Life Sciences Commons^™

Yield Component Compensation As Affected By Seeding Rates In Dry Direct Seeded Rice, Crisanta S. Bueno, Rene B. Carandang, John Kenneth L. Motilla, Pompe C. Sta Cruz

The Philippine Agricultural Scientist

Sustainability of the transplanted and flooded rice system is threatened by water and labor availability in many Asian countries including the Philippines. Dry direct seeding instead of transplanting is evolving as a viable crop establishment option to deal with labor and water shortages. Two experiments from July 2020 to June 2021 were conducted to determine the effect of different seeding rates [20 kg ha^-1 (SR20), 40 kg ha^-1 (SR40), 60 kg ha^-1 (SR60), and 120 kg ha^-1 (SR120)] on the growth, grain yield, and yield components of 2 rice varieties that were established through direct seeding …

Effects Of Polishing And Cooking On The Phytochemical Properties And Antioxidant Activities Of Selected Philippine Rice Cultivars [Research Note], Rodel M. Bulatao, Charleo S. Zapanta, Maricar B. Castillo, Reniel P. Tubera, Joel R. Salazar

The Philippine Agricultural Scientist

This paper evaluated the effects of different polishing times and regular cooking on the phytochemical properties and antioxidant activities of black rice Brillante, red rice Minaangan, and white rice NSIC Rc 160. Rice samples were polished for 0, 15, 30, and 45 s, and were cooked using their optimum cooking water ratio. The samples were then characterized for their phytochemical properties [total anthocyanin content (TAC), total phenolic content (TPC), and total flavonoid content (TFC)] and antioxidant activities [DPPH-radical scavenging activity (DPPH-RSA) and ferric reducing antioxidant power (FRAP)]. Pearson’s correlation analysis (PCA) was employed to determine the strength of …

Allelopathy Of Faba Bean Cover Crop To Durum Wheat Under A Semi-Arid Environment, Oussama Oueslati, Arwa Zammali, Raed Hamdi, Ahlem Dhahri, Chaima Melliti, Moncef Ben Hammouda, Robert Kremer

The Philippine Agricultural Scientist

Problems facing farmers practicing conservation agriculture in the semi-arid zone of Tunisia include appropriate cover crop selection, management of allelopathic effects affecting subsequent crop performance, and influence of seasonal variation on allelopathy expression. Allelopathy expressed by faba bean (Vicia faba L.) toward durum wheat [Triticum turgidum ssp. durum (Desf.) Husn.] was studied using bioassays during three growing seasons. The role of phenols in the expression of such potential was also investigated. Analyses of plant samples at three phenological stages (flowering, fruiting, senescence) revealed that leaves were most inhibitory. Allelopathic potential differed among plant components and phenological stages, with …

Factors Associated With Per- And Polyfluoroalkyl Substance (Pfas) Concentrations: Implications For Exposure Assessment And Highly Exposed Communities, Jordan Mcadam

Legacy Theses & Dissertations (2009 - 2024)

Background: Per- and polyfluoroalkyl substance exposure has been implicated as a factor contributing to the development of many adverse health outcomes across populations of all ages. Despite this, the factors associated with PFAS concentrations in humans are not well understood. Most studies evaluating factors associated with PFAS concentrations consider a small number of variables. Differences in the factors associated with PFAS levels in populations of high exposure versus low or background exposure (i.e., the general population) have not been considered. Advancing our understanding on this topic is necessary to better understand the serum elimination half-lives and toxicokinetics of PFAS. Additionally, …

Beyond The Symptom: The Biology Of Fatigue, David M. Raizen, Janet Mullington, Christelle Anaclet, Gerard Clarke, Hugo Critchley, Robert Dantzer, Ronald Davis, Kelly L. Drew, Josh Fessel, Patrick M. Fuller, Erin M. Gibson, Mary Harrington, W. Ian Lipkin, Elizabeth B. Klerman, Nancy Klimas, Anthony L. Komaroff, Walter Koroshetz, Lauren Krupp, Anna Kuppuswamy, Julie Lasselin, Laura D. Lewis, Pierre J. Magistretti, Heidi Y. Matos, Christine Miaskowski, Andrew H. Miller, Avindra Nath, Maiken Nedergaard, Mark R. Opp, Marylyn D. Ritchie, Dragana Rogulja, Asya Rolls, John D. Salamone

Psychology: Faculty Publications

A workshop titled “Beyond the Symptom: The Biology of Fatigue” was held virtually September 27–28, 2021. It was jointly organized by the Sleep Research Society and the Neurobiology of Fatigue Working Group of the NIH Blueprint Neuroscience Research Program. For access to the presentations and video recordings, see: https://neuroscienceblueprint.nih.gov/about/event/beyond-symptom-biology-fatigue. The goals of this workshop were to bring together clinicians and scientists who use a variety of research approaches to understand fatigue in multiple conditions and to identify key gaps in our understanding of the biology of fatigue. This workshop summary distills key issues discussed in this workshop and provides a …

Gregarine Parasites In Zygoptera Of Keith County, Ne, Anisha Kadubandi, B. Gage Kircher Ii, Scott L. Gardner

UCARE: Research Products

Prevalence of Gregarine Protozoa Infection in Zygoptera Sourced from Varying Collection Sites in Keith County, Nebraska

B.G Kircher II, A. Kadubandi, and S.L. Gardner S. H.W. Manter Laboratory of Parasitology, University of Nebraska-Lincoln and Cedar Point Biological Station, University of Nebraska-Lincoln

Damselflies are ubiquitous flying insects of the order Odonata with thousands of species found around the world. The parasites associated with damselfly species are equally as ubiquitous, with the most common being gregarine protozoa and water mites, though other parasitic organisms such as trematodes are also found in these animals. Gaining an understanding of the relationships among hosts and …

Roost Selection By Synanthropic Bats In Rural Kenya: Implications For Human-Wildlife Conflict And Zoonotic Pathogen Spillover, Reilly T. Jackson, Paul W. Webala, Joseph G. Ogola, Tamika J. Lunn, Kristian M. Forbes

Biological Sciences Faculty Publications and Presentations

Many wildlife species are synanthropic and use structures built by humans, creating a high-risk interface for human–wildlife conflict and zoonotic pathogen spillover. However, studies that investigate features of urbanizing areas that attract or repel wildlife are currently lacking. We surveyed 85 buildings used by bats and 172 neighbouring buildings unused by bats (controls) in southeastern Kenya during 2021 and 2022 and evaluated the role of microclimate and structural attributes in building selection. We identified eight bat species using buildings, with over 25% of building roosts used concurrently by multiple species. Bats selected taller cement-walled buildings with higher water vapour pressure …

Effect Of Bovine Respiratory Disease On The Respiratory Microbiome: A Meta-Analysis, Samantha Howe, Beth Kegley, Jeremy Powell, Sicheng Chen, Jiangchao Zhao

Animal Science Faculty Publications and Presentations

Background: Bovine respiratory disease (BRD) is the most devastating disease affecting beef and dairy cattle producers in North America. An emerging area of interest is the respiratory microbiome’s relationship with BRD. However, results regarding the effect of BRD on respiratory microbiome diversity are conflicting.

Results: To examine the effect of BRD on the alpha diversity of the respiratory microbiome, a meta-analysis analyzing the relationship between the standardized mean difference (SMD) of three alpha diversity metrics (Shannon’s Diversity Index (Shannon), Chao1, and Observed features (OTUs, ASVs, species, and reads) and BRD was conducted. Our multi-level model found no difference in Chao1 …

A Lizard Is Never Late: Squamate Genomics As A Recent Catalyst For Understanding Sex Chromosome And Microchromosome Evolution, Brendan J. Pinto, Tony Gamble, Chase H. Smith, Melissa A. Wilson

Biological Sciences Faculty Research and Publications

In 2011, the first high-quality genome assembly of a squamate reptile (lizard or snake) was published for the green anole. Dozens of genome assemblies were subsequently published over the next decade, yet these assemblies were largely inadequate for answering fundamental questions regarding genome evolution in squamates due to their lack of contiguity or annotation. As the “genomics age” was beginning to hit its stride in many organismal study systems, progress in squamates was largely stagnant following the publication of the green anole genome. In fact, zero high-quality (chromosome-level) squamate genomes were published between the years 2012 and 2017. However, since …

The Revised Reference Genome Of The Leopard Gecko (Eublepharis Macularius) Provides Insight Into The Considerations Of Genome Phasing And Assembly, Brendan J. Pinto, Tony Gamble, Chase H. Smith, Shannon E. Keating, Justin C. Havird, Ylenia Chiari

Biological Sciences Faculty Research and Publications

Genomic resources across squamate reptiles (lizards and snakes) have lagged behind other vertebrate systems and high-quality reference genomes remain scarce. Of the 23 chromosome-scale reference genomes across the order, only 12 of the ~60 squamate families are represented. Within geckos (infraorder Gekkota), a species-rich clade of lizards, chromosome-level genomes are exceptionally sparse representing only two of the seven extant families. Using the latest advances in genome sequencing and assembly methods, we generated one of the highest-quality squamate genomes to date for the leopard gecko, Eublepharis macularius (Eublepharidae). We compared this assembly to the previous, short-read only, E. macularius reference genome …

Maize Leaf Angle Genetic Gain Is Slowing Down In The Last Decades, Elvis F. Elli, Jode Edwards, Jianming Yu, Slobodan Trifunovic, Douglas M. Eudy, Kevin R. Kosola, Patrick S. Schnable, Kendall R. Lamkey, Sotirios V. Archontoulis

Crop, Soil and Environmental Sciences Faculty Publications and Presentations

Quantifying historical changes in maize leaf angle and factors affecting it can enhance our understanding of canopy architecture and light capture, and hence crop productivity. Our objectives were to (1) quantify leaf angle genetic gain per canopy position in Bayer's legacy maize (Zea mays L.) hybrids; (2) dissect the contribution of breeding from plant density on historical changes in leaf angle; and (3) synthesize our findings with literature to determine leaf angle changes over a century of breeding. We measured leaf angle in 78 maize hybrids released between 1980 and 2020 across eight environments in the US Corn Belt. …

Low Gluten Beers Contain Variable Gluten And Immunogenic Epitope Content, Mitchell G. Nye-Wood, Keren Byrne, Sally Stockwell, Angéla Juhász, Utpal Bose, Michelle L. Colgrave

Research outputs 2022 to 2026

Gluten content labels inform food choice and people practicing a gluten-free diet rely upon them to avoid illness. The regulations differ between jurisdictions, especially concerning fermented foodstuffs such as beer. Gluten abundance is typically measured using ELISAs, which have come into question when testing fermented or hydrolysed foodstuffs such as beer. Mass spectrometry can be used to directly identify gluten peptides and reveal false negatives recorded by ELISA. In this survey of gluten in control and gluten-free beers, gluten protein fragments that contain known immunogenic epitopes were detected using liquid chromatography-mass spectrometry in multiple beers that claim to be gluten-free …

Alkaline Pretreatment And Air Mixing For Improvement Of Methane Production From Anaerobic Co-Digestion Of Poultry Litter With Wheat Straw, Yuanhang Zhan, Jun Zhu, Yiting Xiao, Leland C. Schrader

Biological and Agricultural Engineering Faculty Publications and Presentations

Alkaline pretreatment (AL) and air mixing (air) both have the potential to improve anaerobic co-digestion (Co-AD) of poultry litter with wheat straw for methane production. In this study, the effects of the combination of AL (pH 12 for 12 h) and air mixing (12 mL·d⁻¹) on the Co-AD process were investigated. The substrate hydrolysis was enhanced by AL, with soluble chemical oxygen demand increased by 4.59 times and volatile fatty acids increased by 5.04 times. The cumulative methane yield in the group of Co-AD by AL integrated with air (Co-(AL + air)), being 287 mL·(g VS_added) …

Driscoll’S Water-Use Efficiency (Wue) Strawberry Breeding Trial, Aidan Inoue

Plant Sciences

California’s water supply is seeing stress and growers are increasingly under pressure to lower their water use. While reducing irrigation to strawberry plants can be used to raise sugars (°bx), research on the impact of deficit irrigation on plant growth, fruit yield and quality are not yet quantified. The purpose of this experiment is to observe the effects of a ~50% deficit irrigation treatment on tabletop strawberry plants where drainage measurements and plant absorption can be recorded. Results indicate that plant vigor and total marketable yield are predominantly treatment dependent whereas fruit characteristics, including culls and berry size are reliant …

Lead Exposure Of Mainland Australia's Top Avian Predator, Jordan O. Hampton, Michael T. Lohr, Aaron J. Specht, Damien Nzabanita, Jasmin Hufschmid, Lee Berger, Kate Mcginnis, Jane Melville, Emma Bennett, James M. Pay

Research outputs 2022 to 2026

Lead (Pb) toxicity, through ingestion of lead ammunition in carcasses, is a threat to scavenging birds worldwide, but has received little attention in Australia. We analyzed lead exposure in the wedge-tailed eagle (Aquila audax), the largest raptor species found in mainland Australia and a facultative scavenger. Eagle carcasses were collected opportunistically throughout south-eastern mainland Australia between 1996 and 2022. Lead concentrations were measured in bone samples from 62 animals via portable X-ray fluorescence (XRF). Lead was detected (concentration > 1 ppm) in 84% (n = 52) of the bone samples. The mean lead concentration of birds in which lead was detected …

Correlates Of Covid-19 Vaccine Acceptance And Hesitancy In Rural Communities In Western Kenya, Fletcher J. Njororai, Kogutu Caleb Nyaranga, Wilberforce Cholo, Walter Amulla, Harrison Ndetan

Health & Kinesiology Faculty Publications and Presentations

Vaccine hesitancy is a significant global public health concern. This study sought to determine the correlates of acceptance and hesitancy regarding COVID-19 vaccines in rural populations of selected counties in Western Kenya and assess the strategies that can be used to improve COVID-19 vaccine acceptance in Kenya. The study used a quantitative research strategy with a sample of 806 individuals in the Kisumu, Vihiga, and Kakamega counties. Descriptive statistics, correlations and regression analyses were used. Of the 806 study participants, 55% were males and 45% females. Vaccine acceptance was significantly associated with being a male (AOR: 1.46, 95% CI: 1.24–1.59, …

Molecular Mechanisms Regulating Prometaphase And Metaphase States For Faithful Chromosome Segregation, Sarah Yvette Valles

Dartmouth College Ph.D Dissertations

Cells progress through different stages of the cell cycle as they ultimately prepare to divide during mitosis. Mitosis relies on many interconnected networks to carry out the coordinated events required for faithful chromosome segregation. When a cell enters mitosis, chromosomes are highly condensed and sister chromatids are held together by cohesion. Kinetochores assemble at the constricted regions on each chromosome. The kinetochore is a large macromolecular structure composed of many proteins that form the binding site for microtubules of the mitotic spindle to attach. These kinetochore-microtubule (k-MT) attachments serve to align chromosomes at the center of the cell and are …

Non-Contact Optical Spectroscopy For Tumor-Sensitive Diffuse Reflectance And Fluorescence Measurements On Murine Subcutaneous Tissue Models: Monte Carlo Modeling And Experimental Validations, Zahid Hasan, Pranto Soumik Saha, Madison O. Korfhage, Caigang Zhu

Markey Cancer Center Faculty Publications

Fiber-optic probes are commonly used in biomedical optical spectroscopy platforms for light delivery and collection. At the same time, it was reported that the inconsistent probe- sample contact could induce significant distortions in measured optical signals, which consequently cause large analysis errors. To address this challenge, non-contact optical spectroscopy has been explored for tissue characterizations. However, existing non-contact optical spectroscopy platforms primarily focused on diffuse reflectance measurements and may still use a fiber probe in which the probe was imaged onto the tissue surface using a lens, which serves as a non-contact probe for the measurements. Here, we report a …

Physical Treatments To Modify The Functionality Of Carrot Pomace And The Development Of An Enhanced Beef Patty, Jordan O.A Richards

Master's Theses

Approximately one-third of the global food produced for human consumption is lost or wasted somewhere along the food chain. Carrots are one of the most important and widely produced root vegetables grown worldwide; they are rich in many beneficial bioactive compounds such as dietary fiber and carotenoids. Every year, an estimated 29% of processed carrots are lost as waste. The U.S. is the 3^rd largest producer of carrots worldwide, 85% of which come from California. During carrot juice processing, up to 50% of the raw material remains as carrot pomace. Carrot pomace may contain up to 55% total dietary …

Pestfacts Wa Issue 16 - September 2023, Cindy L. Webster, Sarah Collins, Daniel Huberli

PestFacts WA

PestFacts WA Issue 16 - September 2023 content:

• Why is my crop patchy? Diagnose soilborne diseases to form strategies for next season
• Flag smut in wheat
• Wheat leaf rust update
• Protecting grain: ensure clean augers, field bins and silos against insects

Pestfacts Wa Issue 15 - September 2023, Cindy L. Webster, Dusty Severtson, Alan Lord, Svetlana Micic, Michael Nash, Andrea Hills

PestFacts WA

PestFacts WA Issue 15 - September 2023 contents:

• Spring control of redlegged earth mites
• Cabbage leafminer
• Monitor for slugs now to prepare for next season
• Native budworm update
• Barley loose smut – this year and going forward

Protocol For Optimizing Production And Quality Control Of Infective Ecohiv Virions, Hammodah Rawhi Hammodah Alfar, Daphne N. Pariser, Harry Chanzu, Smita Joshi, Daniёlle M. Coenen, Joshua Lykins, Kanakanagavalli Shravani Prakhya, Mary Jane Potash, Wei Chao, Jennifer Kelschenbach, David J. Volsky, Kelly Metcalf-Pate

Saha Cardiovascular Research Center Faculty Publications

EcoHIV is a model of HIV infection that recapitulates aspects of HIV-1 pathology in mice. However, there are limited published protocols to guide EcoHIV virion production. Here, we present a protocol for producing infective EcoHIV virions and essential quality controls. We describe steps for viral purification, titering, and multiple techniques to analyze infection efficacy. This protocol produces high infectivity in C57BL/6 mice which will aid investigators in generating preclinical data.

Lower Body Joint Moments During The Golf Swing In Older Adults: Comparison To Other Activities Of Daily Living, Scott K. Lynn, Junsig Wang, Abigail C. Schmitt, C. Lowry Barnes

Health, Human Performance and Recreation Faculty Publications and Presentations

Golf participation has increased dramatically in the last several years. With this increase in participation, clinicians need better evidenced based strategies to advise those golfers with different pathologies when it is safe to return to the game. Golf teaching professionals also need to understand how to alter golf mechanics to protect injured and/or diseased joints in golfers to allow them to play pain free and avoid further injury. This study used a 3-dimensional link segment model to calculate the net joint moments on the large lower limb joints (knee and hip) during golf (lead and trail leg) and two commonly …

Validation Of A Clinical Prediction Rule For Distinguishing Bacterial And Aseptic Meningitis In Pediatric Patients, Amelia L Gurley, Matt Fukuda, Ashwin Sharma, Ethan Lee, Erica Junqueira, Michael Kang, Tommy Y Kim

Children’s Nutrition Research Center Staff Publications

Introduction

The treatments and prognosis of bacterial meningitis differ greatly from those of aseptic meningitis, making early identification and differentiation essential. Several different clinical prediction rules have been developed to distinguish bacterial meningitis from aseptic meningitis. We sought to validate one clinical prediction rule for pediatric patients utilizing a centralized data warehouse that collects daily data from 184 hospitals across the United States.

Methods

We retrospectively collected data on all patients aged 29 days to 14 years who presented to Hospital Corporation of America (HCA) Healthcare hospitals from January 1, 2016, to May 31, 2021, with a diagnosis of meningitis. …

A Biological Lens On Food Deserts [Biology], Claudette Davis

Open Educational Resources

SCB101 is a non-major biology course. In Fall 2022, the course was designated as an Experiential Learning-LaGuardia Humanitarian Initiative (LHI) course in CUNYFirst. LHI is LaGuardia's experiential learning program that helps students to critically reflect on global issues and develop sustainable solutions in partnership with local and global organizations. For the 2022-2023 academic year, LHI focused on two United Nations Sustainable Development Goals (UNSDG): Goal 2 and Goal 10. UNSDG 2 aims to end hunger, achieve food security, improve nutrition, and promote sustainable agriculture. UNSDG 10 addresses reducing inequality both within and among countries. Thus, I developed an assignment to …

Mineral Licks As A Potential Nidus For Parasite Transmission, William J. Severud, Todd M. Kautz, Jerrold L. Belant, Seth A. Moore

Natural Resource Management Faculty Publications

Discrete landscape features can concentrate animals in time and space, leading to non-random interspecific encounters. These encounters have implications for predator-prey interactions, habitat selection, intraspecific competition, and transmission of parasites and other pathogens. The lifecycle of the parasitic nematode Parelaphostrongylus tenuis requires an intermediate host of a terrestrial gastropod. Natural hosts of P. tenuis are whitetailed deer, and an aberrant host of conservation concern is moose, which are susceptible to high levels of mortality as a naive host to the parasite. Intermediate hosts become infected when P. tenuis larvae are shed in deer feces, then consumed or enter the gastropod …

Influence Of Capacity Building On Nutrition Sensitivity Of The Municipal Agriculture Development Plan In Calabarzon, Philippines, Kim Leonard G. Dela Luna, Maria Theresa M. Talavera, Leila S. Africa, Clarissa B. Juanico, Nancy A. Tandang, Marison Felicidad R. Dy

The Philippine Agricultural Scientist

To improve the nutrition sensitivity of the Municipal Agriculture Development Plan (MADP) of Calabarzon, a one-group pre-test post-test design quasi-experimental study was conducted involving the Local Agriculture Planners (LAP) of 57 municipalities in the region from March to December 2021. Wilcoxon Paired Signed Rank was used to determine significant differences in the nutrition sensitivity of the MADP and level of knowledge, attitude, and self-efficacy of the LAP before and after the intervention. Binary logistic regression analysis was also performed to model the change in the level of the nutrition sensitivity of the MADP. The LAP's level of knowledge, attitude, and …

Digestible And Metabolizable Energy In Ground Yellow Corn, Rice Bran, And Copra Meal Fed To 10 To 15 Kg Philippine Native Pigs (Benguet Strain), Mary Arnel D. Garcia

The Philippine Agricultural Scientist

The experiment was conducted to determine the digestible energy (DE), metabolizable energy (ME), and apparent total tract digestibility (ATTD) of gross energy in ground yellow corn, rice bran, and copra meal when fed to Philippine native pigs. Nine barrows with an average initial bodyweight of 10 kg and ages ranging from 60 to 75 d old were housed individually in metabolism crates and randomly allotted to a triplicated incomplete 3 × 2 Latin square design with three diets and two periods. A corn-based diet containing 94.89% yellow corn and two diets containing 66.42% yellow corn and 30% rice bran or …

Alternate Day Feeding As A Cost-Effective Strategy For Tank Culture Of The Pacific Shortfin Eel Anguilla Bicolor Pacifica, Frolan A. Aya, John Carlo L. Unida, Maria Rowena R. Romana-Eguia, Nerissa D. Salayo

The Philippine Agricultural Scientist

There is a growing interest in the aquaculture of tropical anguillid eels as an export commodity. However, studies on feeding strategies, and the present demand to reduce feed costs need to be addressed to ensure the economic viability of eel farming. In this study, the effects of daily (DF) and alternate day (ADF) feeding on growth, feed utilization, body composition, blood chemistry, liver and intestinal morphology, and economic viability in the Pacific shortfin eel Anguilla bicolor pacifica were examined. Each feeding group of 30 elvers (166.25 ± 16.23 g mean initial wt) were randomly stocked in triplicate 4 m^{3 …}

Development And Characterization Of Rice Lines Carrying Both Sub1 And Anaerobic Germination Tolerance: Sub1a Does Not Inhibit Ag [Research Note], Georgina V. Vergara, Abdelbagi M. Ismail

The Philippine Agricultural Scientist

Accelerated coleoptile elongation in flooded soils allowed seedling shoots to reach the water surface to maintain gas exchange and CO₂ fixation. Rice genotypes with tolerance of flooding during germination (anaerobic germination, AG) exhibited fast coleoptile elongation as an escape mechanism. On the other hand, tolerance of complete submergence during the vegetative stage, conferred by SUB1A, involved growth retardation to conserve energy for maintenance metabolism, with resumption of growth upon de-submergence. Combining genes controlling flood tolerance at these two stages with contrasting mechanisms was necessary in flood-prone areas for protection during germination under direct seeding and during vegetative stage. …