Biology Commons^™

Exogenous Ribosome Incorporation Induces Lineage Transdifferentiation In Intestinal And Liver Cancer Cells, Haoxuan Gu, Nadia Wahyuningsih, Keisuke Yamashita, Shota Inoue, Fuchao Tan, Mani Sharaki, Muhaimin Rifa’I, Kunimasa Ohta

Karbala International Journal of Modern Science

It has previously been shown that exogenous bacterial ribosomes added to somatic cells and various cancer cell lines generate ribosome-induced cell clusters (RICs) capable of transdifferentiating into multiple cellular lineages. However, the scope of ribosome-induced transdifferentiation in cancer cells remains poorly understood. This study aimed to analyze the effects of exogenous ribosome incorporation on human cancer cell lines, specifically the intestinal epithelial cell line Caco-2 and the hepatocellular carcinoma cell line HepG2. Caco-2 and HepG2 cells were cultured with purified bacterial ribosomes in human ES/iPS cell medium after trypsinization, resulting in the formation of ribosome-induced Caco-2 (RICs-Ca) and HepG2 (RICs-He) …

Tapping Into The Ocean’S Hidden Energy: Feasibility Of A 5 Mw Otec Installation In North Bali, Widodo Setiyo Pranowo, Yani Permanawati, Gisela Malya Asoka Anindita, Agung Kurniawan, Albertus Sulaiman, Johar Setiyadi, Safri Burhanuddin, Ivonne Milichristi Radjawane, Hansan Park, Endro Sigit Kurniawan

Karbala International Journal of Modern Science

Indonesia is an archipelagic country surrounded by water and faces energy challenges due to the low use of renewable energy. Among the potential renewable options, marine energy is a particularly suitable resource given the country’s geographical nature. Based on this discussion, seawater temperature can be used as an alternative ocean thermal en-ergy known as ocean thermal energy conversion (OTEC) by using the difference in sea surface and deep-sea water temperatures. Therefore, this study aimed to examine OTEC installations in North Bali waters using closed-cycle OTEC calculations for a 5 MW system. Following this objective, we examined the water conditions by …

The Effects Of Anti-Gdnf On The Sensory And Autonomic Nervous System In The Heart, Tryphosa Konadu

Honors Theses

Heart disease is the number one leading cause of death; about 1 in every five deaths is due to heart disease. “Heart disease” is a catch-all phrase that encompasses a variety of conditions that affect the heart’s structure and function. Many of these symptoms can be attributed to dysfunction within the parasympathetic, sympathetic, and sensory nervous systems. Neurotrophic factors like GDNF (Glial cell line-derived neurotrophic factor), BDNF (Brain-derived neurotrophic factor), and NGF (Nerve growth factor) promotes neuronal survival, and regeneration of the nerve fibers of the heart, especially sensory and autonomic nerve fibers. Studies have suggested that increased expression of …

Bull’S-Eye On Borrelia: A Commensal And Consequential Pathogen, Alan L. Gillen

Faculty Publications and Presentations

If Lyme disease causes such urgent and chronic disease issues, where do Borrelia bacteria and ticks fit into a very good creation (Genesis 1)? How did bacteria and ticks change to rely on different hosts and blood for survival? And how are these adaptations informing today’s research in bacteriology, immunology, entomology, and disease ecology? The purposeful placement of Borrelia (Fig. 1) is most likely in the gut of wild mice (Fig. 2), not domesticated mice nor man. The bacteria are communalistic in wild mice, where they may be probiotic for mutual good (Fig. 2)—the Creator made it for good at …

Movement And Distribution Dynamics Of Predatory Fishes In The St. Lucie Estuary, Sarah Fae Leonowicz Torre

Electronic Theses and Dissertations 2020 - Present

Estuaries are productive but highly variable ecosystems that support recreationally and commercially valuable fisheries, as well as species of conservation concern. However, coastal development, habitat loss, altered freshwater inflow, and declining water quality can modify the environmental gradients that structure fish distributions. In the St. Lucie River and southern Indian River Lagoon, located in southeast Florida, managed freshwater discharges, watershed runoff, shoreline modification, and degradation of essential fish habitats (e.g., seagrass, oyster, and mangrove forests) have altered estuarine conditions.

This dissertation evaluates how four estuarine fish species with contrasting life histories respond to environmental variability, hydrologic disturbance, and habitat structure …

Deciphering The Potential Of Monopterus Albus Protein Hydrolysate As A Therapeutic Candidate Against Cervical Cancer By Integrating Content Analysis, Network Pharmacology, And Molecular Docking, Okid Parama Astirin, Widya Mega Rahmawati, Elisa Herawati, Tetri Widiyani, Lili Pandan Sari, Sherly Octaviana

Karbala International Journal of Modern Science

Cervical cancer has a high incidence rate in women, making the development of cancer drugs increasingly urgent. Asian swamp eel protein hydrolysate shows great promise as an anticancer candidate. This study aimed to reveal the potential of Asian swamp eel protein hydrolysate as an anticancer candidate in the cervix. Asian swamp eel protein hydrolysate was produced by hydrolyzing flesh with the enzyme alcalase. Compounds and peptides were identified using LC-HRMS. These compounds and peptides were analyzed using network pharmacology, gene ontology, and molecular docking. The results identified 153 endogenous compounds, including fatty acids and peptides. The key proteins targeted by …

Sophisticated Song: Exploring The Evolution And Ontogeny Of Large Repertoires And Syntax Usage In The Bachman’S Sparrow (Peucaea Aestivalis), Heather Jean Wolverton

Electronic Theses and Dissertations 2020 - Present

While humans have the most complex vocal communication system, many of the features that make human language so intricate can be found in other taxa. One building block of language commonly studied in animal communication is syntax, or the organization of vocalizations. Birds, wolves, and cetaceans all display complex vocal signaling that utilizes syntax. Understanding how syntax functions in different taxa can help illuminate the evolution and development of human language and the role it plays in social cognition. The Bachman’s sparrow (Peucaea aestivalis) is a species of songbird that utilizes syntax in the form of preferred transitions …

The Tagmatized Echinoderm, Richard L. Turner

Ocean Engineering and Marine Sciences Faculty Publications

Synopsis Tagmosis is a derived condition of metamerism in annelids, arthropods, and chordates in which groups of adjacent segments are modified to perform specific functions. Examples are the clitellum of earthworms, the carapace of lobsters, and the sacrum of tetrapods, to mention a few. The argument is advanced here that examples of tagmosis are not hard to find among echinoderms, a fourth major group of metameric animals; but the degree of tagmosis is weak in most cases. The first few segments of the axial skeleton are often conjoined as a perioral tagma (e.g., the jaws and other parts of the …

Anoxia Tolerant Dna Replication Is Supported By Atr Kinase In The Annual Killifish Austrofundulus Limnaeus, Riley Roth-Carter, Erin Helms, Joshua C. Saldivar, Jason Podrabsky

Biology Faculty Publications and Presentations

Hypoxia and anoxia suppress cell proliferation due to an increase in replication stress and activation of DNA damage checkpoints. Embryos of the annual killifish Austrofundulus limnaeus tolerate prolonged anoxia, indicating improved genomic stability under oxygen starvation. We investigated the cell cycle regulation of the anoxia tolerant killifish embryonic cell line PSU-AL-WS40NE during anoxia. Live-cell imaging confirms continued proliferation of WS40NE cells for the first 24 h of anoxia with minimal cell death. Fluorescence imaging shows that cells accumulate in G1 after the first day in anoxia with a rapid entry into S phase upon reoxygenation. Pharmacological inhibition shows a reliance …

Fish Tissue Digestion And Microplastic Polymer Identification Protocol Using Open-Source Ftir Database, Shawn L. Kissinger, Vick-Ariel Privert, Jason Bystriansky, Kyle A. Grice

DePaul Discoveries

Microplastic (MP) contamination in aquatic ecosystems poses significant concerns for environmental and public health, as seafood represents a critical food source worldwide. Despite increasing evidence of MP presence in marine organisms, efficient and accessible detection methods remain essential for characterizing contamination patterns and informing regulatory frameworks. This study extracted MPs from brain, gill, intestine, liver, and muscle tissues of gilt-head bream (Sparus aurata) and European sea bass (Dicentrarchus labrax), two commercially important species from the Gulf of Cádiz, Spain, using a NaOH–HNO₃ chemical digestion protocol. Isolated particles were characterized by Fourier Transform Infrared (FTIR) spectroscopy, with …

Vertebrate Diversity In Cave Systems Of Colombia: An Approach Based On Environmental Dna Metabarcoding Analysis, Rita Daniela Martinelli Marín, Carlos Andres Lasso, Francesco Sauro, Susana Josefina Caballero

International Journal of Speleology

There is currently limited knowledge of the biological communities inhabiting cave ecosystems in South America. This study examines the vertebrate community composition of 21 caves across diverse subterranean ecosystems in Colombia using environmental DNA (eDNA) analysis. Water was collected from water bodies inside caves and subterranean systems in six of the eight speleological regions of Colombia in eight departments. Water was filtered manually through a 0.8 m pore size filter and preserved with Longmire solution. A 170-base pair (bp) fragment of the 12s mitochondrial gene specific for vertebrate identification was amplified by PCR and sequenced by Illumina (metabarcoding). Data corresponding …

Using “You” As A Subject In Biology Assessment Questions: Examining Student Preferences For Second-Person Framing, Noelle Clark, Kate Hill, Jeremy L. Hsu

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

In college biology courses, exams and quizzes are often used to assess students’ knowledge and performance. Since assessments are a crucial part of biology classes, there has been a wide range of work examining how assessment questions are written, revealing that small changes in how such questions are worded may have large impacts on students’ reading comprehension and performance. One aspect that instructors consider when writing a question is subject framing, i.e., which individual, if any, is being placed as the focal point of the question. In this study, we focus on the following subject framings, an authentic scientist, a …

Hot And Bothered: Introduced Generalist Marine Snail Outperforms Native Specialist Under Gradual And Extreme Warming, Alysha B. Putnam, Adeline Dwyer, Danielle T. Weiss, Bethany A. Bradley, Michelle D. Staudinger, Paulette Peckol

Biological Sciences: Faculty Publications

Climate change is reshaping coastal ecosystems through gradual warming and increasingly frequent extreme heat events, potentially affecting native and introduced species differently. We experimentally compared the native marine snail Littorina obtusata, a habitat and dietary specialist, to the introduced generalist Littorina littorea under sustained warming and short-term extreme heat. We measured survival and performance metrics, including grazing, growth, and attachment strength, under short- and long-term thermal stress in air and water. L. littorea consistently outperformed L. obtusata, maintaining or increasing function under warming and exhibiting greater survival during simulated heatwaves. Conversely, L. obtusata showed performance declines and higher …

Science, Uncertainty, And Stewardship: Climate Change Viewpoints In Higher Education, Jamie Jensen, Isaiah Aduse-Poku

ScholarsArchive Data

This dataset supports a Q-methodology study of climate change viewpoints among undergraduate students at Brigham Young University. Participants were recruited from an introductory non-majors biology course during Fall 2025. The study examined how students organized climate-change views across scientific evidence, human causation, uncertainty, political beliefs, religious stewardship, moral responsibility, perceived agency, climate policy, and future risks.

The Evolution Of Reproduction Without Blood Feeding In An Invasive Vector Mosquito Aedes Albopictus, Samantha L. Sturiale, Mara Heilig, Matthew L. Aardema, Luciano V. Cosme, Margaret Corley, Sarah Marzec, Micah Hamilton, Daniel Vizcarra, Luke T. Anderson, Christina M. Holzapfel, William E. Bradshaw, Megan E. Meuti, Adalgisa Caccone, Peter A. Armbruster

Department of Biology Faculty Scholarship and Creative Works

Background: Mosquitoes transmit a diverse range of deadly pathogens, including dengue and Plasmodium spp., when they consume the blood of vertebrate hosts in order to nutritionally provision their eggs. However, mosquito species from multiple genera have independently evolved the ability to produce eggs without blood. The molecular and physiological processes underlying the evolution of blood-independent reproduction are largely unresolved, in part because the two most well-studied models of mosquito reproductive physiology and genetics are obligate blood feeders. Herein, we integrate life-history, genomics, and gene expression to identify physiological processes and candidate genes associated with the evolution of blood-independent reproduction in …

Upar-Guided Dendrimer Gel Nanoparticles Reprogram Inflammation To Stabilize Atherosclerotic Plaques, Hsin Yin Chuang, Huari Kou, Yue-Wern Huang, Hu Yang

Biological Sciences Faculty Research & Creative Works

Atherosclerosis is characterized by lipid deposition, chronic inflammation, and apoptosis within the arterial wall, leading to plaque progression and instability. Current lipid-lowering therapies fail to fully address residual cardiovascular risk driven by local inflammation and cell death. Here, we report the development of uPA-functionalized, rapamycin-encapsulated dendrimer nanoparticles (G5PM-uPA/RA) that preferentially accumulate in urokinase plasminogen activator receptor (uPAR)-enriched atherosclerotic plaque, including macrophage- and apoptosis-rich lesion microenvironments. G5PM-uPA/RA was constructed by cross-linking reaction-enabled flash nanoprecipitation in a custom-made multi-inlet vortex mixer, followed by thiol-maleimide conjugation of uPA for uPAR-guided targeting. The nanoparticles demonstrated uniform morphology, favorable stability, and efficient rapamycin loading. In …

Spatiotemporal Trends In Schistocephalus Solidus Infection Among Populations Of Alaskan Threespine Stickleback (Gasterosteus Aculeatus), A.M Wohlleben, Neva Meyer, N.C. Steinel

Biology

Understanding the dynamics of host-parasite interactions is essential for uncovering the ecological and evolutionary processes shaping natural populations. In this study, we investigated the spatial and temporal patterns of prevalence of the cestode Schistocephalus solidus in 4 Alaskan populations of threespine stickleback (Gasterosteus aculeatus) over 11 years (1996 to 2006). Additionally, we assessed host tolerance through key indicators such as the Parasite Index and the presence of fibrotic scar tissue, a specialized form of resistance in this system. We observed fibrosis formation in both infected and uninfected fish across all populations, with notable year-to-year variability in Cornelius Lake. Here, fibrosis …

Defining Life: A Conversation, K. Kofman, C. Adami, F. Baluška, J. Bongard, D. Brash, P. Calvo, G. Dodig-Crnkovic, P. Das, C. Fields, T. Froese, P. L. Gentili, G. Y. Georgiev, Scott F. Gilbert, T. N. W. Jackson, S. Kauffman, N. Lane, P. Marshall, D. Mcshea, W. Miller, S. Newman, A. Nunn, T. P. Pavlic, M. Picard, W. Ratcliff, A. Reber, J. Shapiro, A. Sloman, R. Solé, C. Sonnenschein, S. Stepney, R. Watson, O. Witkowski, M. Levin

Biology Faculty Works

Life is one of the most fascinating features of the physical world. Despite centuries of scientific study, experts still disagree about the definition, and even the possibility or utility of a definition, of this field. In a recent paper, we used AI to analyze the conceptual space formed by definitions of life given by a select set of modern workers in the life sciences and related fields. However, some of the most interesting material emerged as real-time conversations among those polled. In order to ensure that these ideas are not lost to the peer-reviewed scientific record, we here provide a …

Real-Time Image Denoising And Reconstruction Using Generative Adversarial Networks (Gans), Roa'a M. Al-Airaji, Haider Th. Salim Alrikabi, Rula Kamil, Svyd Iryna

Karbala International Journal of Modern Science

This paper presents a real-time image denoising and reconstruction system based on a compact Generative Adversarial Network (GAN) designed for embedded systems and edge computing. The proposed model employs a [ generator and a PatchGAN discriminator, trained using hybrid loss function that combines L1, perceptual, and adversarial terms to balance pixel and perceptual realism. Evaluations were conducted on multiple datasets, including DIV2K, BSD68, SIDD, DND, RENOIR, and PolyU at noise levels (σ = 15, 25, 50). Quantitatively, the proposed model achieves an average PSNR of 32.8 dB and an SSIM of 0.88, which is higher by more than 3 dB …

First Photographic Record Of A Pale-Colored Wild Boar (Sus Scrofa) Consistent With Leucism In The Zagros Mountains, Iraqi Kurdistan, Bahez F. Ali, Hana A. Raza, Nabaz Horeni

AUIQ Complementary Biological System

Pigmentation anomalies in wild mammals are rare and poorly documented in wild boar (Sus scrofa) populations. Leucism, characterized by partial loss of melanin while retaining normal eye pigmentation, represents one of the least frequently reported coloration anomalies in the species. During a camera-trap survey in Bamo Mountain, Zagros Mountains of Iraqi Kurdistan, an unusually pale-colored wild boar consistent with leucism was recorded. The individual exhibited cream to light-blond pelage with retained darker pigmentation on the snout and distal limbs, while the eyes remained normally pigmented. Its morphology and behavior were otherwise consistent with those of a typical wild …

Exploring Immune Priming In The Species Exaiptasia Diaphana, Torrence Campos

Biology Theses

Vibrio coralliilyticus is a pathogen that infects various coral species across several reef ecosystems and causes mortality within a span of a few days. With increasing temperatures, the pathogen becomes more virulent towards coral. Probiotics such as MCH1-7 have previously been used to treat infected corals before and after exposure to V. coralliilyticus. In this study, we will be using a species of sea anemone Exaiptasia diaphana in place of coral to evaluate the effects of two V. coralliilyticus strains ATCC BAA-450 and OFT6-21. It was determined that BAA-450 was more virulent. It led to immediate stress and higher mortality. …

Genome-Wide Cline Analysis Identifies New Locus Contributing To A Barrier To Gene Flow Across An Antirrhinum Hybrid Zone, David L. Field, Sean Stankowski, Taylor Reiter, Jitka Polechova, Desmond Bradley, Daniel M. Richardson, Annabel Whibley, Arka Pal, Daria Shipilina, Louis Boell, Melinda Pickup, Yongbiao Xue, Enrico Coen, Nicholas Barton

Research outputs 2022 to 2026

Identification of the genomic regions that contribute to reproductive isolation and how they interact is a major goal of evolutionary genetics. Much effort has focused on locating candidate genes and potential barrier loci by scanning genomes for regions of excess differentiation (FST). An alternative, and perhaps more robust approach, is to scan for genomic regions exhibiting steep clines in allele frequency across a hybrid zone. We develop a computationally efficient method for approximating cline parameters for large number of loci, and apply it to genomic data from across a hybrid zone between flower colour varieties of Antirrhinum majus (A. m. …

Examining Individual Representation In Asian Elephants (Elephas Maximus): Implications For Recognizing Familiarity And Presence Of Conspecifics, Elena Lawson

Electronic Theses and Dissertations

Elephants’ flexible cognitive abilities and fission-fusion societies make them an excellent study species to investigate individual social recognition. Despite the substantial role chemical cues play in elephant social communication, there is a considerable lack of research into their chemosensory social recognition, especially in Asian elephants (Elephas maximus). Using two-choice tests, I assessed Asian elephants’ chemosensory ability to discriminate between individuals by both presence and familiarity. I also used a habituation-discrimination paradigm to assess individual recognition in elephants by determining whether elephants integrate odor cues (i.e., urine and feces) to form multi-cue representations of individuals. Responses between samples were …

Characterization Of River Cane Morphology, Density And Biomass In Sun And Shade In Stream Riparian Zones In Northwest Arkansas, Emily Shy-Anne Carter

Graduate Theses and Dissertations

River cane, or Arundinaria gigantea Walter (Muhl.), ecosystems serve as ecological and cultural keystones, offering wildlife habitat, streambank stabilization, and construction/craft material for Native groups who utilize river cane. However, these ecosystems have declined substantially because of overgrazing, land conversion, and fire suppression, resulting in reduced patch size and culm morphology. Historically widespread across floodplains and riparian zones, canebrakes, or monotypic forests of river cane, have been restricted to small fragments. This study evaluated how canopy cover influences light availability, culm morphology, density, and biomass of river cane across eight riparian sites in Northwest Arkansas to inform restoration efforts. Light …

The Hope College Department Of Biology: The First 50+ Years, Christopher C. Barney

Faculty Publications

The Hope College Department of Biology was founded in 1899 with the appointment of the first Professor of Biology at Hope, Samuel Mast. During the first 50+ years of the Biology Department, there were eight total faculty members in the department, including Frances Koeman, the first female faculty member in the natural sciences. Four faculty members, Mast, Frank Patterson, Oscar Thompson, and Teunis Vergeer were primarily responsible for developing the department’s curriculum and programs, with Mast and Vergeer also carrying out published research. The department was housed primarily in Van Raalte Hall and the Science Building (now Lubbers Hall) for …

Principal Leadership As A Predictor Of Teacher Performance: Evidence From An Indonesian Elementary School, Irminapinem Pinem, Antonius Remigius Abi, Hamela Sari Sitompul

Jurnal Pendidikan Sains

Teacher performance is a critical determinant of educational quality and student achievement, making the identification of factors that influence teacher effectiveness an important area of educational research. Among these factors, principal leadership has been recognized as a key organizational variable that shapes teachers’ professional practices and instructional performance. This study aimed to examine the relationship between principal leadership and teacher performance at State Elementary School Raya Kahean, Simalungun Regency, Indonesia. The study employed a quantitative correlational research design involving 52 teachers selected through total sampling. Data were collected using two structured questionnaires measuring principal leadership and teacher performance. The principal …

Comparing The Effects Of Project-Based Learning, Inquiry Learning, And Conventional Instruction On Students' Learning Motivation In Biology, Yeyen Angraini, Irwandi Irwandi, Jayanti Syahfitri

Jurnal Pendidikan Sains

Learning motivation is an important factor influencing students’ engagement, persistence, and success in Biology learning. However, classroom instruction at the senior high school level is often dominated by teacher-centered approaches, which may limit students’ active participation and motivational development. This study aimed to compare students’ learning motivation across Project-Based Learning (PjBL), Inquiry Learning, and conventional instructional approaches in Biology learning. The study employed a quantitative quasi-experimental design with a pretest–posttest approach involving three groups. Participants consisted of 85 Grade XI students from SMA Negeri 1 Talang Padang, South Sumatra, distributed across three classes: PjBL (n = 28), Inquiry (n = …

The Development Of An In Silico Vaccine Design-Based E-Module To Improve Students' Biological Literacy, Qairinasherin Qwine Ferendi, Rusdi Rusdi, Hanum Isfaeni

Jurnal Pendidikan Sains

Low levels of biological literacy among students, particularly in biotechnology, highlight the need for innovative digital learning media that facilitate meaningful and contextual learning experiences. This study aimed to develop and evaluate an interactive biotechnology e-module based on in silico vaccine design to improve students’ biological literacy. The study employed Educational Design Research (EDR) using the Hannafin and Peck model, which consists of three phases: needs assessment, development, and implementation. The participants included 73 tenth-grade science students and one biology teacher from SMAN 68 Jakarta, Indonesia. The e-module was developed using Canva and Heyzine to create an interactive flipbook integrating …

Light-Driven Zonation And Community Structure Of Aerophytic Microalgae In A Tropical Limestone Cave (Gua Tempurung, Malaysia), Wan Maznah Wan Omar, Mohammad Basri Eshak, Luthfiana Aprilianita Sari, Zulaihat Hamza Abdullahi, Yusuf Abdullahi

International Journal of Speleology

Cave ecosystems host specialized phototrophic biofilms structured primarily by light availability, yet quantitative assessments of aerophytic microalgal community organization in tropical limestone caves remain limited. This study investigated spatial variation in the structure of aerophytic microalgal communities across four ecologically distinct zones (entrance, transition, penetration, and low light) of Gua Tempurung, Malaysia. Stratified sampling was conducted during three seasonal periods. Dominant phototrophic morphospecies were identified using microscopy, and community composition was analyzed in relation to key environmental variables. Twenty-three dominant microalgal morphospecies were recorded across the cave gradient. Cyanobacteria constituted the major component of both richness and abundance, followed by …

Environmental Tolerances And Habitat Association Of Three Endemic Crayfish Species In Texas, Andrew Walker

Biology Theses

Little is known about many of the 52 crayfish species in Texas. This thesis investigates physiological tolerances of three species endemic to the Jackson Vale ecoregion of Southeast Texas, the Bastrop crayfish (Procambarus texanus), Nueces crayfish (Procambarus nueces), and the Fayette’s crayfish (Procambarus fayettei) as well as the White River crayfish (Procambarus acutus), which is ubiquitous throughout East Texas. Thermal, hypoxia, and acidity tolerances were tested on wild caught individuals through laboratory assays. Findings from this study will inform wildlife managers of future conservation strategies relating to these endemic species.