Digital Commons Network^™

The Dual Nature Of Weedy Rice (Oryza Sativa F. Spontanea): From A Noxious Weed To An Important Genetic Resource For Rice Improvement, Rica M. Rentino, Vanessa Sernicula, May O. Palanog, Roselyn G. Alfetche, Dan Michael A. Angay, Francis L. Tejada, Dexter G. Balboa, Shaireen M. Angay, Fatima-Nasra A. Sahadain, Teodora E. Mananghaya, Karl Vincent J. Jose, Liezel C. Llanes, Jonathan M. Niones, Karla Mae R. Nonog, Frodie F. Waing, Leonilo Gramaje, Albert Christian S. Suner, Ommal H. Abdulkadi, Norvie L. Manigbas, Jose E. Hernandez, Alvin D. Palanog

The Philippine Agricultural Scientist

Weedy rice (Oryza sativa f. spontanea) is becoming a serious threat to rice production in the Philippines, especially in direct-seeding rice areas, owing to its high competitiveness and its similarity to cultivated rice in morphology and ecological requirements. However, weedy rice can be considered both a threat that endangers rice production and an opportunity, as it offers a potential source of novel genes for rice improvement. This study evaluated the extent of weedy rice infestation in direct-seeding areas in the Visayas, measured the phenotypic and genotypic diversity of collected weedy rice ecotypes using simple sequence repeat (SSR) markers, and …

Improvement Of Forage Productivity By Intercropping Pakchong 1 And Napier Grass With Mungbean And Soybean In Los Baños, Laguna, Philippines, Paul Joshua C. Marquez, Eureka Teresa M. Ocampo, Menandro M. Loresco, Lourdes S. Edano Ma, Agapita J. Salces

The Philippine Agricultural Scientist

Forage demand is rising in the Philippines, and to sustainably boost agronomic performance, the beneficial impact of intercropping was investigated. This study characterized the performance of high-yielding forages, namely Napier grass (NG) and Pakchong 1 (PK), when intercropped with soybean (SB) and mungbean (MB) under rain-fed conditions in Los Banos, Laguna. The experiment was conducted in a repeated-measures RCBD replicated 3 times with grass species and cropping system as main factors, resulting in the following treatment combinations: Sole NG, Sole PK, NGSB, NGMB, PKSB, and PKMB. Grasses were ratooned, legumes were harvested, and legume seeds were re-sown every 45 to …

Integrative Effects Of Mycorrhizal Fungi, Azotobacter, And Azospirillum With Different Nitrogen Levels On Morphophysiological Responses And Drought Tolerance Of Maize (Zea Mays L.) ‘Sc706’ Under Varying Water Deficit Conditions, Nozar Shamohammadi, Mahdi Zare, Korosh Ordookhani, Farshid Aref, Shahram Sharafzadeh

The Philippine Agricultural Scientist

Under drought stress, soil fertility declines sharply, restricting nutrient availability and reducing plant productivity. This study evaluated the effects of mycorrhiza, Azotobacter, and Azospirillum combined with nitrogen on the morpho-physiological traits of maize (Zea mays L.) hybrid SC706 plants under different water deficit conditions. The experiment was conducted at a research field in Fars Province, Iran, over 2 consecutive years (2017–2018, 2018–2019) and applied a split-split plot design based on a Randomized Complete Block Design (RCBD) with 3 replicates. It assessed the effects of the 3 biological fertilizers in 4 treatment groups (Control [B1], inoculation with mycorrhiza alone …

Characterization Of Syntaxin 18 In Peregrinus Maidis And In Vitro Dsrna Synthesis For Potential Rnai-Mediated Control Of Maize Mosaic Alphanucleorhabdovirus (Mmv) Transmission, Hannah Corinne T. Cantaros, Charlene Niebres, Ruth Alessandra Banasihan, Argel L. Arenas, Karen B. Alviar

The Philippine Agricultural Scientist

The plant virus known as Maize mosaic alphanucleorhabdovirus (MMV) is a persistent, propagative pathogen transmitted by the corn planthopper Peregrinus maidis Ashmead (Hemiptera: Delphacidae). It is the causal agent for a mosaic disease that can cause significant loss in corn yield. Currently, disease management is focused on controlling its insect vector population. The molecular mechanisms of virus transmission by the insect vector are not yet fully understood. Previously, P. maidis syntaxin 18 (PmSTX18) was identified as a receptor for MMV. PmSTX18 interacts with the viral glycoprotein and potentially facilitates MMV recognition and entry into the vector, enabling virus …

Beta-Casomorphin7 Detection In Milk From Dairy Species And Beta-Casein Protein Characterization In Cattle From Selected Provinces In The Philippines, Angelo M. Tapia, Maria Cynthia R. Oliveros, Queennie Hope D. Umipon, Hazel Marie E. Nicolas, Naoya Ogawa, Yasuyuki Kitaura

The Philippine Agricultural Scientist

This study was conducted to detect β-casomorphin7 (BCM7) in dairy animals and to characterize the β-casein (CSN2) genotype among dairy cattle breeds in the Philippines. A total of 59 dairy animals, composed of 35 cattle (12 Holstein Sahiwal [HS16 Jersey × Holstein Friesian [JHF], and 7 Siquijor Native Cattle [SNC]), 15 buffaloes (Bulgarian Murrah and Brazilian Murrah), and 9 goats (Saanen and Anglo-Nubian) were collected with milk samples. Milk protein was extracted and subjected to high-performance liquid chromatography–tandem mass spectrometry (HPLC–MS/MS) analysis after stimulated gastrointestinal digestion. BCM7 was detected in cattle with an average concentration of 0.322 + 0.080, whereas …

Improvement Of Forage Productivity By Intercropping Pakchong 1 And Napier Grass With Mungbean And Soybean In Los Baños, Laguna, Philippines, Paul Joshua C. Marquez, Eureka Teresa M. Ocampo, Menandro M. Loresco, Ma Lourdes S. Edano, Agapita J. Salces

The Philippine Agricultural Scientist

Forage demand is rising in the Philippines, and to sustainably boost agronomic performance, the beneficial impact of intercropping was investigated. This study characterized the performance of high-yielding forages, namely Napier grass (NG) and Pakchong 1 (PK), when intercropped with soybean (SB) and mungbean (MB) under rain-fed conditions in Los Banos, Laguna. The experiment was conducted in a repeated-measures RCBD replicated 3 times with grass species and cropping system as main factors, resulting in the following treatment combinations: Sole NG, Sole PK, NGSB, NGMB, PKSB, and PKMB. Grasses were ratooned, legumes were harvested, and legume seeds were re-sown every 45 to …

Carotenoid Profiles Of Momordica Cochinchinensis (Lour.) Spreng. Aril And Leaves As Potential Dietary Caroteniod Sources [Research Note], Francis A. Aguilar, Antonio C. Laurena, Nerrisa K. Torreta, Vida Faith R. Galvez, Evelyn B. Rodriguez, Lourdes B. Cardenas

The Philippine Agricultural Scientist

Momordica cochinchinensis (Lour.) Spreng. or sweet gourd is a perennial, dioecious vine known to possess remarkable carotenogenic capacity. To explore its potential as a dietary carotenoid source, this study evaluated the carotenoids of aril from ripe fruits and of leaves of an accession from Laoag, Ilocos Norte, Philippines, through open-column chromatography. Data reveal that the optimal fruit ripeness for aril carotenoid quantification, determined by fruit skin redness (CIELAB a* value), was achieved 6 to 7 wk after pollination, at which time the aril was found to contain lycopene at 1,260.64 ± 56.17 μg g⁻¹ fresh weight (FW) and β-carotene …

Beta-Casomorphin7 Detection In Milk From Dairy Species And Beta-Casein Protein Characterization In Cattle From Selected Provinces In The Philippines, Angelo M. Tapia, Cynthia R. Oliveros Maria, Queennie Hope D. Umipon, Hazel Marie E. Nicolas, Naoya Ogawa, Yasuyuki Kitaura

The Philippine Agricultural Scientist

This study was conducted to detect β-casomorphin7 (BCM7) in dairy animals and to characterize the β-casein (CSN2) genotype among dairy cattle breeds in the Philippines. A total of 59 dairy animals, composed of 35 cattle (12 Holstein Sahiwal [HS16 Jersey × Holstein Friesian [JHF], and 7 Siquijor Native Cattle [SNC]), 15 buffaloes (Bulgarian Murrah and Brazilian Murrah), and 9 goats (Saanen and Anglo-Nubian) were collected with milk samples. Milk protein was extracted and subjected to high-performance liquid chromatography–tandem mass spectrometry (HPLC–MS/MS) analysis after stimulated gastrointestinal digestion. BCM7 was detected in cattle with an average concentration of 0.322 + 0.080, whereas …

Characterization And Response To Exercise Training Of Hdl-Specific Phospholipid Efflux, Eric C. Leszcynski, Charles S. Schwartz, Kiani J.C. Jacobs, Prasun L. Dev, Sujoy Ghosh, Jeremy M. Robbins, Robert E. Gerszten, Anand Rohatgi, Timothy S. Collier, Robert J. Konard, Masaki Sato, Rafael Zubirán, Claude Bouchard, Edward B. Neufeld, Alan T. Remaley, Mark A. Sarzynski Facsm

Faculty Publications

The HDL-specific phospholipid efflux (HDL-SPE) assay is a novel cell-free measure of HDL function that is inversely associated with coronary artery disease. However, the effect of exercise training on HDL-SPE is unknown. The purpose of this study was to examine the effect of exercise training on HDL-SPE in a large, diverse cohort free of overt disease. Clinical and functional measures of HDL were taken before and after 20 weeks of endurance exercise training in 508 participants from the HERITAGE Family Study. Associations of HDL-SPE with HDL-related traits were examined using Pearson's correlations at baseline and following exercise training (significance: P …

Unpacking Drivers Of Heterotrophic N2 Fixation Across Aquatic Redox Gradients: A Mathematical Model With Bioenergetic And Stoichiometric Constraints, Corday R. Selden, Rebecca A. Everett, Halvor M. Halvorson, Megan Berberich, Luca Schenone, Angela Peace, Renn Schipper, Edwin Cruz-Rivera, James Powell, Keisuke Inomura, Robinson W. Fulweiler, Amy Marcarelli, J. Thad Scott

Michigan Tech Publications

N2 fixation by aquatic organoheterotrophs supplies bioavailable nitrogen to the biosphere and thereby supports ecosystem production; yet the factors which drive this activity are poorly understood. Here, we present a generalized chemostat model to investigate stoichiometric and energetic constraints on free-living heterotrophic diazotrophs across gradients in redox state, resource quantity/quality, and resource stoichiometry. The model couples nutrient uptake and allocation functions to predict elemental fluxes with an energy dissipation model to calculate growth efficiency. After constraining model parameters with relevant culturing (e.g., Azotobacter) and environmental literature, we assessed model sensitivity to these parameters using Latin Hypercube Sampling and the statistical …

The Dual Nature Of Weedy Rice (Oryza Sativa F. Spontanea): From A Noxious Weed To An Important Genetic Resource For Rice Improvement, Rica M. Rentino, Vanessa Sernicula, May O. Palanog, Roselyn G. Alfetche, Dan Michael A. Angay, Francis L. Tejada, Dexter G. Balboa, Shaireen M. Angay, Fatima-Nasra A. Sahadain, Teodora E. Mananghaya, Karl Vincent J. Jose, Liezel C. Llanes, Jonathan M. Niones, Karla Mae R. Nonog, Frodie F. Waing, Leolilo Gramaje, Albert Christian S. Suner, Ommal H. Abdulkadi, Norvie L. Manigbas, Jose E. Hernandez, Alvin D. Palanog

The Philippine Agricultural Scientist

Weedy rice (Oryza sativa f. spontanea) is becoming a serious threat to rice production in the Philippines, especially in direct-seeding rice areas, owing to its high competitiveness and its similarity to cultivated rice in morphology and ecological requirements. However, weedy rice can be considered both a threat that endangers rice production and an opportunity, as it offers a potential source of novel genes for rice improvement. This study evaluated the extent of weedy rice infestation in direct-seeding areas in the Visayas, measured the phenotypic and genotypic diversity of collected weedy rice ecotypes using simple sequence repeat (SSR) markers, and …

Signatures Of The Anthropocene: Population Genomic Structure Detected In Pennsylvania Coyotes, Craig A. Marshall, Julia Halo, Kyle Van Why, Yeraldi Loera, Stavi R. Tennenbaum, Casey Burton, Ariana Di Landro, Dominic Dominguez, Daniel Duncan, Madison Machado, Catalina Posada, Stephen J. Gaughran, Madison Lichak, Kristin Brzeski, Elizabeth Heppenheimer, Bridgett Vonholdt

Michigan Tech Publications

Coyotes (Canis latrans) expanded across eastern North America in the last century and are ecological generalists capable of thriving across diverse habitats. Broad genetic surveillance has reported little spatial genetic patterning for this highly dispersive species. Here, we explore the genome-wide signatures of spatial patterns found in a 10-year study of 1199 coyotes from northeastern United States, with a temporal analysis of Pennsylvania coyotes. Despite their broad dispersal capability, we detected subtle but significant population structure, with two genetic clusters that have a weak clinal transition zone. This partitioning aligned qualitatively with patterns of human population density and activity. We …

Spatial Variability Of Nitrates And Nitrogen Mineralization Kinetics And Their Effects In Long-Term Tillage Systems, Bibash Rokaya

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Nitrogen (N) and water management are essential for water quality protection and crop production. However, soil N and water are spatiotemporally variable. Soil water spatial dependencies are described in the literature with known associations with preferential flows among other factors. In contrast, a knowledge gap exists on the spatial dependence of soil N mineralization kinetics. We hypothesize that soil N mineralization kinetics and soil water have distinct and cross-correlated spatial characteristics among soil management practices and climatic regions. For the field study, we measured soil-N mineralization kinetics, volumetric water content (VWC), and a suite of soil properties along ~70 m …

Evaluation Of Publicly Available Maize Germplasm Adaptation To Environments In Nebraska, Garrett Snodgrass

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Publicly available maize germplasm represents an important resource for breeding programs seeking to expand genetic diversity and improve hybrid performance. However, effective use requires characterization of per se phenotypic performance of parental lines and evaluation of the parental line’s hybrid progeny adaptation to a given target population of environments. Furthermore, understanding population structure and heterotic grouping is imperative for maximizing efficiency of breeding decisions. The objectives of this study were to (1) evaluate phenotypic performance of parental lines and hybrids across environments in Nebraska, and to (2) refine heterotic group classification of parental lines within the University of Nebraska-Lincoln’s Hybrid …

Widespread Decline In The Abundance Of Sea Cucumber Assemblages In Atolls Of The Protected Rowley Shoals, Northwestern Australia, Inês Leal, Claire L. Ross, Simone Strydom, Richard D. Evans, Thomas H. Holmes, Graham J. Edgar, John K. Keesing

Research outputs 2022 to 2026

The Rowley Shoals, off northwestern Australia, are renowned as a biodiversity hotspot. This remote system comprises three atolls, Clerke, Imperieuse and Mermaid, which in recent years have been increasingly targeted by illegal fishing, a pressure rising across the Indo-Pacific. The objective of this study was to quantify recent changes in sea cucumber assemblages across the Rowley Shoals. We surveyed nine sea cucumber species at monitoring sites in 2018 and 2023 to assess changes in their abundance. Total assemblage densities declined significantly across all atolls and habitats. Documented seizures of illegally harvested holothurians by the Australian Fisheries Management Authority over this …

Comparing Methods For Measuring 210po In Seawater: Fe(Oh)3 Can Extract Less 210po Than Co-Apdc And Thus Overestimate Poc Export Fluxes, Harold Carrasco, J. Kirk Cochran, Beat Gasser, Inés Sanz-Alvarez, Montserrat Roca-Martí, Christina Heilbrun, Nicholas S. Fisher, Jana Friedrich, Pere Masqué

Research outputs 2022 to 2026

Over six decades of research, two methods have been used to extract the natural radionuclides ²¹⁰Pb and ²¹⁰Po from seawater- the precipitation of iron hydroxide (Fe(OH)3) and coagulation of cobalt ammonium pyrrolidine dithiocarbamate (Co-APDC). Although the two methods had been intercompared for ²¹⁰Pb and shown to agree, they were never intercompared for ²¹⁰Po until Roca-Martí et al. (2021) , in which only unfiltered samples were used. Here we document that Fe(OH)3 may be less effective in extracting ²¹⁰Po from a seawater sample than Co-APDC. We hypothesize that cycling of ²¹⁰Po through the marine food …

Ferroptosis As A Pathological Driver In Niemann-Pick Disease Type C, Kayla Linda Sanchez

Loma Linda University Electronic Theses, Dissertations & Projects

Niemann–Pick Disease Type C (NPC) is a hereditary neurodegenerative disease characterized by selective cell vulnerability, particularly affecting cerebellar anterior Purkinje neurons. These neurons exhibit a distinctive pattern of degeneration due to the loss of NPC1 and/or NPC2 protein function, progressively extending towards posterior cerebellar regions. Historically, research has described NPC as a disorder of intracellular cholesterol handling; however, cholesterol-lowering therapies have not effectively prevented neurological deterioration, and the mechanisms underlying selective neuronal vulnerability remain unclear. Ferroptosis, previously referred to as oxytosis, is a regulated form of cell death driver by iron-induced lipid peroxidation. It has been implicated in several neurodegenerative …

The Modern Sisyphus Blows Leaves: Attitudes And Impacts Regarding Leaf Litter Removal On A Suburban Campus, A. C. Nony, M. R. Mcclung, M. L. Reid

Journal of the Arkansas Academy of Science

Leaf litter habitat disruption in suburban spaces stems from the prevalence of “lawn culture,” that is, the accepted societal norm that land immediately surrounding humans or meant for human recreational use should be clean, tidy, controlled, and aesthetically pleasing, above other considerations. When leaf litter on residential and recreational lawns is cleared, it removes vital habitat for organisms of several taxa, especially species that rely on litter as a moisture and temperature-controlled substrate for overwintering. We administered an opinion survey to students, staff, and faculty at Hendrix College, a highly residential and suburban campus in Conway, Arkansas, to assess views …

Dna Barcoding And Metabarcoding Reveal Labeling Accuracy And Species Substitution In Squid And Surimi From Los Angeles Markets, Demian A. Willette, Margarita L. Joaquin

Biology Faculty Works

Accurate species identification of seafood remains a persistent challenge in local and global marketplaces. This is particularly true for processed products that obscure diagnostic features. Here, we conduct a dual-molecular investigation into frozen squid and imitation crab products sold at American, Asian, and Hispanic grocery stores in Los Angeles, California, to assess label integrity under current U.S. Food & Drug Administration (FDA) guidance. Forty-eight squid samples from 13 retailers underwent DNA barcoding and yielded high percentage matches to 10 species across six genera. Despite broad labeling as ‘squid’, all samples matched FDA Acceptable Market Names with a 0 % mislabeling …

Situation Mouse All Floxed Up: Exploring Phenotypic Abnormalities In Bdnf Floxed Mice, Marissa A. Burkman

All NMU Master's Theses

Animal research is a contentious topic in both the scientific and general communities.  It is essential that our animal models accurately and predictably depict intended phenotypes, necessitating careful colony monitoring and maintenance.  Volunteer animal staff in the Ottem Laboratory became concerned when mice with LoxP sites flanking the BDNF gene depicted anxiety-like behaviors such as aggression, difficulty handling, and increased agitation.  Though many studies have noted behavioral and phenotypic abnormalities related to large gene inserts, few have noted abnormalities with small gene inserts such as the 34 bp LoxP site.  Brandt (2018) performed a three-stage behavioral protocol on these mice …

Demography And Dispersal Influence The Relationship Between Habitat Suitability And Population Density, Cleber Ten Caten, Tad Dallas

Faculty Publications

A central goal of ecology is to understand spatial patterns of species densities. Habitat suitability estimates from species distribution models (SDMs) could be used to represent species density and overcome the scarcity of density data. However, there is mixed evidence that habitat suitability is a reliable descriptor of density, and it is suggested that local dynamics affect the relationship between habitat suitability and density. We simulated population dynamics for 200 virtual species considering different combinations of factors (demographic stochasticity, dispersal, and intraspecific competition) that affect population sizes and SDMs were trained using different sets of environmental predictors to evaluate when …

Molecular Techniques: A Project-Based Undergraduate Laboratory, Ming-Mei Chang

Milne Open Textbooks

This book can be read online at: milnepublishing.geneseo.edu/molecular-techniques

Molecular biology, examining the structures and functions of nucleic acids and proteins, is crucial to advancing biological science and improving human life, particularly in agriculture and medicine. Advances in the field can transform a crop to resist disease or uncover clues to fight illness by manipulating DNA. Techniques for molecular biology research and applications have advanced rapidly over the past decades, and undergraduates need hands-on experiences in this vital field of science. This text provides a structured approach to learning and practicing those techniques, covering DNA, RNA, and protein across five modules …

The Role Of Top-Down Appetite Self-Regulation In The Development Of Healthy Eating Behaviors Among Children: A Narrative Review And Socialization Framework, David J Bridgett, Sheryl O Hughes, Matthew Broussard, Daniela Mccourt, Christina M Croce, Jennifer O Fisher

Children’s Nutrition Research Center Staff Publications

Appetite self-regulation (ASR) among children is thought to have a fundamental role in shaping the development of healthy eating behaviors, dietary intake, and growth during childhood. Parallel to developmental frameworks for understanding "general" self-regulation among children, ASR has been described as involving children's use of "top-down" cognitive processes to moderate "bottom-up" biological drives around food approach and avoidance in the interest of achieving desired eating behaviors or outcomes. Whereas bottom-up ASR processes during early childhood are well characterized, particularly in the context of dysregulation and obesity risk, the role of top-down ASR processes in the development of healthy eating behaviors …

Pre- And Postnatal Exposure To Pm2.5 And No2 And Blood Pressure In Children: Results From The Echo Cohort, Yu Ni, Andrew Law, Xingyu Gao, Adam A Szpiro, Christine T Loftus, Miranda Jones, Logan C Dearborn, Marnie F Hazlehurst, Allison R Sherris, Sindana Ilango, Kaja Z Lewinn, Nicole R Bush, Qi Zhao, Leonardo Trasande, Joseph T Flynn, Daniel A Enquobahrie, Ruby H N Nguyen, Tom O'Connor, Arpita K Vyas, Mingyu Zhang, Hooman Mirzakhani, Alison Hipwell, Anne Starling, Alicia K Peterson, Akhgar Ghassabian, Assiamira Ferrara, Judy Aschner, Scott Collingwood, Margaret R Karagas, Michelle Katzow, Annemarie Stroustrup, Mehtap Haktnair, Tina V Hartert, Brittney M Snyder, Sophia Jan, Anne Marie Singh, Dana Dabelea, Angela M Malek, Jennifer K Straughen, Carlos A Camargo, Miatta A Buxton, Rosalind Wright, Kecia Carroll, Keia Sanderson, Daphne Koinis Mitchell, Viren D'Sa, Christine Hockett, Anne L Dunlop, Shohreh F Farzen, Sunni L Mumford, Akram N Alshawabkeh, Hudson P Santos, Xueying Zhang, Zhongzheng Niu, Nan Ji, Carrie Breton, Donghai Liang, Catherine J Karr, Echo Cohort Consortium

Children’s Nutrition Research Center Staff Publications

Background: There is growing interest in understanding the link between early life exposures to ambient air pollution and childhood blood pressure; however, existing findings, largely from single site/cohort studies, are inconclusive.

Methods: We examined the association between exposures to fine particulate matter (PM2.5) and nitrogen dioxide (NO2) and blood pressure measured at age 5-12 years in 4863 U.S. children from 20 pregnancy cohorts of the NIH ECHO cohort. Point-based residential exposures were derived from spatiotemporal models with a biweekly resolution and averaged over each trimester, the whole pregnancy, and child age 0-2 years. We converted systolic (SBP) and diastolic blood …

Physical Activity In Osteosarcoma Patients During And Post Therapy: A Single Site Prospective Observational Study, Elysia R Cohen, Clark Andersen, Karen Moody, Maria C Swartz, Michael C Robertson, Alakh Rajan, Theresa Honey, Sandra Lugo, Grace Waterman, Keri Schadler

Faculty, Staff and Student Publications

PURPOSE: Osteosarcoma is the most common primary bone tumor in childhood and adolescence. Many patients face long-term impairments in their mobility and function after treatment, leading to a decrease in their quality of life. Exercise has been shown to improve functional recovery and improve quality of life in patients with cancer, though data specific to children with osteosarcoma are sparse. Exercise has also been shown to be feasible in patients undergoing chemotherapy, with numerous potential benefits to health and quality of life. To design the most effective exercise interventions for children and adolescents with osteosarcoma, we must first understand the …

The Application, Construction, And Validation Of Hidden Markov Model Profiles For Carbonic Anhydrase Enzymes, Samuel F. Kaplan

Master's Theses

Carbonic anhydrases (CAs) catalyze the reversible hydration of CO2 and have evolved independently at least eight times, resulting in structurally distinct enzyme families (α, β, γ, δ, ζ, η, θ, ι). Traditional sequence alignment methods struggle to classify these convergently evolved proteins because their sequential similarity does not reliably indicate functional or evolutionary relationships. Many CA sequences in public databases are annotated generically without family assignments, and prior computational approaches have focused predominantly on the three well characterized families (α, β, γ), leaving the five recently discovered classes without robust classification tools. Family level assignment is often a prerequisite for …

Exploring Non-Conventional Substrates: The Role Of Hibiscus And Whey In Kombucha Fermentation, Benjamin J. Lee

Master's Theses

This study evaluated the impact of hibiscus and whey as alternative fermentation substrates on the physicochemical, phytochemical, and microbial properties of kombucha. A 2 × 2 full factorial design was used to compare four treatments: black tea + water (BW), black tea + whey (BH), hibiscus + water (HW), and hibiscus + whey (HH). The fermentation solvents (water or whey) were heated to 88 °C, infused with 0.6% (w/v) black tea or hibiscus for 10 minutes, sweetened with 10% (w/v) sucrose, cooled to 22 °C, and inoculated with 20% (v/v) kombucha starter culture. Fermentations were carried out at 22 °C …

Measurement And Control Of The Oxidation-Reduction Potential And Its Chemical And Sensory Consequences In Wines, William Jordan Wright

Master's Theses

The oxidation-reduction potential (ORP) is a measurement thought to reflect the overall ability of a solution to oxidize or reduce substances within that solution. In wine, there is no absolute agreement as to which substances control or dominate the ORP; however, oxygen, ethanol, iron-tartrate and copper-tartrate complexes, and glutathione are suspected to play key roles, while sulfur dioxide and phenolics may act as buffers. Anecdotally, some varieties of Vitis vinifera are prone to oxidation while others are prone to reduction, though the chemical basis of this remains unclear. The following works aim to further elucidate the influence of specific chemical …

Associations Between Nutrition-Related Chronic Disease And Food Insecurity: Data From The California State University, Elizabeth Ochoa

Master's Theses

Food insecurity is a growing public health concern consistently associated with elevated rates of nutrition-related chronic disease (NRCD) across the general population. Despite young adulthood being a critical window for dietary pattern formation, this relationship remains minimally explored among college students. This thesis examined associations between food insecurity and NRCD diagnosis, including hypertension, diabetes, hyperlipidemia, and cardiovascular disease, among undergraduate students across the California State University (CSU) system. Cross-sectional data were drawn from the Spring 2021 CSU National College Health Assessment, administered across all 23 campuses. After exclusions, the analytical sample comprised 13,762 students. Bivariate analyses assessed relationships between key …

Evolutionary Conservation Of Midline Axon Guidance Activity Between Drosophila And Tribolium Frazzled, Piyasi Ghosh, Benjamin C. Wadsworth, Logan Terry, Timothy A. Evans

Biological Sciences Faculty Publications and Presentations

The regulation of midline crossing of axons is of fundamental importance for the proper development of nervous system connectivity in bilaterian animals. A number of conserved axon guidance signaling pathways coordinate to attract or repel axons at the nervous system midline to ensure the proper regulation of midline crossing. The attractive Netrin-Frazzled/DCC (Net-Fra) signaling pathway is widely conserved among bilaterians, but it is not clear whether the mechanisms by which Net and Fra promote midline crossing are also conserved. In Drosophila, Fra can promote midline crossing via Netrin-dependent and Netrin-independent mechanisms, by acting as a canonical midline attractive receptor and …