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Innovative Approaches To Estimating Sessile Oak Stem Volume: Comparing Additive Models And Ensemble Machine Learning, Maria J. Diamantopoulou, Abbas Şahi̇n, Ramazan Özçeli̇k Aug 2025

Innovative Approaches To Estimating Sessile Oak Stem Volume: Comparing Additive Models And Ensemble Machine Learning, Maria J. Diamantopoulou, Abbas Şahi̇n, Ramazan Özçeli̇k

Turkish Journal of Agriculture and Forestry

Sessile oak is an important deciduous forest tree species across Türkiye and Europe. Estimating individual tree and stand volumes is essential for growth and yield models, as these predictions play a critical role in assessing forest management, economics, and fire risk. In pursuit of this goal, nonlinear seemingly unrelated regression (NSUR) was used for the simultaneous fitting of stem volume components, and compared to three ensemble machine learning techniques: gradient boosting regression (GBr), XGBoost regression (XGBr), and random forest regression (RFr). NSUR accounts for correlations between error terms across different equations, leading to more efficient parameter estimates than if each …


Effects Of Storage Temperatures On Quality And Phytochemical Properties Of The Hawthorn (Crataegus Azarolus L.) During Storage And Shelf Life, Ahmet Erhan Özdemi̇r, Oğuzhan Çalişkan, Safder Bayazit, Kazi̇m Gündüz, Nurdan Tuna Güneş, Zafer Karaşahi̇n, Derya Kiliç, Ramazan Bestami̇ Karahan Aug 2025

Effects Of Storage Temperatures On Quality And Phytochemical Properties Of The Hawthorn (Crataegus Azarolus L.) During Storage And Shelf Life, Ahmet Erhan Özdemi̇r, Oğuzhan Çalişkan, Safder Bayazit, Kazi̇m Gündüz, Nurdan Tuna Güneş, Zafer Karaşahi̇n, Derya Kiliç, Ramazan Bestami̇ Karahan

Turkish Journal of Agriculture and Forestry

This study aimed to investigate the effects of storage temperature on the quality and phytochemical characteristics in Sultan hawthorn cultivar during cold storage and shelf life. Fruits were stored at 0 ± 0.5 °C and 4 ± 0.5 °C and 90 ± 5% relative humidity (RH) for 6 months in cold storage and were analyzed every month. In addition, hawthorn fruits were kept at 20 ± 0.5 °C and 75 ± 5% RH for 7 days, and their shelf life was investigated at monthly intervals. Weight loss, appearance, the incidence of physiological disorders and fungal decay, fruit skin color, firmness, …


Monitoring The Developmental Stages Of Calendula Officinalis L. Nutrients Efficacy Under Hot Weather Mitigation Through Nutrients In Haripur, Pakistan, Waseem Ahmed, Rafia Azmat, Shah Masaud Khan, Abdul Qayyum, Waseem Hassan, Adnan Noor Shah, Muhammad Hadi Abbas, Fatima M. Abbas, Tahani A.Y. Asseri, Ahmet Hakan Ürüşan Aug 2025

Monitoring The Developmental Stages Of Calendula Officinalis L. Nutrients Efficacy Under Hot Weather Mitigation Through Nutrients In Haripur, Pakistan, Waseem Ahmed, Rafia Azmat, Shah Masaud Khan, Abdul Qayyum, Waseem Hassan, Adnan Noor Shah, Muhammad Hadi Abbas, Fatima M. Abbas, Tahani A.Y. Asseri, Ahmet Hakan Ürüşan

Turkish Journal of Agriculture and Forestry

This study examines the effect of different doses of N and P fertilizer on Calendula officinalis L. (marigold) during the hot weather in summer (May–July) in Pakistan. The aim was to determine whether fertilization can help minimize the impacts of climate change. During the summer peak seasons (May, June, and July), the trial was conducted in potted plants with different N and P application levels to monitor the quality and quantity of C. officinalis. The results showed that the interactive effects (N × P) gave higher values for plant height, number of leaves, fresh weight, leaf length, and number of …


Chemical Weed Control Strategies For Sweet Corn In Türkiye’S Diverse Production Areas, Zübeyde Fi̇li̇z Arslan, Ahmet Uludağ, Hüseyi̇n Güngör, Ti̇muçi̇n Taş, Emi̇ne Aydin, Martin M. Williams Ii Aug 2025

Chemical Weed Control Strategies For Sweet Corn In Türkiye’S Diverse Production Areas, Zübeyde Fi̇li̇z Arslan, Ahmet Uludağ, Hüseyi̇n Güngör, Ti̇muçi̇n Taş, Emi̇ne Aydin, Martin M. Williams Ii

Turkish Journal of Agriculture and Forestry

Sweet corn production in Türkiye is failing to match growing demand from consumers and the food industry. Weeds severely limit sweet corn production, yet only a single herbicide is registered in Türkiye. Due to labor costs, hand weeding is no longer affordable and growers are demanding cost-effective weed control strategies for sweet corn production. Nine treatments including preemergence (PRE) and/or postemergence (POST) herbicides were tested across the country’s diverse growing environments. Compared to the weedy control, all treatments increased the number of marketable ears. Only two treatments—s-metolachlor plus terbuthylazine followed by isoxaflutole plus cyprosulfamide plus theincarbazone-methyl and dimethenamid followed by …


Design And Structural Optimization Of Acceleration Pipe For Mhd Accelerated Jujube Air-Suction Harvester, Yi Wang, Jing Nie, Jingbin Li, Longpeng Ding, Xuewei Chao, Xianfei Wang Aug 2025

Design And Structural Optimization Of Acceleration Pipe For Mhd Accelerated Jujube Air-Suction Harvester, Yi Wang, Jing Nie, Jingbin Li, Longpeng Ding, Xuewei Chao, Xianfei Wang

Turkish Journal of Agriculture and Forestry

The combination of magnetohydrodynamic (MHD) acceleration technology and the negative pressure suction principle ensures the effective lifting and transport of jujube fruits, addressing the challenges of traditional harvesting methods and providing a new solution for improving jujube harvesting efficiency. This study focuses on the impact of key parameters, including pipe diameter, electrode plate length, and electrode positioning, on the performance of the MHD acceleration pipe through numerical simulations. The structural optimization of the MHD acceleration pipe in the air-suction jujube harvester aims to enhance airflow acceleration efficiency. The results from both numerical simulations and experimental studies indicate that: 1) a …


Exploring The Genetic Diversity And Population Structure Of Serbian And Selected European Bread Wheat Cultivars Through Ipbs-Retrotransposon Markers, Rada Šućur, Amjad Ali, Parnaz Mortazavi, Muhammad Tanveer Altaf, Muhammed Tatar, Muhammad Azhar Nadeem, Bojan Jocković, Velimir Mladenov, Sotirios Fragkostefanakis, Yong Suk Chung, Faheem Shehzad Baloch Aug 2025

Exploring The Genetic Diversity And Population Structure Of Serbian And Selected European Bread Wheat Cultivars Through Ipbs-Retrotransposon Markers, Rada Šućur, Amjad Ali, Parnaz Mortazavi, Muhammad Tanveer Altaf, Muhammed Tatar, Muhammad Azhar Nadeem, Bojan Jocković, Velimir Mladenov, Sotirios Fragkostefanakis, Yong Suk Chung, Faheem Shehzad Baloch

Turkish Journal of Agriculture and Forestry

Bread wheat is a globally vital crop, sustaining millions and contributing to food security. The present study investigated the molecular characterization of 60 bread wheat accessions, using 12 interprimer binding site (iPBS) retrotransposon markers, which yielded a total of 260 distinct bands. Out of the 260 bands, 42 were monomorphic while the remaining 218 (83.84%) were polymorphic, with polymorphism information content values ranging from 0.38 to 0.45. Genetic diversity indices, including Shannon’s information index (I = 0.01–0.53), effective number of alleles (Ne = 1.00–1.63), gene diversity (He = 0.0037–0.36), and marker index (MI = 0.31– 0.51), revealed moderate variability across …


The Status Of Agritourism In Bosnia And Herzegovina, Nerma Čolaković-Prguda, Jasna Hasanbegović, Irma Đidelija Čolaković, Lejla Škaljić, Nuray Demi̇r Aug 2025

The Status Of Agritourism In Bosnia And Herzegovina, Nerma Čolaković-Prguda, Jasna Hasanbegović, Irma Đidelija Čolaković, Lejla Škaljić, Nuray Demi̇r

Turkish Journal of Agriculture and Forestry

Agritourism in Bosnia and Herzegovina has a lot of potential benefit for economic growth and sustainable development in rural regions, as it incorporates local culture and natural beauty into the tourism offerings of the region. Tourism creates opportunities to diversify the economy, retain traditions, improve local income, and protect natural resources. This study covered Međugorje, Ilijaš, Rostovo, Vlašić, Bosanska Krupa, Neum, Olovo, Gornji Vakuf, Sarajevo, and Donji Vakuf. Agritourism can provide authentic experiences like learning about traditional agriculture, fruit harvesting, tasting local products, and environmental preservation in destinations like Međugorje and Neum. Ilijaš and Gornji Vakuf have potential in organic …


Insights From Multivariate Analysis Of Seed Vigor Traits In Rapeseed And Mustard (Brassica Spp.) Genotypes, Ayushi Yadav, Shiv Kumar Yadav, Ravish Choudhary, Sushma Mudlupura Kumar, Anbalagan Anumantharaj, Rakesh Bharadwaj, Rashmi Yadav, Yashpal Taak, Navinder Saini, Sneha Adhikari, Sangita Yadav Aug 2025

Insights From Multivariate Analysis Of Seed Vigor Traits In Rapeseed And Mustard (Brassica Spp.) Genotypes, Ayushi Yadav, Shiv Kumar Yadav, Ravish Choudhary, Sushma Mudlupura Kumar, Anbalagan Anumantharaj, Rakesh Bharadwaj, Rashmi Yadav, Yashpal Taak, Navinder Saini, Sneha Adhikari, Sangita Yadav

Turkish Journal of Agriculture and Forestry

Rapeseed and mustard (Brassica spp.) are critical oilseed crops contributing significantly to global edible oil production. In India, Indian mustard (Brassica juncea) dominates Brassica cultivation, yet the country remains heavily dependent on edible oil imports due to insufficient domestic production. Enhancing seed vigor, a key determinant of crop establishment and yield, offers a promising avenue for improving productivity. This study assessed the genetic diversity of 300 rapeseed and mustard genotypes for seed vigor traits using multivariate analysis, including principal component analysis (PCA) and cluster analysis. Eleven seed vigor-related traits were evaluated, and PCA revealed four principal components with eigenvalues greater …


Effects Of Polyethylene Films With Different Uv-A Transmittance On Quality Parameters And Physiology Of Greenhouse-Grown Tomato, Nefi̇se Yasemi̇n Tezcan, Mustafa Erkan, Ahmet Kurunç Aug 2025

Effects Of Polyethylene Films With Different Uv-A Transmittance On Quality Parameters And Physiology Of Greenhouse-Grown Tomato, Nefi̇se Yasemi̇n Tezcan, Mustafa Erkan, Ahmet Kurunç

Turkish Journal of Agriculture and Forestry

In this study, the effects of three different polyethylene (PE) greenhouse covering materials (CMs) with varying thicknesses and ultraviolet-A (UV-A) transmittance on greenhouse microclimate, plant growth, yield, fruit quality, and chlorophyll fluorescence parameters (Chl FPs) in tomatoes were investigated. The CMs used in the study were 180 μm thick ultraviolet (UV) + ethylene vinyl acetate (EVA) + long-wave infrared (IR) + light diffuser (LD) + antifog (AF) added PE (CM1), 160 μm thick PLUS UV + EVA + IR + LD + AF added PE (CM2), and 200 μm thick UV + EVA + IR + LD added PE (CM3). …


Wbd-Yolo-Am: Yolov8 With Attention Module And Iot-Based Wild Boar Detection And Deterrence System For Safeguarding Small Millets, Aditya Joshi, Neha Pandey, Manoj Diwakar, Prabhishek Singh, Achyut Shankar, Fayez Alqahtani Aug 2025

Wbd-Yolo-Am: Yolov8 With Attention Module And Iot-Based Wild Boar Detection And Deterrence System For Safeguarding Small Millets, Aditya Joshi, Neha Pandey, Manoj Diwakar, Prabhishek Singh, Achyut Shankar, Fayez Alqahtani

Turkish Journal of Agriculture and Forestry

Small millets are traditional and climate-resilient food crops that can grow in adverse weather conditions. Animal intrusion, specifically from wild boars, is a main threat to the production of small millets, which reduces interest in the cultivation of small millets and affects farmers’ incomes. To address the problem of wild boar attack on agriculture land, an improved YOLOv8 is proposed, with an attention module based on WBD-YOLO-AM and that works from the collection of data, its preprocessing, attention mechanism to improve the feature maps, training then building the model, after that the models hyperparameter are tuned to boost the performance …


Assessment Of Bat Species (Mammalia: Chiroptera) In Canubas Cave, Kibawe, Bukidnon, Philippines, Jurriel Mari D. Alce, Jasmine Rouida M. Abenes, Leo Gabriel Cervantes, Matthew Eli K. Llacer, Von Zhyrus P. Oche, Ian Jay P. Saldo, Jhovel Roy D. Calo Aug 2025

Assessment Of Bat Species (Mammalia: Chiroptera) In Canubas Cave, Kibawe, Bukidnon, Philippines, Jurriel Mari D. Alce, Jasmine Rouida M. Abenes, Leo Gabriel Cervantes, Matthew Eli K. Llacer, Von Zhyrus P. Oche, Ian Jay P. Saldo, Jhovel Roy D. Calo

Sinaya: A Philippine Journal for Senior High School Teachers and Students

Bats, flying mammals, are essential to ecosystems, playing vital roles in pollination, seed dispersal, and insect control. Despite their ecological importance, no prior bat research exists for Canubas Cave, Kibawe, Bukidnon. This study aimed to assess the bat species at the site, documenting their morphometric data, diversity and richness indices, and conservation statuses. A purposive sampling design was implemented by setting up mist nets inside and outside the cave. A total of 13 individuals were identified, comprising three species from two families: Rousettus amplexicaudatus and Eonycteris spelaea (family Pteropodidae, fruit bats), and Miniopterus schreibersii (family Miniopteridae, bent-winged bats). Based on …


Biophysical Effects Of Altered Myosin Binding Protein Stoichiometry In Atrial Myofilaments, Kelly N. Araujo Aug 2025

Biophysical Effects Of Altered Myosin Binding Protein Stoichiometry In Atrial Myofilaments, Kelly N. Araujo

Dissertations

Cardiomyopathies, such as hypertrophic and dilated subtypes, are leading causes of heart failure and are often driven by genetic mutations that disrupt the structure and function of the cardiac sarcomere. While much of the research has focused on ventricular involvement, the role of atrial sarcomere dysfunction remains unexplored. The regulation of contractile function by sarcomeric proteins in the atria remains poorly understood, especially the impact of protein stoichiometry among myosin binding proteins. Cardiac myosin binding protein-C (cMyBP-C) and its atrial paralog, myosin binding protein H-like (MyBP-HL), have been shown to have a stoichiometric relationship within the atrial sarcomere. These two …


Development, Validation, And Applicability Of A Race-Specific Insulin Sensitivity Estimator (Rise) In Youth And Young Adults, Wonhee Cho Aug 2025

Development, Validation, And Applicability Of A Race-Specific Insulin Sensitivity Estimator (Rise) In Youth And Young Adults, Wonhee Cho

Dissertations - ALL

Parallel to the escalating rate of overweight and obesity in the youth and young adult population, the incidence and prevalence of type 2 diabetes are also mounting, presenting significant public health problems. Among the various pathophysiological factors, insulin sensitivity has emerged as a critical risk factor for impaired glucose tolerance (IGT) and type 2 diabetes in youth. Despite the pivotal role of insulin sensitivity in the development and progression of these conditions, current methodologies for its assessment, such as the hyperinsulinemic-euglycemic clamp and intravenous glucose tolerance test, are limited by their invasive methods, high cost, and unsuitability for use in …


Caf-Macrophage Crosstalk Fuels Immunotherapy Resistance, Yang Liu, Linghua Wang Aug 2025

Caf-Macrophage Crosstalk Fuels Immunotherapy Resistance, Yang Liu, Linghua Wang

Faculty, Staff and Student Publications

No abstract provided.


Safety Of Contemporary Radiation Therapy In Patients With Cardiac Implantable Electronic Devices: Implications For Clinical Practice, Kaveh Karimzad, Shalin Shah, Stephen F Kry, Christopher Peeler, Julianne Pollard-Larkin, Amit Koduri, Martin Chacon Portillo, Siddharth Chauhan, Atia Amatullah, Chase Miller, Amanda Strang, Juhee Song, Khatera Mir Zaman Shah, Donelo Lopez, Darla Wagner, January Tsai, Shital Vachhani, Dilip Thakar, Cezar Iliescu, Jean-Bernard Durand, Anne H Dougherty, Bharat Kantharia, Anita Deswal Aug 2025

Safety Of Contemporary Radiation Therapy In Patients With Cardiac Implantable Electronic Devices: Implications For Clinical Practice, Kaveh Karimzad, Shalin Shah, Stephen F Kry, Christopher Peeler, Julianne Pollard-Larkin, Amit Koduri, Martin Chacon Portillo, Siddharth Chauhan, Atia Amatullah, Chase Miller, Amanda Strang, Juhee Song, Khatera Mir Zaman Shah, Donelo Lopez, Darla Wagner, January Tsai, Shital Vachhani, Dilip Thakar, Cezar Iliescu, Jean-Bernard Durand, Anne H Dougherty, Bharat Kantharia, Anita Deswal

Faculty, Staff and Student Publications

Background: Radiation therapy (RT) can cause cardiac implantable electronic device (CIED) malfunction, primarily reset. Given changes in RT and CIED technologies, large observational studies examining malfunction of contemporary CIEDs during modern-day RT are needed to guide clinical practice.

Methods: Electronic medical records of all consecutive patients with CIEDs who underwent RT at a large tertiary cancer center between January 2015 and January 2022 were reviewed. All patients had CIED interrogation before and after completion of RT. Device-related data and RT-specific variables were collected. Statistical analyses were performed at the RT course level.

Results: Over a period of 7 years, 677 …


A Multimodal Approach To Assess A Liposomal Carrier’S Biodistribution, Stability, And Clearance, Cayla A Wood, Claire E Jones, Ananthakrishnan Soundaram Jeevarathinam, Riley Watson, Sangheon Han, Jennifer Meyer, Konstantin V Sokolov, Richard R Bouchard Aug 2025

A Multimodal Approach To Assess A Liposomal Carrier’S Biodistribution, Stability, And Clearance, Cayla A Wood, Claire E Jones, Ananthakrishnan Soundaram Jeevarathinam, Riley Watson, Sangheon Han, Jennifer Meyer, Konstantin V Sokolov, Richard R Bouchard

Faculty, Staff and Student Publications

Liposomal carriers, used for site-specific drug delivery, are being investigated for diagnostic approaches by replacing the therapeutic with an imaging contrast agent, exploring potential for selective treatment planning. There remains a critical need to improve in vivo assessment of biodistribution, stability, and clearance kinetics of liposomal carriers. This pilot study presents a multimodal approach in which liposome-encapsulated J-aggregated indocyanine green (ICG) dye (Lipo-JICG) is imaged with high spatial resolution using both in vivo photoacoustic (PA) imaging, to assess the absorbance characteristics of JICG and monomeric ICG, and ex vivo cryofluorescence tomography (CFT), to measure ICG fluorescence. An in vitro assay …


Muscarinic Acetylcholine Receptor 1: Implications For Precision Medicine And Rett Syndrome Therapeutics, Mackenzie Smith Aug 2025

Muscarinic Acetylcholine Receptor 1: Implications For Precision Medicine And Rett Syndrome Therapeutics, Mackenzie Smith

Dissertations

Rett syndrome (RTT) is a rare neurodevelopmental disorder caused by mutations in the gene coding for methyl-CpG binding protein 2 (MeCP2). Currently, there is no cure for RTT and few effective treatment options to address the social, cognitive, motor, and respiratory symptoms that patients face. With the goal of identifying novel targets, our lab performed RNA-sequencing experiments in human autopsy samples and found decreased levels of the M1 muscarinic acetylcholine receptor. We have established that potentiation of this receptor in a Mecp2+/- mouse model of RTT rescues social, cognitive, and respiratory phenotypes, providing support for using drugs that act on …


Green Synthesis Of Silver Nanoparticles From Melanoleuca Grammopodia: Changes In Bioactive Components, Antidiabetic Properties And Bioaccessibility, İsmai̇l Acar, Emi̇ne Okumuş, Arzu Karataş Aug 2025

Green Synthesis Of Silver Nanoparticles From Melanoleuca Grammopodia: Changes In Bioactive Components, Antidiabetic Properties And Bioaccessibility, İsmai̇l Acar, Emi̇ne Okumuş, Arzu Karataş

Turkish Journal of Agriculture and Forestry

Green synthesis of silver nanoparticles (AgNPs) using plant materials allows the production of low-cost and biocompatible nanoparticles without the use of toxic compounds or solvents. In this study, biogenic AgNP/Mg nanoparticles were synthesized using the Melanoleuca grammopodia mushroom. Vitamin C and E contents of the mushroom were 42.6 mg/g and 26.82 mg/g, respectively. FTIR analysis revealed the reducing and stabilizing effects of bioactive components present in M. grammopodia mushroom extract. SEM micrographs showed that the nanoparticles were spherical in form and the EDX spectrum confirmed the presence of the characteristic metallic silver peak at 3.0 keV. A significant reduction in …


In Silico Investigation Of The Anticancer Activity Of Natural Isoquinoline Alkaloids Targeting The Monoamine Oxidase A Enzyme, Reham A. Al-Anssari, Anwar H. Ali, Ola Adel Al-Saad, Shaker A.N. Al-Jadaan Aug 2025

In Silico Investigation Of The Anticancer Activity Of Natural Isoquinoline Alkaloids Targeting The Monoamine Oxidase A Enzyme, Reham A. Al-Anssari, Anwar H. Ali, Ola Adel Al-Saad, Shaker A.N. Al-Jadaan

AUIQ Complementary Biological System

Monoamine oxidase A (MAO-A) has recently been identified as a candidate for cancer therapy due to its roles in tumor development and growth. Conventional approaches for the discovery of MAO-A inhibitors are both costly and time-consuming. The objective of this work was to apply in silico methods to predict natural isoquinoline alkaloids capable of acting as potent MAO-A inhibitors, and to establish this class of compounds as potential sources of a cost-effective anticancer therapy. Twenty-one natural isoquinoline alkaloids were subjected to a multistep computer-aided drug discovery protocol. The compounds were initially screened for pharmacokinetic (ADME), toxicity, and drug-likeliness properties by …


Humanizing Cities As An Approach For Solving Cities' Problems To Be More Livable, Kareem Mahrous Ali Aug 2025

Humanizing Cities As An Approach For Solving Cities' Problems To Be More Livable, Kareem Mahrous Ali

Mansoura Engineering Journal

Most people around the world want to move from the countryside to the cities or from one city to another that provides them with all their human needs for a better life. The dream may come true for them or turn into a nightmare for reasons related to general problems facing most cities in the world, such as the high cost of living and the absence of social justice, these problems cause an increase in poor families, or the issue of refugees and the inability of some cities to welcome them, the energy crisis, and the challenges of climate change …


Statistical Analysis Of Multi-Endpoint Phenotypic Screening Increases Sensitivity Of Planarian Neurotoxicity Testing, Danielle Ireland, L. J. Word, Eva-Maria S. Collins Aug 2025

Statistical Analysis Of Multi-Endpoint Phenotypic Screening Increases Sensitivity Of Planarian Neurotoxicity Testing, Danielle Ireland, L. J. Word, Eva-Maria S. Collins

Biology Faculty Works

There is an urgent need for high-throughput screening (HTS) models to replace, refine, and/or reduce (“3Rs”) vertebrate toxicity testing. Replacing in vivo animal studies is challenging for neurotoxicity and developmental neurotoxicity (DNT), where the functional relevancy of adverse outcomes needs to be assessed on the whole organism. We previously screened the NTP 87-compound library (NTP87), consisting of known and suspected developmental neurotoxicants, and showed that planarian HTS can identify known (developmental) neurotoxicants. Because analysis methods can impact screening results, and our original analysis used the lowest-observed-effect-level (LOEL) only, we hypothesized that the use of state-of-the-art statistical analysis would increase the …


Native Ticks As A Model For The Effectiveness Of Fire As A Tool For The Management Of Cattle Fever Ticks In South Texas, Lauren P. Maestas, Sarah E. Mays Maestas, Kathleen M. Yeater, Manuel Zavala, Reyes Garcia, John A. Goolsby Aug 2025

Native Ticks As A Model For The Effectiveness Of Fire As A Tool For The Management Of Cattle Fever Ticks In South Texas, Lauren P. Maestas, Sarah E. Mays Maestas, Kathleen M. Yeater, Manuel Zavala, Reyes Garcia, John A. Goolsby

School of Integrative Biological & Chemical Sciences Faculty Publications

The species of cattle fever ticks (CFT) present in North America, Rhipicephalus (=Boophilus) annulatus, and R. microplus, remain an important agricultural and economic burden. The use of acaricides to control CFT has been a common practice over the past half century. However, alternative strategies for control are needed to improve the options for sustainable pest control. Fire is a tool to manage vegetation, and some evidence supports its potential for use to control ticks. We evaluated the effectiveness of fire as a management tool for ticks in South Texas. Our site was a 28.2-ha property in Cameron …


Phase 1/2 Trial Of Encorafenib, Cetuximab, And Nivolumab In Microsatellite Stable Brafv600e Metastatic Colorectal Cancer, Van K Morris, Christine M Parseghian, Vahid Bahrambeigi, Nourhan Abdelfattah, Lianchun Xiao, Anjali Agrawal, Kangyu Lin, Kanwal P S Raghav, Robert A Wolff, Arvind Dasari, Ryan W Huey, Bryan K Kee, Michael J Overman, Jason A Willis, Phat H Le, Michelle Escano, Yunyu C Baig, Kelsey Pan, David Menter, Alda L Tam, Wai C Foo, Li Shen, Hey Min Lee, Thomas D Gallup, Cori Margain, Dave Gallup, Kimal I Rajapakshe, Paola A Guerrero, Jing Wang, Ryan B Corcoran, Anirban Maitra, Kyuson Yun, Scott Kopetz Aug 2025

Phase 1/2 Trial Of Encorafenib, Cetuximab, And Nivolumab In Microsatellite Stable Brafv600e Metastatic Colorectal Cancer, Van K Morris, Christine M Parseghian, Vahid Bahrambeigi, Nourhan Abdelfattah, Lianchun Xiao, Anjali Agrawal, Kangyu Lin, Kanwal P S Raghav, Robert A Wolff, Arvind Dasari, Ryan W Huey, Bryan K Kee, Michael J Overman, Jason A Willis, Phat H Le, Michelle Escano, Yunyu C Baig, Kelsey Pan, David Menter, Alda L Tam, Wai C Foo, Li Shen, Hey Min Lee, Thomas D Gallup, Cori Margain, Dave Gallup, Kimal I Rajapakshe, Paola A Guerrero, Jing Wang, Ryan B Corcoran, Anirban Maitra, Kyuson Yun, Scott Kopetz

Faculty, Staff and Student Publications

The BRAF inhibitor encorafenib and anti-epidermal growth factor receptor (EGFR) antibody cetuximab modestly improve survival for patients with microsatellite stable (MSS) BRAFV600E metastatic colorectal cancer (mCRC), characterized by higher immune activation than MSS BRAFwild-type colorectal cancer (CRC). In this phase 1/2 study (NCT04017650) of 26 participants with MSS BRAFV600E mCRC who received encorafenib, cetuximab, and anti-PD-1 antibody nivolumab, we report an overall response rate of 50% (95% confidence interval [CI] 29–71) and median progression-free survival of 7.4 months (95% CI, 5.6–9.6). Transcriptomic profiling of pretreatment biopsies and extracellular vesicle RNA (evRNA) isolated from plasma show …


Circzfr/Ythdf3 Axis Drives Lymph Node Metastasis In Cervical Cancer Via Fasn Translation, Mingyi Zhou, Yan Gao, Yong Zhang, Lian He, Bo Gao, Yue Zhang, Francois X Claret, George A Calin, Danbo Wang Aug 2025

Circzfr/Ythdf3 Axis Drives Lymph Node Metastasis In Cervical Cancer Via Fasn Translation, Mingyi Zhou, Yan Gao, Yong Zhang, Lian He, Bo Gao, Yue Zhang, Francois X Claret, George A Calin, Danbo Wang

Faculty, Staff and Student Publications

Background: Lymph node metastasis is a key driver of poor outcomes in cervical cancer. However, the molecular mechanisms of circular RNAs (circRNAs) driving cervical cancer lymph node metastasis remain unclear.

Methods: We identified circZFR, fatty acid synthase (FASN) and YTH N6-methyladenosine RNA binding protein F3 (YTHDF3) protein expression in the cervical cancer patients with long and short disease-free survival (DFS). Functional experiments were performed to investigate the function of circZFR, FASN and YTHDF3 on cell migration and invasion. MeRIP-qPCR, RNA pulldown, RNA Immunoprecipitation (RIP), and Co-Immunoprecipitation (Co-IP) assays were executed to investigate the mechanism of circZFR regulating FASN protein expression. …


Human Interpretable Grammar Encodes Multicellular Systems Biology Models To Democratize Virtual Cell Laboratories, Jeanette A I Johnson, Daniel R Bergman, Heber L Rocha, David L Zhou, Eric Cramer, Ian C Mclean, Yoseph W Dance, Max Booth, Zachary Nicholas, Tamara Lopez-Vidal, Atul Deshpande, Randy Heiland, Elmar Bucher, Fatemeh Shojaeian, Matthew Dunworth, André Forjaz, Michael Getz, Inês Godet, Furkan Kurtoglu, Melissa Lyman, John Metzcar, Jacob T Mitchell, Andrew Raddatz, Jacobo Solorzano, Aneequa Sundus, Yafei Wang, David G Denardo, Andrew J Ewald, Daniele M Gilkes, Luciane T Kagohara, Ashley L Kiemen, Elizabeth D Thompson, Denis Wirtz, Laura D Wood, Pei-Hsun Wu, Neeha Zaidi, Lei Zheng, Jacquelyn W Zimmerman, Jude M Phillip, Elizabeth M Jaffee, Joe W Gray, Lisa M Coussens, Young Hwan Chang, Laura M Heiser, Genevieve L Stein-O'Brien, Elana J Fertig, Paul Macklin Aug 2025

Human Interpretable Grammar Encodes Multicellular Systems Biology Models To Democratize Virtual Cell Laboratories, Jeanette A I Johnson, Daniel R Bergman, Heber L Rocha, David L Zhou, Eric Cramer, Ian C Mclean, Yoseph W Dance, Max Booth, Zachary Nicholas, Tamara Lopez-Vidal, Atul Deshpande, Randy Heiland, Elmar Bucher, Fatemeh Shojaeian, Matthew Dunworth, André Forjaz, Michael Getz, Inês Godet, Furkan Kurtoglu, Melissa Lyman, John Metzcar, Jacob T Mitchell, Andrew Raddatz, Jacobo Solorzano, Aneequa Sundus, Yafei Wang, David G Denardo, Andrew J Ewald, Daniele M Gilkes, Luciane T Kagohara, Ashley L Kiemen, Elizabeth D Thompson, Denis Wirtz, Laura D Wood, Pei-Hsun Wu, Neeha Zaidi, Lei Zheng, Jacquelyn W Zimmerman, Jude M Phillip, Elizabeth M Jaffee, Joe W Gray, Lisa M Coussens, Young Hwan Chang, Laura M Heiser, Genevieve L Stein-O'Brien, Elana J Fertig, Paul Macklin

Faculty, Staff and Student Publications

Cells interact as dynamically evolving ecosystems. While recent single-cell and spatial multi-omics technologies quantify individual cell characteristics, predicting their evolution requires mathematical modeling. We propose a conceptual framework-a cell behavior hypothesis grammar-that uses natural language statements (cell rules) to create mathematical models. This enables systematic integration of biological knowledge and multi-omics data to generate in silico models, enabling virtual "thought experiments" that test and expand our understanding of multicellular systems and generate new testable hypotheses. This paper motivates and describes the grammar, offers a reference implementation, and demonstrates its use in developing both de novo mechanistic models and those informed …


Prefrontal Cortex Astrocytes Modulate Distinct Neuronal Populations To Control Anxiety-Like Behavior, Eunyoung Kim, Hairuo Du, Yanqi Tan, Brandon L Brown, Yaowen Chang, Blanca Díaz-Castro, Jonathan V Sweedler, Xinzhu Yu Aug 2025

Prefrontal Cortex Astrocytes Modulate Distinct Neuronal Populations To Control Anxiety-Like Behavior, Eunyoung Kim, Hairuo Du, Yanqi Tan, Brandon L Brown, Yaowen Chang, Blanca Díaz-Castro, Jonathan V Sweedler, Xinzhu Yu

Faculty, Staff and Student Publications

Accumulating evidence has supported diverse regulatory functions of astrocytes in different neural circuits as well as various aspects of complex behaviors. However, little is known about how astrocytes regulate different neuronal subpopulations that are linked to specific behavioral aspects within a single brain region. Here, we show that astrocytes in the medial prefrontal cortex (mPFC) encode anxiogenic environmental cues in freely behaving mice. Silencing mPFC astrocyte Ca


Tracing Priming Effects In Palsa Peat Carbon Dynamics Using A Stable Isotope-Assisted Metabolomics Approach, Christian Ayala-Ortiz, Moira Hough, Elizabeth K. Eder, David W. Hoyt, Rosalie K. Chu, Jason Toyoda, Steven J. Blazewicz, Patrick M. Crill, Ruth Varner, Scott R. Saleska, Virginia I. Rich, Malak M. Tfaily Aug 2025

Tracing Priming Effects In Palsa Peat Carbon Dynamics Using A Stable Isotope-Assisted Metabolomics Approach, Christian Ayala-Ortiz, Moira Hough, Elizabeth K. Eder, David W. Hoyt, Rosalie K. Chu, Jason Toyoda, Steven J. Blazewicz, Patrick M. Crill, Ruth Varner, Scott R. Saleska, Virginia I. Rich, Malak M. Tfaily

Michigan Tech Publications

Introduction: Peatlands store up to a third of global soil carbon, and in high latitudes their litter inputs are increasing and changing in composition under climate change. Although litter significantly influences peatland carbon and nutrient dynamics by changing the overall lability of peatland organic matter, the physicochemical mechanisms of this impact—and thus its full scope—remain poorly understood. Methods: We applied multimodal metabolomics (UPLC-HRMS, 1H NMR) paired with 13C Stable Isotope-Assisted Metabolomics (SIAM) to track litter carbon and its potential priming effects on both existing soil organic matter and carbon gas emissions. Through this approach, we achieved molecule-specific tracking …


Reducing Residential Landscape Water Use In Utah: Technologies And Strategies, Maya Cottam, Kendall Becker, Katlyn Stemmler, Shital Poudyal, Wesley Crump, Lewis Kogan, Scott Hotaling Aug 2025

Reducing Residential Landscape Water Use In Utah: Technologies And Strategies, Maya Cottam, Kendall Becker, Katlyn Stemmler, Shital Poudyal, Wesley Crump, Lewis Kogan, Scott Hotaling

All Current Publications

Water conservation is a critical issue in Utah, and several actions are already underway to help lower residential landscape water use. Strategies include smart irrigation controllers, efficient sprinkler bodies and nozzles, drip irrigation systems, soil amendments that increase water-holding capacity, and drought-tolerant grass cultivars for lawns. While additional conservation efforts will be necessary to reach sustainable water management, statewide adoption of current programs can help reduce water use and loss.


Scorpions Of The Horn Of Africa (Arachnida: Scorpiones). Part Xliii. Lanzatus Fuscipalpis Sp. N. From Ethiopia (Buthidae), František Kovařík, Graeme Lowe Aug 2025

Scorpions Of The Horn Of Africa (Arachnida: Scorpiones). Part Xliii. Lanzatus Fuscipalpis Sp. N. From Ethiopia (Buthidae), František Kovařík, Graeme Lowe

Euscorpius

The rare Horn of Africa buthid genus Lanzatus Kovařík, 2001, known only from Somalia and Somaliland, is recorded for the first time from Ethiopia. We describe a new species Lanzatus fuscipalpis sp. n. fully illustrated with color photographs showing its morphology, habitus, hemispermatophore, and collection sites.


Synergistic Cefiderocol-Containing Antibiotic Combinations Active Against Highly Drug-Resistant Acinetobacter Baumannii Patient Isolates With Diverse Resistance Mechanisms, Justin Halim, Andrew P. Keane, Jeannete Bouzo, Tope Aderibigbe, Jessica A. Chicola, Katie T. Nolan, Keertana Jonnalagadda, Jason X. Tran, Valerie J. Carabetta Aug 2025

Synergistic Cefiderocol-Containing Antibiotic Combinations Active Against Highly Drug-Resistant Acinetobacter Baumannii Patient Isolates With Diverse Resistance Mechanisms, Justin Halim, Andrew P. Keane, Jeannete Bouzo, Tope Aderibigbe, Jessica A. Chicola, Katie T. Nolan, Keertana Jonnalagadda, Jason X. Tran, Valerie J. Carabetta

Rowan-Virtua School of Osteopathic Medicine Departmental Research

BACKGROUND: Acinetobacter baumannii is a nosocomial pathogen known for rapidly developing resistance to nearly all antibiotics, including last-line agents. Cefiderocol, a novel siderophore cephalosporin, has shown in vitro activity against A. baumannii and is now used clinically, but resistance is emerging. Data on cefiderocol-based antibiotic combinations are limited.

OBJECTIVES: To evaluate the in vitro activity of cefiderocol alone and in combination with other antibiotics against XDR and PDR A. baumannii clinical isolates, and to explore resistance mechanisms underlying cefiderocol synergy.

METHODS: We tested 21 XDR/PDR clinical isolates and one NDM-1-producing strain using broth microdilution and checkerboard assays with cefiderocol and …