Digital Commons Network^™

Investigating The Role Of Some Biomarkers In Assessing The Proposed Air Pollution Effects In Selected Areas In Erbil Governorate, Jamal Kamal Mohammedamin, Yahya Ahmed Shekha

Baghdad Science Journal

The aim of this study was to evaluate the levels of urinary Hydroxyproline, urinary Malondialdehyde, urinary Creatinine, and urinary Albumin as potential biomarkers for air pollution in two distinct sites: Site 1, an industrial area and Site 2, a non-industrial area, also measuring the urine albumin-to-creatinine ratio (UACR) to further investigate the effects of air pollution. The study employed a cross-sectional design with 90 participants. Site 1 had 56 participants (42 adults, 14 children, 11.2% of the total population), while Site 2 had 34 participants (23 adults, 11 children, 11.3% of the total population). The findings of the study indicated …

The Correlation Between Micro-Rna 146a And Il-17 In The Serum Of Iraqi Patients With Cystic Echinococcosis, Nisreen Shaker Mahmoud, Ekhlas M. Idan, Muhanned K. Ali

Baghdad Science Journal

Cystic echinococcosis (CE) is an endemic disease that causes serious disease and economic loss in the majority of countries around the world. MiRNAs are an epigenetic factor that is essential to the regulation of the immune response by interfering with cytokine expression; one such miRNA is microRNA-146a. The aim of the present study was to assess if we could use microRNA 146a as a biomarker for the detection of CE and to determine the relationship between microRNA 146a gene expression and IL-17 in patients with CE. The study included 50 CE patients who were admitted to the hospital in Baghdad, …

Endothelin-1 Gene Polymorphism With Interleukin-1Β Expression In Infertile Iraqi Women Under In Vitro Fertilization Program, Zainab Jalil Abdulkareem, Asmaa M. Salih Almohaidi

Baghdad Science Journal

Endometrial receptivity is the limiting phase in the success of IVF treatment, Invasion of human trophoblast cells to the endometrial is regulated by many factors such as EDN1 and IL-1β. This study aims to verify the relationship between polymorphism and gene expression of EDN1 and IL-1β genes with embryo implantation in infertile women under the IVF program. The peripheral blood samples were collected on the day of embryo transfer an hour after embryo transfer, after approval from 60 women, and divided according to the outcome of embryo implantation outcomes, the failure implantation group included 35 women, and the success implantation …

Aligning Exons, Introns, And Flanking Regions Of Cyc And Cuc Genes In Lonicera (Caprifoliaceae), Mark Mordukhay

Theses and Dissertations

The genus Lonicera (Caprifoliaceae) exhibits great diversity in floral symmetry, petal fusion, and organ arrangement, making it an ideal system for exploring the genetic basis of morphological evolution. We focus here on the roles of CYC and CUC gene families, (CYC2A, CYC2B, CYC3A, CYC3B, CUC2A, and CUC2B) and their potential contributions in shaping floral symmetry and organ fusion. The data set included nucleotide sequences from over 90 Lonicera species, extracted from samples collected from natural habitats or herbaria and then sequenced. A custom bioinformatics pipeline was developed in R using Bioconductor packages to automate BLAST searches, filter results, scan for …

Acoustic Monitoring Of Oak Toads (Anaxyrus Quercicus), A Longleaf Pine (Pinus Palustris) Ecosystem Endemic Amphibian, Alex Ward Foote

Theses, Dissertations and Capstones

The Longleaf pine ecosystem is one of the most endangered ecosystems in the world with only 3% remaining. Many endemic species to the longleaf pine ecosystem are also in decline and suffer from habitat loss resulting from fire exclusion, urbanization, agriculture, and industrial silviculture. Oak Toads (Anaxyrus quercicus) are a longleaf pine ecosystem obligate; the species is experiencing declines across its range and only has protections in Virginia and North Carolina. We used data from an array of Automated Recoding Units across four years (2013, 2014, 2015, 2019) at three state-owned wildlife management areas to capture audio files …

Food Resource Efficiency Decision Support Hub: Workshop 2 - Summary Report, Jennifer Attard, Tracey O'Connor, Simon Patterson, Julia Lessa Feitosa Virgolino, Mina Sadeghzadeh

Publications

FRED is focused on informing policy on food waste prevention using a total food system sustainability approach.

Biol 337-002 Collective Intelligence In Biological Systems, Simon Garnier

Biology Syllabi

No abstract provided.

How Individual Traits Predict Distribution Patterns And Community Convergence, Zachary K. Lange

Biology Dissertations - Archive

One of the fundamental questions in biology is whether natural conditions lead species and communities toward predictable outcomes. Answering this question requires understanding how traits of individual organisms are connected to species- and community-level patterns. In Chapter 2, I examined how thermal physiology and environmental temperatures interact to determine the distribution patterns of Anolis lizards on the Greater Antilles. I combined lab-measured thermal traits (critical thermal minimum: CT_min, critical thermal maximum: CT_max, thermal preference: T_pref) with occurrence and abundance data from 21 species of Anolis lizards collected from extensive mark-resight surveys of communities across …

Coordinated Wnt And Shh Signaling In Hair Follicle Mesenchyme Development And Regeneration, Yiqun Jiang

Yale Graduate School of Arts and Sciences Dissertations

Developmental morphogenesis requires cells to balance proliferation with differentiation, often regulated by multiple signaling pathways. While most studies consider these pathways as additive, less is known about how they interact to regulate fate transitions. In this dissertation, I use the hair follicle dermal condensate (DC), the first differentiated mesenchymal population of the skin with the ability to instruct new hair growth, to study morphogens interact to regulate the dermal mesenchyme.Wnt and SHH are necessary and sufficient for DC formation, during which cell cycle exit with molecular DC gene expression occur simultaneously. Interestingly, high Wnt alone is sufficient to induce cell …

The Independent And Redundant Roles Of Tbx16 And Msgn1 In Mesodermal Differentiation, Guoyu Zhu

Yale Graduate School of Arts and Sciences Dissertations

Tbx16 and msgn1 genes are key genes responsible for the mesodermal progenitor cells to undergo mesodermal fate transition during zebrafish embryonic body elongation. Here we elucidated their previously unclear independent and redundant roles of mesodermal fate regulation. Using heat-shock induced tbx16 and msgn1 overexpression, in situ hybridization, quantitative PCR, RNA sequencing, and systematic analysis of differentially expressed genes, we found that tbx16 and msgn1 promotes mesodermal differentiation by repressing the progenitor niche that maintains the mesodermal progenitor cell state. Tbx16 and msgn1 repress the expression of many of the same genes in the mesodermal progenitor niche, but tbx16 also represses …

Exploration Of The Mechanisms Regulating Genomic Stability In Plants, Wenxin Yuan

Yale Graduate School of Arts and Sciences Dissertations

Genomic stability is a cornerstone of cellular integrity, with implications spanning genetic engineering, epigenetic regulation, and disease modeling. However, most studies rely on yeast or mammalian models, leaving significant gaps in our understanding of plant chromatin biology and genome stability mechanisms. Exploring the conserved and divergent processes regulating genome stability in plants has become increasingly important, especially as global climate change threatens crop yields and biodiversity. Furthermore, the developmental resilience of plants provides a unique opportunity to study genes essential in mammals, offering translational insights for agriculture and human health. This dissertation investigates the molecular and genetic mechanisms underpinning T-DNA …

Designing A Tpack-Based Mobile Learning Model For Biology Education Using Nominal Group Techniques, Cik Jamaliah Abd Manaf, Shakinaz Desa, Muhammad Ikhwan Mat Saad, Helen Crompton

STEMPS Faculty Publications

Mobile learning (m-learning) enhances STEM education, particularly in biology, by supporting visualization and interaction. However, a structured framework integrating technological, pedagogical, and content knowledge (TPACK) is essential. This study designs a TPACK-based mobile learning model for biology using the Nominal Group Technique (NGT). A workshop with 10 experts identified seven key components and 67 elements, with nine elements rejected due to low consensus. The validated framework will guide model development using Interpretive Structural Modelling (ISM) to enhance critical thinking, collaboration, and digital citizenship, ultimately fostering effective mobile learning environments for biology education.

Biol 475-H02, Maria Stanko

Biology Syllabi

No abstract provided.

Biol 498-002: St: Glia, The Neuron's Forgotten Sibling, Jorge Golowasch

Biology Syllabi

No abstract provided.

Biol 382-002: Animal Behavior, Gal Haspel

Biology Syllabi

No abstract provided.

Biol 698-002: St: Glia, The Neuron's Forgotten Sibling, Jorge Golowasch

Biology Syllabi

No abstract provided.

How Do Human-Induced Environmental Stressors Shape The Distribution, Physiology, And Behaviour Of The Lemur Leaf Frog?, Benjamin Hough

School of Biological and Marine Sciences Theses

The Lemur leaf frog (Agalychnis lemur) is a critically endangered species of anuran whose survival is increasingly threatened by human-induced environmental stressors, such as habitat loss, fragmentation, and climate change. This study investigates how those stressors shape the physiology, distribution, and behaviour of the species through combinations of physiological and distributional modelling and a behavioural trial. The study uses a novel approach into understanding how future risk posed by climate change could impact Lemur leaf frogs. By using field spatial data combined with physiological mechanistic modelling, the study is able to predict how Lemur leaf frogs body temperature and geographical …

The Responses Of Insect Herbivores And Local Food Webs To Invasive Shrubs, Logan W. Huber

Browse all Theses and Dissertations

Invasive species cause widespread ecological disruption and economic loss. Invasive plants in particular have the potential to reshape forest food webs from the bottom up. However, the extent to which herbivores colonize and assimilate invasive plants into their diets remains unclear. To address this, I surveyed caterpillar abundance, richness, and herbivory on two invasive shrubs, Lonicera maackii and Elaeagnus umbellata, across regions differing in infestation history. Lonicera maackii supported lower overall caterpillar abundance and richness but hosted a more diverse and abundant caterpillar community in the heavily infested region. E. umbellata supported robust caterpillar communities and experienced herbivory levels comparable …

Determinants Of Bat Activity And Habitat-Use At Runkle Woods And Huffman Metropark, Ohio, Heidi E. Orloff

Browse all Theses and Dissertations

North American bats are an excellent control of pests as most are insectivorous feeders. They face numerous threats including habitat loss, anthropogenic development, disease (White-nose Syndrome), and potentially artificial light at night (ALAN). It is important to track species populations and habitat-use to determine the magnitude of effects from these threats. Acoustic monitoring has proven a useful and non-invasive method for tracking bat populations. In my research, I conducted stationary acoustic surveys of bat activity at Wright State University’s Runkle Woods and nearby Huffman MetroPark during the summers of 2023 and 2024. I recorded bat calls in three different habitats …

Determining The Genetic Population Structure Of The Endangered Scirpus Ancistrochaetus Using Genomic Sequences, Kayci Johnson

Browse all Theses and Dissertations

Wetlands are biodiverse ecosystems across the world, and they are being lost at alarming rates due to fragmentation and anthropogenic stressors. Many wetland plants are endangered or threatened due to wetland decreasing numbers. Scirpus ancistrochaetus is an endangered wetland species in the northeastern United States. It is most commonly found in lowlands and forested ecosystems. In this study, I used 105 polymorphic loci obtained from double-digest restriction site associated DNA sequencing (ddRAD-seq), a conservation genetics tool, to determine conservation units, gene flow, kinship, and isolation-by-distance patterns. Discrete populations were identified in New England and the southern part of the species’ …

Benthic Algal Biomass And Productivity Across Depth Gradients In Lakes Michigan And Erie, Ahmed Ogidan

Browse all Theses and Dissertations

Benthic primary production is poorly quantified in the Laurentian Great Lakes relative to phytoplankton-based production. We measured benthic chlorophyll and benthic primary productivity on soft sediments and Dreissena shells along depth gradients in Lakes Erie (2024) and Michigan (2025) during EPA Cooperative Science and Monitoring Initiative cruises. We measured benthic chlorophyll fluorometrically and estimated benthic primary productivity using non-invasive oxygen exchange incubations. We used PAM fluorometry to characterize photosynthetic-irradiance relationships on mussel shells and sediments in Lake Michigan. In Lake Erie, sediment chlorophyll ranged from 20 to 150 mg m⁻², with highest values in the central basin. In Lake Michigan, …

The Role Of Trpm7 In Mouse Development And Immune Cell Function, Jananie Rockwood

Browse all Theses and Dissertations

Transient receptor melastatin 7 (TRPM7) functions both as an ion channel and a protein kinase. TRPM7 has been implicated in Mg2+ homeostasis, embryogenesis, cardiac automaticity, and immunity. The purpose of this research was to deepen our understanding of TRPM7 channel and kinase functions. To this end, we used two transgenic mouse models: the TRPM7 gain-of-function (GOF) and TRPM7 kinase-dead (KD) mice to address the consequences of increased channel activity and kinase inactivation, respectively. Global deletion of TRPM7 or the kinase domain alone are embryonic lethal, therefore, we used the TRPM7 GOF mouse to investigate germline transmission. We examined embryo development …

Spectral Divergence Prioritizes Key Classes, Genes, And Pathways Shared Between Substance Use Disorders And Cardiovascular Disease, Everest Castaneda, Elissa Chesler, Erich J. Baker

Funded Scholarship

Substance use disorders (SUDs) are heterogeneous diseases with 

overlapping biological mechanisms and often present with co-occurring disease, 

such as cardiovascular disease (CVD). Gene networks associated with SUDs 

also implicate additional biological pathways and may be used to stratify 

disease subtypes. Node and edge arrangements within gene networks impact 

comparisons between classes of disease, and connectivity metrics, such as 

those focused on degrees, betweenness, and centrality, do not yield sufficient 

discernment of disease network classification. Comparatively, the graph 

spectrum’s use of comprehensive information facilitates hypothesis testing 

and inter-disease clustering by using a larger range of graph characteristics. 

By adding a connectivity-based …

Science, Physiology, And Nutrition For The Nonscientist, Judi S. Morrill

Open Educational Resources

A wonderful blend of physiology, nutrition, biochemistry, genetics, biology, evolution, chemistry--what we all need to know as informed citizens. A basic knowledge of the life sciences and how our bodies work--to promote our own good health, especially as we're bombarded with misleading advertisements, soundbites, and the like. DNA fingerprinting, calorie requirements, dietary advice, genetic engineering (including gene editing with CRISPR cas9)--all in an easy-to understand book.

Realities Of Nutrition, Judi S. Morrill

Open Educational Resources

What Is Nutrition Reality? Is it in the advertising claims that a food is natural or supplies instant energy? Is it in the myriad of dietary supplements? Is it in the diet plans for instant weight loss and glowing health? The only way to find out is to learn the basic principles of nutrition science, so you can be your own nutrition expert. Here is the true introduction to nutrition that you will read with pleasure and real understanding. It will free you from dependence on popular sources of information - often misinformation - so you can distinguish illusion from …

Technological Accessibility For Wildlife Telemetry Research, Andrew Danielson

The Journal of Purdue Undergraduate Research

Over the course of two years, I conducted original research into improving accessibility for researchers in the field of wildlife telemetry. Wildlife telemetry is a technique used by biologists to track wildlife in the field, which requires the biologist to attach a small radio transmitter to an animal, usually using a specially designed collar, harness, or another means. These transmitters are battery powered and will emit or transmit a regularly timed radio signal that can be received by radio receivers carried by the researchers. Two issues faced by wildlife telemetry researchers are the cost of wildlife telemetry equipment and the …

Corneal Transplants And Their Impact, Bianca Estrada

Honors Capstones

A corneal transplant, also called keratoplasty or corneal grafting, is a type of surgery where damaged or diseased corneal tissue is replaced by a healthy donor cornea. The first successful corneal transplant was performed in 1905 by Dr. Eduard Zirm, but since then, surgical advancements have developed greatly, leading to more beneficial outcomes. Corneal blindness is a major form of reversible blindness that is manageable with healthy donor cornea transplantation. Other recipients or possible candidates for corneal transplantation include those with keratoconus, Fuchs’ dystrophy, eye infections, or eye injuries. This remarkable surgery is now one of the most common transplant …

Genetic Analysis Of A Novel Population Of Southern Flying Squirrels (Glaucomys Volans) Found In Lincoln, Ne, Jennifer Wettschreck

Biology Theses, Dissertations, and Student Creative Activity

In 2018 a novel population of southern flying squirrels (Glaucomys volans) was discovered in Lincoln, Nebraska, 80 km outside of their known range. Southern flying squirrels are designated as a “Tier-1” species of concern within Nebraska and the origin of this new population is of interest to state biologists. This study will provide insight into the probable origin of this new population by comparing genetic samples from known populations of southern flying squirrels. Museum specimens were collected from two well-established populations in Florida and Texas, as well as samples from individuals native to Nebraska (Indian Cave State Park) to compare …

Designing Technology-Enriched Learning Environments: The Effects Of An Agent-Based Computer Model On Biology Students' Understanding Of The Covid-19 Pandemic And The Nature Of Models In Science, April Sullivan

All Graduate Theses and Dissertations, Fall 2023 to Present

Science education researchers have called for increased attention to the science practice of modeling to engage students in authentic scientific inquiry. A major challenge to integrating the modeling practice into science instruction is that students tend to conceptualize models as static end-products of research rather than generative tools for theory-building. Engaging students in using computer models, specifically agent-based computer models (ABMs), to explain and predict scientific phenomena could improve students' understanding of models in science. In this design-based research project I investigate the effects of an ABM-supported learning environment on high-school biology students' understanding of the COVID-19 pandemic and the …

Numerical Taxonomic Study Of Some Cultivars Species Of The Genus Bougainvillea Comm. Ex Juss. Cultivated In Nineveh Governorate / Iraq, Raad Hamad Mahmood Al-Badrany

Baghdad Science Journal

The current study included the numerical taxonomy cultivars species of the genus Bougainvillea Comm. ex Juss. Cultivated in Nineveh/Iraq, consists of the cultivars of B. glabra Choisy species: (‘Formosa’, ‘Lesser’, ‘Royal purple’, ‘Sanderiana’) and the cultivar ‘Mary palmer’ of the B. spectibilis Willd species, ‘Thimma’ cultivar of B. peraviana Hum. and Bon species., ‘California gold’ and ‘Cherry blossom’ cultivars of B. X buttiana species using the morphological characteristics. 12 qualitative morphological traits were selected to draw the polygonal diagrams for all cultivars under study and 27 morphological traits 7 quantitative and 20 qualitative were compared for cultivars species of the …