Life Sciences Commons^™

Host-Pathogen Dynamics Underpinning Staphylococcus Aureus Growth During Intracellular Osteoclast Infection, Luke D. O'Connor

WUSM Theses and Dissertations – All Programs

Bone infection is most commonly caused by the gram-positive bacterium Staphylococcus aureus. It has myriad ways in which it can circumvent or subvert killing by the host or antibiotics. Intracellular infection is one such niche that is protective from immune and antibiotic attack. In 2019, Krauss and colleagues discovered that infected osteoclasts (OCs) allow S. aureus to replicate intracellularly. There they found that the ability of S. aureus to grow inside the cell was tied to OC differentiation. The magnitude of overnight bacterial expansion positively correlated with OC maturity and duration cultured with the osteoclastogenic factor RANK ligand (RANKL). Bacterial …

Profiling Arbutin As A Potent Cholinesterase And Gsk-3Β Inhibitor And Evaluating Its Cytotoxicity In Sh-Sy5y Cells For Alzheimer’S Disease Therapy, Shirin Tarbiat, Tuğba Bal, Deni̇z Gülmez

Turkish Journal of Biology

Background/aim: Alzheimer’s disease (AD) is a neurodegenerative disorder linked to cognitive decline and memory loss, marked by hyperphosphorylated tau tangles and decreased acetylcholine levels, which are affected by acetylcholinesterase (AChE) and butyrylcholinesterase (BuChE) activity. Glycogen synthase kinase-3 beta (GSK-3β) also plays a role in AD through abnormal activation. In this study, the potential of β-arbutin to inhibit cholinesterases and GSK-3β was investigated, utilizing in vitro assays, cytotoxicity analysis, and molecular docking simulations to explore its therapeutic implications.

Materials and methods: Ellman’s technique was used to test the inhibitory effects of arbutin on cholinesterase enzymes. An ATP-Glo luminescent assay kit was …

Probiotic Intervention In Colorectal Cancer: The Cytotoxic And Apoptotic Potential Of Lactobacillus Cell-Free Supernatants, Bahar Yilmaz, Berna Erdal

Turkish Journal of Biology

Background/aim: Failures in the treatment of colorectal cancer (CRC) have increased scientific interest in the potential of the bioactive compounds contained in cell-free supernatants (CFSs) obtained from probiotic bacteria for cancer treatment. The aim in this study was to investigate the effects of CFSs obtained from Lactobacillus delbrueckii subsp. bulgaricus (L. bulgaricus) and Lactobacillus paracasei subsp. paracasei (L. paracasei) on colorectal cancer cell lines (HT-29 and Caco-2) and a healthy colon epithelial cell line (CCD841 CoN).

Materials and methods: Cytotoxic effects on the cell lines were determined by MTT assay. In line with the IC50 values obtained, morphological changes were …

Antiatopic Dermatitis Activity Of Lissachatina Fulica Mucin: Network Pharmacology Analysis And Experimental Validation, Atin Supiyani, Wasmen Manalu, Lina Noviyanti Sutardi, Mawar Subangkit, Andriyanto Andriyanto

Turkish Journal of Biology

Background/aim: Lissachatina fulica mucin (LFM) has been used as a nutraceutical, therapeutic agent, and cosmetic ingredient. The bioactivity of mucin depends on bioactive compounds whose composition is strongly influenced by the snail’s diet. This study investigated the bioactive compounds in L. fulica mucin as potential therapeutic agents for atopic dermatitis (AD).

Materials and methods: LFM was collected from snails fed long beans and melon rinds for 4 weeks, freeze-dried, and analyzed using liquid chromatography–mass spectrometry followed by network pharmacology (NP) analysis to identify its bioactive compounds. A total of 60 BALB/c mice were sensitized on the dorsal skin with 1% …

The N-Terminal, Wd40, And C-Terminal Domains Of Wdr-31 Control Ciliary Localization And Cooperate With Elmod/Rp2 Gaps To Maintain Membrane Compartmentalization, Sebi̇ha Çevi̇k, Fatma Güzel

Turkish Journal of Biology

Background/aim: WD40 repeats are found in many ciliary proteins. Although the WD40 repeat-containing WD repeat-containing protein 31 (WDR-31) is known to regulate ciliary protein trafficking and morphology, the specific contributions of its N-terminal, WD40, and C-terminal domains to protein localization and ciliary gate integrity remain unclear. Aim of this study is to dissect the functional roles of WDR-31 domains by investigating their contributions to ciliary localization, ciliary protein trafficking, and gate integrity.

Materials and methods: Using CRISPR/Cas9 technology, we generated Caenorhabditis elegans strains with in-frame deletions that removed the N-terminus (WDR-31(ΔN)), WD40 (WDR-31(ΔWD)), and C-terminus (WDR-31(ΔC)). We next examined the …

Discovery And Functional Characterization Of Novel Programmed Death-Ligand 1 Monoclonal Antibodies, Nurşah Ersezen, Mai̇de Şeker, Arzu Aysan, Durmuş Akdoğan, Mehmet Ender Avci, Asli Kurden Pekmezci̇, Si̇bel Kalyoncu Uzunlar, Mehmet İnan, Tamer Yağci

Turkish Journal of Biology

Background/aim: Targeted therapies with monoclonal antibodies provide cancer patients with better prognosis and diseasefree survival. The blockade of immune checkpoints, including programmed cell death protein-1 (PD-1) and its ligand PD-L1, with monoclonal antibodies may boost immune responses against tumors and is regarded as an effective strategy in cancer immunotherapy. We describe the generation of anti-PD-L1 monoclonal antibodies with high affinity and specificity, and we assess their potential for therapeutic use in cancer.

Materials and methods: Hybridomas were selected for PD-L1 specificity and cross-reactivity with other immune checkpoint proteins and PD-L1 orthologs using indirect ELISA. Immunofluorescence and Western blotting assays were …

Rickettsia Africae Discovered In A Short-Term Urban Traveller To South Africa: A Case Report, Zunairah Sikder

Binghamton University Undergraduate Journal

Rickettsia Africae is a pathogen that causes African tick-bite fever (ATBF). Transmission typically occurs from ticks within the Central and South African regions. Previous studies suggested that ATBF is not uncommon amongst travelers to rural sub-Saharan Africa, especially during the rainy months of November through April. However, this case report highlights a woman who contracted ATBF in novel conditions. The 70-year-old woman reported travelling strictly to and from the local church and hotel for her four-day stay in July. After returning to America, the patient experienced extreme irritation on her arm, as well as complaints of headaches. She presented to …

A Message From The Managing Editor, Carissa Bayack

Binghamton University Undergraduate Journal

A message from the 2025-2026 Managing Editor of the Binghamton University Undergraduate Journal, Carissa Bayack.

Palmnet: Confidence-Calibrated Edge-Cloud Ai For Field Diagnosis Of Date Palm Diseases, Muntadher Kareem, Raed Majeed

Karbala International Journal of Modern Science

Date palm (Phoenix dactylifera L.) is a cornerstone crop for Iraq and the wider MENA region, yet reliable in-field diagnosis of leaf disorders remains slow, labour-intensive, and constrained by a limited pool of agronomists. This paper presents PalmNet, a full-stack diagnostic system that classifies nine leaf conditions through a calibrated edge-cloud framework. The system is developed and evaluated on a public dataset of 3,089 field images spanning the nine classes, using a 70/15/15 stratified split. A ShuffleNetV2 student network, distilled from a ConvNeXt-Tiny teacher, is deployed on two complementary edge endpoints: a Raspberry Pi Zero 2 W field station …

A New Species Of Liocheles Sundevall, 1833 (Scorpiones: Hormuridae) From The Western Himalayas, Virender К. Bhardwaj, Sunil Katal, H. T. Lalremsanga, Zeeshan A. Mirza

Euscorpius

Sampling in the Western Himalayas of India led to the discovery of a population of the genus Liocheles Sundevall, 1833, that differes from all Indian congeners. Molecular and morphological data confirmed the distinctiveness of the population, which is here described as a new species. The new species is morphologically similar to L. longimanus (Werner, 1939), from which it differs in the arrangement of trichobothria on external patella and structure of the hemispermatophore. A preliminary molecular phylogeny of the family Hormuridae based on the mitochondrial cytochrome oxidase I gene is presented.

Correlation And Redundancy Analysis Of Statistical Features For Permanent Magnet Synchronous Motor Fault Detection, Ibrahim Muhammad, Benjamin Olabisi Akinloye

Mansoura Engineering Journal

Feature selection plays a critical role in designing efficient and interpretable condition monitoring frameworks for electrical drives. In this paper, a correlation analysis of statistical and spectral features is performed for Permanent Magnet Synchronous Motor (PMSM) fault detection in naval windlass systems. Using both simulated data from a MATLAB/Simulink model and real shipboard current signals acquired from five Nigerian Navy vessels over one-month monitoring periods, higher-order statistical moments (Mean, Variance, Standard Deviation, Skewness, Kurtosis) and the Fault Severity Index (FSI) were computed alongside Total Harmonic Distortion (THD). Pearson correlation coefficients were employed to quantify feature relationships under healthy and faulty …

Numerical Parametric Assessment Of Lap-Spliced Reinforced Concrete Beams With Steel, Gfrp, And Hybrid Reinforcement, Salah Mohsen, Mohamed H. Makhlouf, Marwa I. Badawi, Gamal Ismail

Mansoura Engineering Journal

This study presents a numerical parametric investigation into the flexural performance of reinforced concrete beams incorporating different reinforcement types and lap splice configurations, based on finite element modeling using ABAQUS and benchmarked against ACI 440 design provisions. Sixteen beam models were developed and analyzed under four-point bending to evaluate the influence of reinforcement type (steel, GFRP, and hybrid), splice length, and number of spliced bars on the global structural response. The results indicate that splice detailing plays a governing role in controlling failure mode and ductility. Beams without lap splices exhibited enhanced ductile behavior, whereas shorter splice lengths and higher …

Modeling The Clonal Rosette Composition Of A Bromeliaceae Genet: A Combinatorial Approach, Layla K. Lammers, Erin N. Bodine

Spora: A Journal of Biomathematics

Bromeliaceae, a neo-tropical plant family encompassing over 3,000 species, exhibit two modes of reproduction: sexual reproduction via flowers and seeds, and asexual reproduction via genetically identical clonal rosettes. The vegetative bodies of bromeliads form rosettes with new leaves emerging from the center and clonal rosettes emerging above a single leaf in the rosette, resulting in a genetic individual consisting of a seed-grown rosette and multiple iterations of clonal rosettes. This research develops a combinatorial model of probability that a single genetic individual will include at least n clonal rosettes when a single rosette can produce at most 1 or 2 …

Robust Soil Moisture Content Detection Based On Data Augmentation Under Different Testing Conditions, Yang Li, Chenghao Liu, Jing Nie, Jingbin Li

Turkish Journal of Agriculture and Forestry

Accurate and cost-effective monitoring of soil moisture content is essential for the development of precision agriculture and the optimization of water resource management. While low-frequency acoustic signals are used to detect soil moisture content, models trained with controlled laboratory acoustic data often exhibit significant performance degradation with field data due to their sensitivity to environmental noise, soil heterogeneity, and structural variations. This study proposes a novel framework to enhance model robustness and generalization by integrating a WGAN-GP network data augmentation strategy into the soil moisture content workflow. This framework is designed to generate high-quality and diverse data on different soil …

An In-Depth Study Of Fruit Preservation: Effect Of Calcium Chloride And Methyl Jasmonate Applications On Quality And Biochemical Properties Of Cherry Fruits During Cold Storage, Muhammet Ali̇ Gündeşli̇

Turkish Journal of Agriculture and Forestry

Sweet cherry (Prunus avium L.) is a highly perishable fruit that undergoes rapid quality deterioration during postharvest storage. This study evaluated the effects of postharvest applications of Methyl Jasmonate (MeJA, 1 mM) and Calcium Chloride (CaCl₂, 2%), applied individually and in combination, on maintaining the quality and biochemical properties of cherries during 21 days of cold storage at 0 ± 1 °C. Key parameters including weight loss, decay rate, soluble solids content (SSC), pH, titratable acidity, respiration rate, phenolic profile, and organic acid composition were monitored. The combined MeJA + CaCl₂ treatment was consistently more effective than individual applications in …

Estimation Of Genetic Parameters In Lemon-Scented Basil (Ocimum Basilicum L.) Lines, Erdi̇nç Günay, İsa Telci̇

Turkish Journal of Agriculture and Forestry

Selective breeding of basil (Ocimum basilicum L.) is primarily aimed at improving plant architecture and essential oil quality, which are critical factors in increasing yield. In lemon-scented basil, the citral component responsible for the intense lemony aroma has significant commercial value in the cosmetics and perfumery industries. This study aimed to evaluate the genetic variability, heritability, and genetic advance of nine agronomic and quality related traits in lemon basil lines, and to explore the interrelationships among these traits. The phenotypic coefficient of variation (PCV) was higher than the genotypic coefficient of variation (GCV) for all traits, suggesting the influence of …

Landscape Character Analysis And Assesment At Local Scale, Eli̇f Önal, Serkan Özer

Turkish Journal of Agriculture and Forestry

​Landscape areas are one of the most important elements of human life all over the world. Varied landscape areas are a valuable natural resource and have high cultural value. The first step to ensure the effective landscape use is to identify these areas, analyze them in detail, and determine their characteristics. The northeastern Anatolia region in Türkiye has a rich diversity of landscapes because of varied geographic, climatic, and topographic features. The aim of this study was to identify the landscape character types in the Tortum district, located in the Tortum River basin in northeastern Türkiye, and to assess the …

Sewage Sludge Legislation In Central Europe: Contamination Concerns And Cross-Border Comparisons, Valerie Vranová, Aleš Kučera, Vlastimil Skoták, Erika Fialová, Rahul Datta

Turkish Journal of Agriculture and Forestry

Sewage sludge management represents a major challenge in Europe, carrying significant environmental and legal implications that require strong regulatory enforcement. Here, we explore the legislative measures, technological developments, and environmental impacts of sewage sludge management in Central Europe (Czechia, Slovakia, Germany, Austria, and Poland). Sludge management is regulated at the EU level through a series of directives (e.g., Council Directive 86/278/EEC, which forms the basis of national regulatory frameworks). However, national adaptations vary considerably: Croatia and Slovenia have invested in sludge phosphorus-recovery systems, while Poland and Slovakia have focused on the agricultural use of sludge as a fertilizer. Several countries, …

Crispr-Cas9: An Emerging And Precise Genome Editing System For Crops To Combat Food Insecurity, Muhammad Faran Tahi̇r, Muhammad Hamzah Saleem, Sidra Aslam, Emi̇ne Orhan, Hayat Topçu, Tauqeer Ahmed Qadri, Khalid Ali Khan, Muhammad Anas

Turkish Journal of Agriculture and Forestry

Genome editing has emerged as a transformative tool to improve crop productivity, resilience, and nutritional quality, helping address global food insecurity. Among gene-editing platforms, clustered regularly interspaced short palindromic repeats (CRISPR)/ Cas systems (notably CRISPR-Cas9) offer simple, efficient, and scalable methods for targeted modifications, including knockouts, base edits, and precise “search-and-replace” prime edits. In plants, recent advances such as improved base editors, optimized prime-editing platforms, and DNA-free delivery methods have expanded the scope of edits achievable while reducing off-target effects and regulatory concerns. This review summarizes CRISPR principles, highlights technical breakthroughs and crop applications that mitigate biotic and abiotic stresses, …

In Vitro Propagation Of A New Clonal Apple Rootstock Candidate Hatay, Zeynep Nas, Ahmet Eşi̇tken, Lütfi̇ Pirlak

Turkish Journal of Agriculture and Forestry

​Some clonal apple rootstocks are traditionally propagated using the layering technique. However, traditional propagation methods are seasonal and require a lot of space and labor. In addition, the multiplication rate is low with these methods, resulting in low-profit sapling production for growers. In vitro propagation techniques provide an efficient and effective method of obtaining species-appropriate, quality saplings in less time and space. The study aims to determine the in vitro propagation protocol of the Hatay genotype and to establish an appropriate method. In the study, the highest number of shoots was observed in media containing BA and mT at concentrations …

Cultivar, Canopy Architecture, And Harvest Stage Shape The Chemical Profile Of Plum (Prunus Domestica) Fruit, Jelisaveta Seka Cvijanović, Milica Sredojević, Dragana Dabić Zagorac, Maja Natić, Geza Bujdoso, Miljan Cvetković

Turkish Journal of Agriculture and Forestry

Plum (Prunus domestica L.) is a nutritionally valuable fruit with significant commercial importance, yet consumer acceptance is often constrained by inconsistent fruit quality. This study investigated the effects of cultivar, training system, and harvest stage on the chemical composition of plum fruit, focusing on polyphenols, organic acids, sugars, and sugar alcohols. Three cultivars (Čačanska lepotica, Stanley, and Empress) were evaluated under different canopy architectures, including plum spindle as a control and novel 2-dimensional systems (Bi axe and upright fruiting offshoot), across multiple ripening stages. The results showed that genotype and canopy structure significantly influenced the accumulation of primary and secondary …

Enhancing Salinity Tolerance In Phyla Nodiflora L. With Potassium Humate: Crosstalk Between Osmolytes, Antioxidants, And Mineral Uptake, Fatemeh Sadeghi, Somayeh Esmaeili, Mehrangiz Chehrazi

Turkish Journal of Agriculture and Forestry

Salinity stress impairs plant growth, nutrient homeostasis, and metabolism, particularly in arid ecosystems. Phyla nodiflora, a ground cover used for erosion control, shows preliminary salinity tolerance, but the mechanistic basis of its long-term adaptation and the potential for enhancement via potassium humate (KH) were unknown. Plant growth, key biochemical attributes, and nutrient uptake were assessed to elucidate how KH modulates physiological performance under increasing salinity. In a 129-day greenhouse experiment, plants were exposed to five salinity levels (0 to 16 dS m⁻¹ NaCl) and three KH concentrations (0, 500, and 1000 mg L⁻¹). Severe salinity (16 dS m⁻¹) without KH …

Distribution And Seasonal Prevalence Of Nosema Maddoxi (Microsporidia: Nosematidae) In The Brown Marmorated Stink Bug, Halyomorpha Halys (Hemiptera: Pentatomidae) Populations In Türkiye, Ömer Ertürk, Samet Eker, Mustafa Yaman, Gönül Algi

Turkish Journal of Agriculture and Forestry

The brown marmorated stink bug, Halyomorpha halys feeds on a wide range of crops and causes major economic losses. With its high flight capacity, H. halys is an invasive species that damages many crops worldwide. By elucidating the activity, distribution, and prevalence of the microsporidian pathogen Nosema maddoxi, the damage and economic losses caused by H. halys can be reduced. This study aimed to assess the distribution and seasonal prevalence of N. maddoxi in H. halys populations distributed throughout hazelnut fields the Eastern Black Sea Region of Türkiye. H. halys adults were collected and examined in detail under the microscope …

Genetic Algorithm For Agricultural Logistics Optimization: Solving The Capacitated Vehicle Routing Problem In Rural Distribution, Min Song, Kan Lu

Turkish Journal of Agriculture and Forestry

With the rapid advancement of agricultural modernization and the increasing demand for agricultural products, inefficient logistics distribution has become a major bottleneck in rural supply chains. This study addresses the capacitated vehicle routing problem (CVRP) in agricultural logistics. A genetic algorithm (GA)-based optimization model was proposed to enhance distribution efficiency. The model integrates critical agricultural characteristics, including multidistribution center networks, seasonal delivery schedules, and regional road infrastructure constraints, to minimize both transportation distance and operational costs. Experimental results show that the GA outperforms traditional metaheuristic methods (e.g., particle swarm optimization and simulated annealing), achieving a >5 km reduction in total …

Genetic Diversity And Population Structure Of Carob Germplasm From Lebanon, Morocco, And Spain Reveal Potential For Innovative Breeding Programs, Mohamad Ali El Chami, Guillermo Palacios-Rodriguez, Rafael Maria Navarro-Cerrillo, Lamis Chalak, Maria Dolores-Rey

Turkish Journal of Agriculture and Forestry

The carob tree (Ceratonia siliqua L.) is a drought-tolerant species native to the Mediterranean Basin. It has been cultivated for centuries for its highly nutritious, edible pods. Genetic diversity is one of the key requirements for the effective management and utilization of plant genetic resources. In this study, we evaluated the genetic diversity and population structure of 169 seminatural carob individuals from Lebanon, Spain, and Morocco using nine expressed sequence tag-simple sequence repeat (EST-SSR) markers. A total of eight polymorphic EST-SSR loci produced 43 alleles, with Cesi_187 and Cesi_1187 identified as the most informative markers. Results of AMOVA and SAMOVA …

Molecular Characterization Of Pasteurella Multocida Capsular Type A Strains Isolated From Different Regions Of Anatolia, Türkiye​, Adam Bashir Tawor, Osman Ergani̇ş, Asli Balevi̇, Suliman Mohamed Yousof Sadam

Turkish Journal of Veterinary & Animal Sciences

Pasteurella multocida serotype A is an important pathogen that causes respiratory illness in both farm animals and poultry, leading to severe economic losses worldwide. This study aimed to isolate P. multocida capsular type A (capA) as well as investigate the virulence-associated genes (VAGs) within the isolates. Samples (n = 250) were collected in the Anatolia region from cattle (n = 130), sheep (n = 70), goats (n = 45), and pet birds (n = 5) with clinical respiratory signs. Polymerase chain reaction (PCR) assays were conducted using kmt1 and capA primers for P. multocida species identification and capsular serogroup A …

Trace Elements In Complete Feeds Used In Intensive Rearing Of Cattle, Poultry, And Pigs: Occurrence And Predicted Transferred Concentrations In Animal-Derived Food, Elizabeta Dimitrieska Stojkovikj, Vangelica Enimiteva, Aleksandra Angjeleska, Risto Uzunov

Turkish Journal of Veterinary & Animal Sciences

This study investigated the concentrations of essential (Zn, Cu, Mn, Co, and Mo) and toxic (Pb, Cd, As, and Hg) trace elements in complete feeds used for the intensive rearing of cattle, poultry, and pigs in North Macedonia and predicted their transfer into animal-derived foods. A total of 107 feed samples were collected from 40 farms between May 2023 and April 2024 and analyzed using inductively coupled plasma mass spectrometry. The results revealed that while most essential elements were within the regulatory limits, Co exceeded the maximum level in two cattle feed samples. Zn, Cu, and Mn levels were generally …

Effect Of Rangeland Quality On Rumen Development Of Angora (Mohair) Goat Kids And Bucks, Betül Zehra Sariçi̇çek

Turkish Journal of Veterinary & Animal Sciences

This study was conducted to determine the effect of rangeland quality on the rumen development of Angora goat kids and bucks. Twenty male singleton Angora goat kids with similar birth dates and birth weights were selected from each farm in an area with three different rangeland quality levels (good, medium, or poor) in Ankara Province. The kids were weaned at 60 days of age and then grazed completely on rangeland until slaughter. Rumen volumetric and papillary development of animals slaughtered at 4 and 7 months of age were determined. Empty rumen length, width, and weight were affected by rangeland quality …

Arterial Architecture Of The Goat Spleen (Capra Hircus) Revealed By Corrosion Casting And Scanning Electron Microscopy, Baran Erdem, Sevi̇nç Ateş, Meryem Karan

Turkish Journal of Veterinary & Animal Sciences

The spleen is an essential organ involved in hematopoietic and immune functions. A comprehensive understanding of its anatomy, including vascular topography and segmentation, is essential for the accurate diagnosis and treatment of splenic diseases, and the minimization of complications during surgical procedures. Detailed knowledge of the vascular architecture also supports the accurate prediction and management of hemorrhage severity in cases of splenic rupture. The spleen’s microvascular system has a unique and complex organization that is distinct from other organs, and its elucidation is critical for understanding splenic function. In the present study, the spleens of 20 hair goats were examined. …

Hard Palate Morphology In The Anatolian Water Buffalo (Bubalus Bubalis), Mehmet Can, Şükrü Hakan Atalgin, Mehmet Faruk Aydin, Soner Bekmezci̇

Turkish Journal of Veterinary & Animal Sciences

This study aimed to examine the morphological and histological features of the hard palate in the Anatolian water buffalo through light and scanning electron microscopy, complemented by gross and morphometric evaluations. Eight hard palates were used in the study. A total of eight Anatolian water buffalo heads from healthy adult female water buffaloes were collected immediately after slaughter from various slaughterhouses in Balıkesir, Türkiye. After analyzing and identifying the obtained hard palate samples, measurements were taken and documented through photography. The papilla incisiva, located in the middle of the caudal concave edge on the ventral surface of the pulvinus dentalis, …