Digital Commons Network^™

Hippocampal “Timing Interval Cells” Exhibit Scalable Dynamics For Explicit Timing, Kori-Anne Citrin

Electronic Theses and Dissertations

The ability to organize experiences in time is fundamental to episodic memory and enables animals to predict and guide future behavior. Hippocampal time cells are thought to provide a neural representation for the temporal component of memory. However, time cells have been observed in working memory tasks where animals were not required to keep track of elapsed time. Therefore, it remains unclear what are the hippocampal patterns of activity during explicit timing. Here, utilizing behavioral perturbations and calcium imaging in dorsal CA1, we identified a previously unknown pyramidal neuron subpopulation that flexibly scales its activity during explicit timing. As head-fixed …

Cytotoxicity Of Bioactive Peptides From Cowpea (Vigna Unguiculata L. Walp) Against Breast Cancer Cells (Mcf-7), Dian R. Ningsih, Zusfahair Zusfahair, Ely Setiawan, Purwati Purwati, Kasta Gurning, Fitri A. Puspita Sari, Elya Widiawati

Karbala International Journal of Modern Science

Cancer is characterized by dysregulated metabolic signaling pathways, leading to uncontrolled cellular proliferation. Current cancer treatments, which involve surgery, radiotherapy, and chemotherapy, still cause adverse systemic toxicities. Accordingly, one possible effort that can be undertaken is to explore safe anticancer substances from protein sources such as peptides. Bioactive peptides can be isolated by hydrolyzing cowpea (Vigna unguiculata L. Walp) protein with trypsin. The objectives of this study were to isolate and fractionate bioactive peptides from cowpea, to determine the anticancer activity of peptide fractions, to identify active peptide fractions as anticancer agents using Liquid Chromatography High Resolution Mass Spectrometry …

In Vivo Expression Profiling Of Listeria Monocytogenes Internalins (Inlf, Inlp, Inlj) And Their Corresponding Host Receptors (Vim, Afdn, Muc2) Using A Rabbit Ligated Intestinal Loop Model, Nawar Al-Janabi, Nadhim Mushtaq Hashim Al-Bderee, Zahraa M. Madania, Mohanad Jawad Kadhim

Karbala International Journal of Modern Science

Listeria monocytogenes is a Gram-positive pathogen that causes severe infections, particularly in immunocompromised individuals. Internalin genes are important virulence factors that facilitate the bacterium's invasion of host cells. This research aimed to quantify in vivo expression of selected internalin genes (inlF, inlP, and inlJ) and their corresponding host receptors (VIM, AFDN, and MUC2) during L. monocytogenes infection. To achieve this aim, a rabbit ligated intestinal loop model was constructed comprising two intestinal loops. The first loop was injected with 1 mL of L. monocytogenes (1 × 10⁷ CFU/mL), while the second loop was injected with 1 mL of PBS as …

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 …

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 …

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 …

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

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 …

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 …

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 …

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 …

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. …

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 …

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.

Investigating The Role Of Cellular Senescence On Vestibular Dysfunction In Repetitive Mild Traumatic Brain Injury, Michael Volyanyuk

Dissertations

Vestibular dysfunction is a prevalent and persistent consequence of mild traumatic brain injury (mTBI). Clinical reports reveal that women experience vestibular deficits more frequently than men following mTBI. Despite the high prevalence and debilitating nature of vestibular symptoms, preclinical literature evaluating mTBI-associated vestibular impairments is limited. Emerging evidence demonstrates that cellular senescence is involved in the pathological molecular sequela of mTBI. It has been shown that senescence contributes to cognitive deficits following repetitive mTBI (rmTBI); however, its role in rmTBI-associated vestibular dysfunction remains unexplored. This body of work investigated the role of cellular senescence on rmTBI-induced vestibular dysfunction in both …

Molecular Identification Of Cryptococcus Albidus Isolated From A Gingivitis Infection In A Male From Karbala City, Iraq, Maysaa Taqi Al-Khazali, Zahraa Raheem Murshidy, Sarah Kadhim Al-Rahimy, Sura Abd Ali Kadhim Mohammed, Dhuha Ali Hussein

Karbala International Journal of Modern Science

The current study presents a case of gingivitis caused by Cryptococcus albidus in a 35-year-old male from the city of Karbala in Iraq. This fungal species was identified via morphology, microscopy, additionally to the VITEK system. C. albidus was further confirmed using the polymerase chain reaction (PCR) technique by amplifying the 18S rRNA gene as a universal primer and sequencing. Sequences analysis revealed that this strain of C. albidus had not been previously documented in the NCBI database. Hence, the newly obtained sequences were submitted to the GenBank repository and assigned the accession number OQ975882.1, marking the first report of …

History And Distribution Of The Dark Ibises (Glossy Ibis Plegadis Falcinellus And White-Faced Ibis P. Chihi) In Arkansas, R. Tumlison, P. D. Rodriguez

Journal of the Arkansas Academy of Science

The Glossy Ibis (Plegadis falcinellus) and White-faced Ibis (P. chihi) sometimes are reported simply as Dark Ibises due to difficulty in identifying them when mature characters are not clearly visible. We evaluated reports verified on citizen science websites to examine the origins and distributions of these migratory species in Arkansas. The Glossy Ibis was first documented in Arkansas in 1956, has been reported in 21 of our 75 counties, and is found more commonly in eastern Arkansas. The White-faced Ibis was first reported in Arkansas in 1971, has been reported in 41 of our 75 counties, …

History And Distribution Of Great-Tailed Grackles (Quiscalus Mexicanus) In Arkansas, R. Tumlison, V. Andersen

Journal of the Arkansas Academy of Science

Great-tailed Grackles (Quiscalus mexicanus) were reported first in southwestern Arkansas in 1969, were nesting there in 1977, and established a resident population by 1980. Nesting was reported in far northwestern Arkansas in 1986. Presently, the species is known from 44 of Arkansas’s 75 counties, those mostly in the western and central counties. Most individuals appear to be migratory, with most reports occurring in April and May. However, breeding and now resident populations have been reported in the southwestern, northwestern, and central counties, particularly in urban areas. Birds are very commonly reported to forage at fast-food establishments and truck …

Promiscuous Mutualisms: John Dupré And The Centrality Of Symbiosis In The Living World, Thomas Pradeu

Presidential Fellows Articles and Research

My goal in this chapter is to show that symbiosis, especially symbiotic interactions between ‘macrobes’ (non-microbial organisms) and microbes, is a central topic in John Dupré’s work. This topic is undeniably one of the topics by which Dupré has gained wide recognition among practicing scientists, in addition to his recognition within the philosophical community. I spell out why symbiosis has turned out to be a sort of ideal trope for Dupré, as it encapsulates many of his main personal themes—from promiscuous realism to process ontology. I then show that immunology offers one interesting and complementary entry point into microbial symbiosis …

Humans Rule? Development Of Stewardship Mindsets Among Religious Undergraduates, Jamie Jensen, J Robert Nielson

ScholarsArchive Data

Two cohorts of students enrolled in a non-major introductory biology course were surveyed in 2020 and 2025 using the Revised New Ecological Paradigm (R-NEP) instrument. Open-ended student responses concerning their definition of ‘rule’ as a human prerogative were also analyzed using qualitative coding.

Assessing The Effectiveness Of Wetland Reserve Easements As Habitat For Birds In The Mississippi Alluvial Valley Of Eastern Arkansas, Colin K. Dobson

Student Theses and Dissertations

Globally, wetland habitats suffered major declines during the 20th century. In the 1990s, the United States government created the Wetland Reserve Program (later consolidated into the Agricultural Conservation Easement Program), to combat the loss of wetlands. Despite success in attracting landowners, minimal monitoring of properties enrolled into the program (easements) has occurred. In this study, we monitored avian communities at easements, compared avian diversity at easements to agriculture and bottomland forests, and quantified microhabitat, site-specific, and surrounding landscape features at easements. We also studied the demographic rates of an indicator species of bottomland forests, the Prothonotary Warbler (Protonotaria citrea) at …

Small Rna Sequencing Identifies Tsrna-05020 As A Potential Regulator Of Cervical Cancer Progression, Cheng Peng, Cong Liang, Jie Liu, Yunlu Liu, Ping Liu

Turkish Journal of Biology

Background/aim: Cervical cancer (CC) is a malignant gynecologic tumor. Small RNAs derived from tRNA (tsRNAs) have been reported to play regulatory roles in tumor progression and suppression. However, the functional role of tsRNAs in CC remains largely unclear.

Materials and methods: Small RNA sequencing was performed on normal, cervical intraepithelial neoplasia (CIN), and CC clinical cell samples to identify differentially expressed tsRNAs (DEtsRNAs). qRT-PCR was used to validate the selected DEtsRNAs. The effects of tsRNA-05020 on HeLa cell proliferation, apoptosis, and epithelial-to-mesenchymal transition were assessed.

Results: Compared with the normal group, 215 tsRNAs were significantly differentially expressed in CIN tissues, …

Retinoic Acid-Loaded Nanoparticles Enhance Macrophage-Mediated Control Of Leishmania Infantum, Zeynep İşlek, Merve Gündoğdu, Zeynep Di̇la Yüksel

Turkish Journal of Biology

Background/aim: Visceral leishmaniasis, primarily caused by Leishmania infantum, remains a major global health challenge due to limitations in current chemotherapeutic options, including toxicity and emerging drug resistance. Host-directed therapeutic approaches are increasingly recognized as promising alternatives. All-trans retinoic acid (ATRA) is an immunomodulatory molecule with host-dependent effects on macrophage function; however, its therapeutic use is hindered by instability and poor solubility. Solid lipid nanoparticles (SLNs) offer a controlled and biocompatible delivery platform capable of enhancing intracellular drug accumulation.

Materials and methods: ATRA-loaded SLNs were prepared and characterized for size, polydispersity index, zeta potential, and morphology. Their antileishmanial activity was evaluated …

Nutrient Uptake Of Two Microalgae From Culture Medium Under Nickel Treatment, Di̇lara Erdaği, Büşranur Şeker, Celal Caner, Gi̇zem Çeti̇n, Hüseyi̇n Altundağ, Hati̇ce Tunca

Turkish Journal of Biology

Background/aim: Phycoremediation is essential for purifying wastewater of heavy metals to ensure a sustainable environment, as these components can be detrimental to organisms upon entering the food chain. Among heavy metals, nickel is vital at low concentrations due to its presence in the active sites of many metalloenzymes in algae. However, at high concentrations, it disrupts the functioning of many metabolic reactions. This study examines the effects of nickel treatment on the uptake of macro- and micronutrients in medium by algae via ion exchange pathways or in competition with other metals. The study aims to determine the effects of nickel …