeking heavy drinkers (n = 189) and two randomized clinical trial samples of individuals with alcohol use disorder (n = 1726, 1383) that aimed to determine if the reward-relief phenotype is identified across samples, is stable over time, and predicts long-term alcohol consumption and consequences. We …

Comparative Phylogeography Across Multiple Scales: Small Mammals, Their Ecology, Pathogens, And Drivers Of Diversification, Schuyler W. Liphardt

Biology ETDs

Comparative phylogeography has historically been defined as the study of how genetic variation of co-distributed species has been shaped by biogeographical history. This is a mature field of study out of which several techniques have been developed directed at identifying the role ecology and geography in diversification patterns across time. I employ the tools developed in classical comparative phylogeography across multiple taxonomic scales and across regions that historically have been understudied. My first two chapters study the complex history of host-switching, codiversification, and reassortment of hantaviruses in their mammal hosts across North America. By taking a host-centric comparative phylogeographic approach …

Intersectionality, Relational Positionality, And The Lived Experiences Of Inequality: Contextualizing Intergenerational Opioid Use And The Constrained Choices Of Indigenous, Latina, And White Women Caregivers In Rural New Mexico, Carmela M. Roybal

Sociology ETDs

Opioid addiction is a serious and persistent global health issue. The federal Centers for Disease Control and Prevention (CDC) reported that between 1999 and 2016, more than 630,000 people in the United States died of an overdose of a prescription opioid or illicit drug (CDC 2018). Extant research has suggested that for nearly a century, New Mexico has experienced some of the highest rates of prescription and illicit opioid death in the nation (Goldstein and Herrera, 1995; Landon, 2003; Shah et al., 2008). I examined intergenerational opioid dependence through the lived experience of women caregivers of opioid-addicted family members. Data …

Three Essays In Development And Environmental Economics, Michael Benjamin Goodwin

Economics ETDs

This dissertation explores three unique topics in development and environmental economics. The first paper looks at the value people place on clean air in Mexico City using an alternative air pollution measure to the typical ground measurement. Research and policy addressing air pollution remains hampered by a lack of ground level air quality data. This study attempts to overcome this issue using aerosol optical depth from satellite imagery as a proxy for air pollution. Using a hedonic framework and least squares estimation, results show that Mexico City residents place a significant value on clean air as demonstrated by their choices …

Quantification Of Soil Microbial Biomass In The Mcmurdo Dry Valleys, Antarctica, Emily Ruth Reynebeau

Biology ETDs

Quantifying microbial biomass is important for understanding microbial contribution to nutrient cycling and population flux. Widely accepted biomass estimation methods are sufficient for well-studied and high biomass systems, though are often not sensitive enough for systems with extremely low biomass. The McMurdo Dry Valleys of Antarctica are characterized as an extremely harsh environment with severe restrictions on life, with perhaps some of the lowest biomass in the world. We measured prokaryote biomass across Taylor and Wright Valleys using four estimation metrics to determine the most appropriate method for this ecosystem. The chloroform fumigation method was not sensitive enough for the …

Breathing Can Be Dangerous: Coccidioides And The Diverse Community Of The Lung Mycobiome, Paris S. Salazar-Hamm

Biology ETDs

Coccidioidomycosis, caused by soil-dwelling species of Coccidioides, is endemic to the Southwestern United States. It can present as a mild respiratory illness to life-threatening disseminated infections.Multi-gene phylogenetics and tracing patient histories revealed the presence of both Coccidioides species in New Mexico, and Native Americans may represent an unrecognized risk group. A PCR method developed distinguishes Coccidioides species by targeting regions of the mitochondrial genome. Recent advancements in molecular genetics solidifies lungs are not sterile. Illumina community data from 199 small mammals from Arizona, California, and New Mexico demonstrated a great diversity of fungi inhabiting lung tissues. One dominant order, Onygenales, …

The Reward Positivity In Individuals With Alcohol Use Disorder, Garima Singh

Psychology ETDs

The Reward Positivity (RewP) is a positive deflection in the EEG after receiving a reward. Recent evidence suggests that the RewP is modulated by both reward probability aside from affective liking. Here we examined the sensitivity of the RewP to affective and alcohol images in individuals with alcohol use disorder (AUD). We recruited 55 participants (AUD =28, Control= 27). Participants completed an image rating task and a reinforcement learning task with picture feedback (puppy or alcohol images over a green or red screen). Although there was no between group differences in puppy image ratings, there was a significant group difference …

Improving Peer Review Of Systematic Reviews By Involving Librarians And Information Specialists: Protocol For A Randomized Controlled Trial, Melissa L. Rethlefsen, Sara Schroter, Lex M. Bouter, David Moher, Ana Patricia Ayala, Jamie J. Kirkham, Maurice P. Zeegers

Publications

BACKGROUND: Problems continue to exist with the reporting quality and risk of bias in search methods and strategies in systematic reviews and related review types. Peer reviewers who are not familiar with what is required to transparently and fully report a search may not be prepared to review the search components of systematic reviews, nor may they know what is likely to introduce bias into a search. Librarians and information specialists, who have expertise in searching, may offer specialized knowledge that would help improve systematic review search reporting and lessen risk of bias, but they are underutilized as methodological peer …

Explorations And Developments In Multifunctionality, 3d Printing, And Accelerated Aging For Thermoplastics And Thermosets, Zachary Brounstein

Nanoscience and Microsystems ETDs

If the world is to progress through the fourth industrial revolution, rapid advances in materials science must complement new technological feats in manufacturing, computation and device functionality, and a broader understanding of how materials behave as they age and degrade. To this effect, much effort has been directed towards polymeric materials to address and solve many problems in this new era. This includes developing polymer composites that incorporate fillers to imbue multifunctionality, fabricating novel formulations for additive manufacturing, and conducting aging studies to assess the performance of these materials over long time spans. Building and expanding on the latest research …

Tracing Transmission Of Sin Nombre Virus And Discovery Of Infection In Multiple Rodent Species, Samuel M Goodfellow, Robert A. Nofchissey, Kurt C. Schwalm, Joseph A. Cook, Jonathan L. Dunnum, Yan Guo, Chunyan Ye, Gregory J. Mertz, Kartik Chandran, Michelle Harkins, Daryl B. Domman, Darrell L. Dinwiddie, Steven B. Bradfute

Pediatrics Research and Scholarship

Sin Nombre orthohantavirus (SNV), a negative-sense, single-stranded RNA virus that is carried and transmitted by the North American deer mouse Peromyscus maniculatus, can cause infection in humans through inhalation of aerosolized excreta from infected rodents. This infection can lead to hantavirus cardiopulmonary syndrome (HCPS), which has an ∼36% case-fatality rate. We used reverse transcriptase quantitative PCR (RT-qPCR) to confirm SNV infection in a patient and identified SNV in lung tissues in wild-caught rodents from potential sites of exposure. Using viral whole-genome sequencing (WGS), we identified the likely site of transmission and discovered SNV in multiple rodent species not previously known …

Left-Handed Dna: The Right Way Forward, Tracy Mallette

Shared Knowledge Conference

Rapid detection of emerging pathogens, environmental monitoring of waterways, and cancer treatments that operate on a cell by cell basis are all technological advances which could be achieved with DNA-based molecular computers. DNA encodes the building blocks of life and researchers have already shown that it can be used as a powerful tool for us to build nanoscale devices that can interact with the molecular world. However, DNA-based molecular devices are susceptible to degradation by natural defense mechanisms called nucleases. This makes operating in the desired biological settings challenging and has thus limited their practical application. My NSF-funded research in …

Olfactory Detection Of Viruses Shapes Brain Immunity And Behavior, Aurora Kraus

Shared Knowledge Conference

Olfactory sensory neurons (OSNs) directly contact the environment and are exposed to pathogens, such as viruses. When OSNs detect a virus, they coordinate antiviral immune responses locally to stop virus progression into the brain, termed the central nervous system (CNS). For example, in COVID-19 patients the SARS-CoV-2 virus replicates in the olfactory epithelium resulting in loss of olfaction, yet viral detection in the CNS is rare. However, neuronal detection of a virus by OSNs will send electrical signals to the CNS via the olfactory bulb (OB) and shape our CNS. Because the OB is the nexus between the pathogen exposed …

Evaluation Of Thermal Infrared Imaging From Uninhabited Aerial Vehicles For Arboreal Wildlife Surveillance, Blair Mirka

Shared Knowledge Conference

An important component of wildlife management and conservation is monitoring the health and population size of wildlife species. Monitoring the population size of an animal group can inform researchers of habitat use, potential changes in habitat and the resulting behavioral adaptation, individual health, and the effectiveness of conservation efforts. Arboreal primates are difficult to monitor as their habitat is often poorly accessible and most primate species have some degree of camouflage, making them hard to observe in and below the tree canopy. Surveys conducted using uninhabited aerial vehicles (UAVs) equipped with thermal infrared (TIR) cameras can help overcome these limitations …

Land, Society, And Justice: Reframing Geoscience Education Through A Storied Anti-Colonial And Environmental Justice Lens, Cameron Reed

Shared Knowledge Conference

Geoscience has been paramount to the transformation and advancement of society, fundamentally changing the way we view, interact, and live with the surrounding natural and built environment. It is important to recognize the value and importance of this interdisciplinary scientific field while reconciling its ties to imperial and colonizing extractive systems which have led to harmful and invasive endeavors. To prevent future injustices and resolve inequalities in colonized communities, the future of geosciences must be pushed in a new direction and be framed through a decolonial, and anti-colonial, lens where possible. Additionally, geology and its tangential studies in geosciences must …

The Documentation And Grammatical Description Of Sanapaná (Enlhet-Enenlhet, Paraguay), Jens Van Gysel

Shared Knowledge Conference

The Sanapaná language is spoken by around 1000 people in the Paraguayan Chaco region (Crevels 2012). Only about a third of the members of the ethnic Sanapaná group still speak the language, and in five of the seven Sanapaná communities, children now learn Spanish or Paraguayan Guaraní as their native language. This makes Sanapaná one of the many languages that are in danger of disappearing. Documenting such endangered languages is of vital importance to preserving the world's cultural and intellectual diversity, as well as a representative sample of human linguistic behaviours and their social functions. Language endangerment has also been …

Highly Durable Doped Barium Niobate Perovskite Electrodes For Electrochemical Oxidative Coupling Of Methane, Luke Denoyer

Shared Knowledge Conference

Highly Durable Doped Barium Niobate Perovskite Electrodes for Electrochemical Oxidative Coupling of Methane Luke H. Denoyer1,2, Kyle J Troche Angelica Benavidez1, Fernando H. Garzon*,1,2, Kannan P. Ramaiyan*,1,2 1 Primary Affiliation: University of New Mexico Contact: [email protected] 2 CISTAR/NSF Abstract Recently discovered large, and unused shale gas reserves provide an inexpensive methane source which is unfortunately difficult to transport in an economically viable manner. Hence, the on-site conversion of methane to ethylene for better utilization of the trapped methane gas is highly intriguing. Our studies here focus on the electrochemical oxidative coupling of methane (EC-OCM), which aims to convert methane using …