Life Sciences Commons^™

The Rna Cargo In Small Extracellular Vesicles From Chicken Eggs Is Bioactive In C57bl/6j Mice And Human Peripheral Blood Mononuclear Cells Ex Vivo, Deborah Fratantonio, Javaria Munir, Jiang Shu, Katherine Howard, Scott R. Baier, Juan Cui, Janos Zempleni

Department of Nutrition and Health Sciences: Faculty Publications

Small extracellular vesicles (sEVs) and their RNA cargo in milk are bioavailable in humans, pigs, and mice, and their dietary depletion and supplementation elicits phenotypes. Little is known about the content and biological activity of sEVs in foods of animal origin other than milk. Here we tested the hypothesis that sEVs in chicken eggs (Gallus gallus) facilitate the transfer of RNA cargo from an avian species to humans and mice, and their dietary depletion elicits phenotypes. sEVs were purified from raw egg yolk by ultracentrifugation and authenticated by transmission electron microscopy, nano-tracking device, and immunoblots. The miRNA profile …

Effect Of Npk Fertilizer Dose And Ga3 Concentration On Growth, Yield, And Yield Quality Of Coix Lacryma-Jobi L. Var. Ma-Yuen From Ratoons, Tati Nurmala, Falih Ijlal Septian, Agus Wahyudin, Fiky Yulianto Wicaksono

Jurnal Kultivasi

Salah satu jenis serealia yang dapat dimanfaatkan sebagai sumber pangan alternatif adalah hanjeli (Coix lacryma-jobi L.). Tanaman hanjeli masih memiliki banyak kendala yaitu produktivitasnya masih rendah di Indonesia serta umurnya yang lama. Peratunan memiliki beberapa keuntungan diantaranya yaitu mengurangi biaya produksi, umurnya relatif lebih pendek dibandingkan tanaman utama, dan kebutuhan air lebih sedikit. Pemupukan dan pengaplikasian hormon giberelin diharapkan mampu meningkatkan pertumbuhan dan produksi hanjeli. Penelitian ini bertujuan untuk mengetahui interaksi pupuk NPK dan giberelin (GA3) terhadap pertumbuhan dan hasil tanaman ratun hanjeli pulut. Percobaan ini dilaksanakan di Kebun Percobaan Fakultas Pertanian Universitas Padjadjaran, Jatinangor, Kabupaten Sumedang, Jawa Barat pada …

Bayesian Adaptive Model Selection Design For Optimal Biological Dose Finding In Phase I/Ii Clinical Trials, Ruitao Lin, Guosheng Yin, Haolun Shi

Faculty, Staff and Student Publications

Identification of the optimal dose presents a major challenge in drug development with molecularly targeted agents, immunotherapy, as well as chimeric antigen receptor T-cell treatments. By casting dose finding as a Bayesian model selection problem, we propose an adaptive design by simultaneously incorporating the toxicity and efficacy outcomes to select the optimal biological dose (OBD) in phase I/II clinical trials. Without imposing any parametric assumption or shape constraint on the underlying dose-response curves, we specify curve-free models for both the toxicity and efficacy endpoints to determine the OBD. By integrating the observed data across all dose levels, the proposed design …

The Abscopal Effect In Patients With Cancer Receiving Immunotherapy, Blessie Elizabeth Nelson, Jacob J Adashek, Steven H Lin, Vivek Subbiah

Faculty, Staff and Student Publications

Interest in the abscopal effect has been rekindled over the past decade with the advent of immunotherapy. Although purportedly elusive, this phenomenon is being increasingly reported. Venturing further using a multimodality approach with an array of systemic agents and unconventional modalities is direly needed. In this perspective, we describe the fundamentals of abscopal responses (ARs), explore combinations with systemic therapies that hold promise in eliciting ARs, and reconnoiter unconventional modalities that may induce ARs. Finally, we scrutinize prospective agents and modalities that exhibit preclinical ability to elicit ARs and discuss prognostic biomarkers, their limitations, and pathways of abscopal resistance for …

Antibody-Drug Conjugates For Multiple Myeloma: Just The Beginning, Or The Beginning Of The End?, Upasana Ray, Robert Z Orlowski

Faculty, Staff and Student Publications

Multiple myeloma is a malignancy of immunoglobulin-secreting plasma cells that is now often treated in the newly diagnosed and relapsed and/or refractory settings with monoclonal antibodies targeting lineage-specific markers used either alone or in rationally designed combination regimens. Among these are the anti-CD38 antibodies daratumumab and isatuximab, and the anti-Signaling lymphocytic activation molecule family member 7 antibody elotuzumab, all of which are used in their unconjugated formats. Single-chain variable fragments from antibodies also form a key element of the chimeric antigen receptors (CARs) in the B-cell maturation antigen (BCMA)-targeted CAR T-cell products idecabtagene vicleucel and ciltacabtagene autoleucel, which are approved …

Antibody-Drug Conjugates For Multiple Myeloma: Just The Beginning, Or The Beginning Of The End?, Upasana Ray, Robert Z Orlowski

Faculty, Staff and Student Publications

Multiple myeloma is a malignancy of immunoglobulin-secreting plasma cells that is now often treated in the newly diagnosed and relapsed and/or refractory settings with monoclonal antibodies targeting lineage-specific markers used either alone or in rationally designed combination regimens. Among these are the anti-CD38 antibodies daratumumab and isatuximab, and the anti-Signaling lymphocytic activation molecule family member 7 antibody elotuzumab, all of which are used in their unconjugated formats. Single-chain variable fragments from antibodies also form a key element of the chimeric antigen receptors (CARs) in the B-cell maturation antigen (BCMA)-targeted CAR T-cell products idecabtagene vicleucel and ciltacabtagene autoleucel, which are approved …

Antibody-Drug Conjugates For Multiple Myeloma: Just The Beginning, Or The Beginning Of The End?, Upasana Ray, Robert Z Orlowski

Faculty, Staff and Student Publications

Multiple myeloma is a malignancy of immunoglobulin-secreting plasma cells that is now often treated in the newly diagnosed and relapsed and/or refractory settings with monoclonal antibodies targeting lineage-specific markers used either alone or in rationally designed combination regimens. Among these are the anti-CD38 antibodies daratumumab and isatuximab, and the anti-Signaling lymphocytic activation molecule family member 7 antibody elotuzumab, all of which are used in their unconjugated formats. Single-chain variable fragments from antibodies also form a key element of the chimeric antigen receptors (CARs) in the B-cell maturation antigen (BCMA)-targeted CAR T-cell products idecabtagene vicleucel and ciltacabtagene autoleucel, which are approved …

Serinc5 Restricts Hiv Membrane Fusion By Altering Lipid Order And Heterogeneity In The Viral Membrane, Amanda E Ward, Daria Sokovikova, Melvin Neal Waxham, Frederick A Heberle, Ilya Levental, Kandice R Levental, Volker Kiessling, Judith M White, Lukas K Tamm

Faculty, Staff and Student Publications

The host restriction factor, Serinc5, incorporates into budding HIV particles and inhibits their infection by an incompletely understood mechanism. We have previously reported that Serinc5 but not its paralogue, Serinc2, blocks HIV cell entry by membrane fusion, specifically by inhibiting fusion pore formation and dilation. A body of work suggests that Serinc5 may alter the conformation and clustering of the HIV fusion protein, Env. To contribute an additional perspective to the developing model of Serinc5 restriction, we assessed Serinc2 and Serinc5's effects on HIV pseudoviral membranes. By measuring pseudoviral membrane thickness via cryo-electron microscopy and order via the fluorescent dye, …

Soil Nutrient And Invertase-Producing Bacteria Relation Impact On Cilembu Sweet Potato (Ipomoea Batatas L.) Growth: A Study Based On Upland And Wetland Cultivation In Cilembu Village Sumedang District, Eso Solihin, Syaiful Anwar, Dwi Andreas Santoso, Budi Nugroho, Purwono, Rija Sudirja, Haris Maulana, Nadia Nuraniya Kamaluddin, Agung Karuniawan

Jurnal Kultivasi

Environment is one important factors that must be considered in supporting sweet potato productivity. Environmental factors can be biotic and abiotic, including the availability of nutrients and microbes in the soil. This study aimed to identify the nutrient content of the soil in paddy fields and dry fields, identify the total invertase microorganisms in paddy fields and dry fields, and identify the relationship between soil nutrients and microorganisms during the growth of Cilembu sweet potato in dry and paddy fields agroecosystems. This research was conducted on dry fields and paddy fields in Cilembu Village, Sumedang Regency. The experimental design used …

Feature Selection For Support Vector Regression Using A Genetic Algorithm, Shannon B Mckearnan, David M Vock, G Elisabeta Marai, Guadalupe Canahuate, Clifton D Fuller, Julian Wolfson

Faculty, Staff and Student Publications

Support vector regression (SVR) is particularly beneficial when the outcome and predictors are nonlinearly related. However, when many covariates are available, the method's flexibility can lead to overfitting and an overall loss in predictive accuracy. To overcome this drawback, we develop a feature selection method for SVR based on a genetic algorithm that iteratively searches across potential subsets of covariates to find those that yield the best performance according to a user-defined fitness function. We evaluate the performance of our feature selection method for SVR, comparing it to alternate methods including LASSO and random forest, in a simulation study. We …

Herbicide Drift Vs. Crop Resilience – The Influence Of Micro-Rates, Milan Brankov, Bruno Canella Vieira, Miloš Rajković, Milena Simić, Vukadinović Jelena, Violeta Mandić, Vesna Dragičević

Department of Agronomy and Horticulture: Faculty Publications

A greenhouse study was conducted to test the effects of low herbicide dose exposure on different crops measuring visible damages, plant height, leaf area, and dry matter. Seven crops were tested: lettuce (Lactuca sativa L.) cv. Novosadska majska maslena, oil pumpkin (Cucurbita maxima Duch) cv. Olivija, oilseed rape (Brassica napus L.) cv. NS Ras, pepper (Capsicum annuum L.) cv. Kurtovska kapija, soybean (Glycine max (L.) Merr) cv. ZP Laura, sunflower (Helianthus annuus L.) cv. NS Kruna, and tomato (Solanum lycopersicum L.) cv. Dunavski Rubin. Herbicide dicamba in the range of 0.14 to 1 …

Stress: An Adaptive Problem Common To Plant And Animal Science, Özlem Yilmaz

Animal Sentience

It is very hard to determine whether plants have “felt states,” but they do have specific states, such as stress, that depend on sensory input from their environment. Plants do not have neurons or brains, but they do have xylem and phloem, as well as many signalling molecules that are dynamically distributed in their bodies, enabling them to produce systemic responses to environmental stimuli. One common topic in plant and animal science that may or may not prove to involve sentience but that does involve the same molecules is stress.

Mmp9 Clears The Way For Metastatic Cell Penetration Across The Blood-Brain Barrier, Joseph H Mccarty

Faculty, Staff and Student Publications

Although brain metastases are 10-fold more prevalent than primary brain cancers, relatively little is understood about the genes and pathways that promote metastatic cell entry, growth, and survival in the brain. Hence, determining how metastatic tumors colonize the brain and thrive within the neural microenvironment is a topic of both fundamental importance and direct clinical relevance. In this issue, a report by Karreman and colleagues explores pathways that are exploited by metastatic tumor cells to arrest in the circulation, cross the endothelial blood-brain barrier (BBB), and thrive in the brain microenvironment. The authors used elegant imaging tools including intravital fluorescence …

Antibody-Drug Conjugates For Multiple Myeloma: Just The Beginning, Or The Beginning Of The End?, Upasana Ray, Robert Z Orlowski

Faculty, Staff and Student Publications

Multiple myeloma is a malignancy of immunoglobulin-secreting plasma cells that is now often treated in the newly diagnosed and relapsed and/or refractory settings with monoclonal antibodies targeting lineage-specific markers used either alone or in rationally designed combination regimens. Among these are the anti-CD38 antibodies daratumumab and isatuximab, and the anti-Signaling lymphocytic activation molecule family member 7 antibody elotuzumab, all of which are used in their unconjugated formats. Single-chain variable fragments from antibodies also form a key element of the chimeric antigen receptors (CARs) in the B-cell maturation antigen (BCMA)-targeted CAR T-cell products idecabtagene vicleucel and ciltacabtagene autoleucel, which are approved …

Influence Of Metabolic Interventions On Animal Aging And Lifespan, Bhaswati Ghosh

LSU Doctoral Dissertations

Aging is associated with metabolic rewiring. Most lifespan-extending longevity interventions target metabolic pathways. Genetic or pharmacological metabolic approaches that mediate longer lifespan and healthspan, are often linked to detrimental effects on human health. Here, I show that supplementation of botanical extracts from Artemisia scoparia (SCO), dramatically increases animal lifespan. Mechanistically, this lifespan extension is dependent on AMPK-DAF-16 signaling via inhibition of the insulin pathway. In SCO-fed worms, longer lifespan was accompanied by higher fat storage and improved resiliency to age-related physiological stress. Notably, DAF-16, the master regulator of longevity, activated the fatty acid desaturation processes, which promoted the accumulation of …

The Human Superiority Complex, Peyton Kinavey

Undergraduate Research Competition

For decades humans have possessed a superiority complex regarding nonhuman beings, but this has not always been the case. Through analyzing prehistoric art, such as therianthropic figurines and nonhuman animal motifs in cave paintings, it appears that prehistoric humans practiced respect for fellow animals and even viewed them as equals. These results are comparable with ethnographic data from contemporary hunter-gatherer and small-scale agricultural societies all over the world. Thus, it is suggested that the rise of industrial agriculture and the meat and dairy industries, alongside the philosophical justifications for their continuance, may have contributed to the widespread idea of human …

A New Monotypic Genus And Species From China, Langxie Feti Gen. Et Sp. N. (Scorpiones: Buthidae), Victoria Tang, Qingquan Jia, Leonhard Liu

Euscorpius

A new monotypic genus, Langxie gen. n., is described from Xizang (Tibet), China. The new genus shares an important morphological character with Afrolychas Kovařík, 2019: absence of external accessory denticles (EADs) along the sixth row of median denticles (MDs) on the pedipalp movable finger. Langxie gen. n. is different from Afrolychas in the following aspects: loss of EAD near the proximally enlarged MD within each row (i. e., loss of all EAD on the movable finger; this also distinguishes the new genus from other related genera in the “(Ananteris + Isometrus)” clade (Štundlová et …

Identifying Functional Imaging Markers In Psychosis Using Fmri, Ruiqi Wang

MUSC Theses and Dissertations

Major types of psychotic disorders include schizophrenia (SCZ), bipolar disorder (BP) and schizoaffective disorder (SZA). These disorders have profound and overlapping symptoms with marked cognitive deficits, and their diagnosis relies on symptom clusters. The treatments for psychosis are usually focused on positive symptoms such as delusions and hallucinations. Although cognitive impairments underlie both positive and negative symptoms, functional brain imaging biomarkers that can reliably predict a patient's cognitive deficits are still lacking. Therefore, this project used functional MRI to explore the feasibility of using functional connectivity (FC) to predict cognitive performance.

A total of 207 subjects (BP: 79, SZ/SZA: 48, …

Ontogeny Of Sleeping Behaviour In Four Solitary Species Of Anolis Lizards, Joseph C. Barnett, Steven Poe

Biology ETDs

Despite the nearly ubiquitous nature of sleep in the animal kingdom, behavioural research on sleep has focused on a few model organisms and widespread behaviours studied in artificial laboratory settings. In this study, we examine the ontogeny of sleeping perch selection in four closely related species of arboreal lizard in situ. The study species each occupy similar habitats and share "solitary" ecology wherein potential lizard competitors are absent, thus providing four partially independent replicates with which to test hypotheses. We find that structural niche, analysed as perch height, varies by age and sex. Males sleep higher than females and adults …

Remote Sensing In Mapping Biodiversity – A Case Study Of Epiphytic Lichen Communities, Ida Palmroos, Veera Norros, Sarita Keski-Saari, Janne Mäyrä, Topi Tanhuanpää, Sonja Kivinen, Juha Pykälä, Peter Kullberg, Timo Kumpula, Petteri Vihervaara

Aspen Bibliography

In boreal forests, European aspen (Populus tremula L.) is a keystone species that hosts a variety of accompanying species including epiphytic lichens. Forest management actions have led to a decrease in aspen abundance and subsequent loss of suitable habitats of epiphytic lichens. In this study, we evaluate the environmental responses of epiphytic lichen species richness and community composition on aspen, focusing on the potential of remote sensing by combined hyperspectral imaging and airborne laser scanning to identify suitable habitats for epiphytic lichens. We measured different substrate and habitat parameters in the field (e.g., aspen diameter and bark pH) …

New Perspectives On Foot Segment Forces And Joint Kinetics - Integrating Plantar Shear Stresses And Pressures With Multi-Segment Foot Modeling, Dustin A. Bruening, Spencer R. Petersen, Sarah T. Ridge

Faculty Publications

The role of the foot in gait is not well understood, in part due to challenges in capturing and utilizing segmental ground reaction forces. The purposes of this study were to 1) develop methodology to integrate plantar pressure/shear stresses with a multi-segment foot model, and 2) generate and display key normative data from this combined system. Twenty-six young healthy adults walked barefoot (1.3 m/s) across a pressure/shear sensor with markers matching a published 4-segment kinetic foot model. A novel anatomical/geometric masking method was developed that successfully separated regions aligned with model segmentation. This template-based method can be automated and customized …

Cancer Neuroscience: State Of The Field, Emerging Directions, Frank Winkler, Humsa S Venkatesh, Moran Amit, Tracy Batchelor, Ihsan Ekin Demir, Benjamin Deneen, David H Gutmann, Shawn Hervey-Jumper, Thomas Kuner, Donald Mabbott, Michael Platten, Asya Rolls, Erica K Sloan, Timothy C Wang, Wolfgang Wick, Varun Venkataramani, Michelle Monje

Faculty, Staff and Student Publications

The nervous system governs both ontogeny and oncology. Regulating organogenesis during development, maintaining homeostasis, and promoting plasticity throughout life, the nervous system plays parallel roles in the regulation of cancers. Foundational discoveries have elucidated direct paracrine and electrochemical communication between neurons and cancer cells, as well as indirect interactions through neural effects on the immune system and stromal cells in the tumor microenvironment in a wide range of malignancies. Nervous system-cancer interactions can regulate oncogenesis, growth, invasion and metastatic spread, treatment resistance, stimulation of tumor-promoting inflammation, and impairment of anti-cancer immunity. Progress in cancer neuroscience may create an important new …

Dopamine D2 Receptors As A Peripheral Biomarker For Brain Dopamine Levels, Christina Small

Theses and Dissertations

The ability to objectively index dopamine (DA) levels in the brain has the potential to revolutionize the field of neuropsychopharmacology, as having a peripheral biomarker of brain DA would enable the objective monitoring of the progression of Parkinson's disease (PD) and other DA-dependent psychiatric states. Of particular relevance to commercialization, it would provide an objective measure of treatment efficacy. We used a DA-depletion approach to determine if peripheral D2Rs are a biomarker for brain DA; mainly, the 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP) neurotoxin model and PD subjects, which are well-known models of DA depletion in the midbrain of rodents and humans, respectively. Dopamine …

Decontamination And Annotation Of The Draft Genome Sequence Of The Oomycete Lagenidium Giganteum Arsef 373, William R. Morgan, Aurelien Tartar

Biology Faculty Articles

Scaffolds of a previously published Lagenidium giganteum ARSEF 373 genome assembly found at GenBank were filtered to remove contaminating sequences. Genome annotation of the 437 scaffolds (total length, 56.2 MB; GC content, 58.8%) with confirmed L. giganteum sequences identified 13,069 potential protein-coding genes, encoding at least 737 predicted secreted proteins and .100 putative translocated effectors

Assessment Of Anti-Hiv-1 Guide Rna Efficacy In Cells Containing The Viral Target Sequence, Corresponding Grna, And Crispr/Cas9., Alexander G Allen, Cheng-Han Chung, Stephen D. Worrell, Glad Nwaozo, Rebekah Madrid, Anthony R. Mele, Will Dampier, Michael R. Nonnemacher, Brian Wigdahl

Kimmel Cancer Center Faculty Papers

The Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)/Cas9 gene editing system has been shown to be effective at inhibiting human immunodeficiency virus type 1 (HIV-1). Studies have not consistently used a trackable dual reporter system to determine what cells received the Cas9/gRNA to determine the overall knockdown of HIV. Some studies have used stably transduced cells under drug selection to accomplish this goal. Here a two-color system was used that allows tracking of viral protein expression and which cells received the CRISPR/Cas9 system. These experiments ensured that each gRNA used was a perfect match to the intended target to remove …

Inhibiting Effects Of Methyllycaconitine (Mla) On Pnu-282987 Induced Neurogenesis In Blast-Exposed Mouse Retinas, Nastia Zhiyew Chan

Honors Theses

Irreversible vision loss can be caused by retinal damage, disease, or aging. In recent years, the prevalence of ocular damage due to blast trauma has been increasing due to the modernization of warfare. Adult mammalian retinal neurons were previously thought to lack the capacity for regeneration to reverse vision loss, which deemed the effects of many ocular damages permanent. However, recent studies from this lab have shown that PNU-282987, an agonist to the alpha 7 subtype of neural nicotinic acetylcholine receptors, will result in neural regeneration in adult mammalian cells. For this research project, I will be using Methyllycaconitine (MLA), …

The Effect Of Callery Pear (Pyrus Calleryana) On Soil Macrofauna (Diplopoda And Oligochaeta), Joseph M. Mcgee

Biology Theses

Callery pear (Pyrus calleryana) is a relatively recent invader of North America. Its ecological effects are still being explored, including those affecting soil macrofauna such as millipedes (Diplopoda) and earthworms (Clitellata: Oligochaeta). These animals play important roles in many soil processes so understanding how they respond to invasive species is vital to soil health. A previous study exploring potential herbicide control was completed in 2019, however as of 2022 there are still treatment zones with little to no Callery pear alongside fully invaded plots, providing an optimal habitat mosaic for comparison. This allowed us to pursue two research …

Precision Medicine, Ancestry, Genetics And Race, Lucio Miele

School of Medicine Faculty Publications

DiscoverBMB, March 25 - 28, 2023, Seattle, WA

Pancreatic Cancer: Advances And Challenges, Christopher J Halbrook, Costas A Lyssiotis, Marina Pasca Di Magliano, Anirban Maitra

Faculty, Staff and Student Publications

Pancreatic ductal adenocarcinoma (PDAC) remains one of the deadliest cancers. Significant efforts have largely defined major genetic factors driving PDAC pathogenesis and progression. Pancreatic tumors are characterized by a complex microenvironment that orchestrates metabolic alterations and supports a milieu of interactions among various cell types within this niche. In this review, we highlight the foundational studies that have driven our understanding of these processes. We further discuss the recent technological advances that continue to expand our understanding of PDAC complexity. We posit that the clinical translation of these research endeavors will enhance the currently dismal survival rate of this recalcitrant …

Targeting Of Epigenetic Co-Dependencies Enhances Anti-Aml Efficacy Of Menin Inhibitor In Aml With Mll1-R Or Mutant Npm1, Warren Fiskus, Christopher P Mill, Christine Birdwell, John A Davis, Kaberi Das, Steffen Boettcher, Tapan M Kadia, Courtney D Dinardo, Koichi Takahashi, Sanam Loghavi, Michael J Soth, Tim Heffernan, Gerard M Mcgeehan, Xinjia Ruan, Xiaoping Su, Christopher R Vakoc, Naval Daver, Kapil N Bhalla

Faculty, Staff and Student Publications

Monotherapy with Menin inhibitor (MI), e.g., SNDX-5613, induces clinical remissions in patients with relapsed/refractory AML harboring MLL1-r or mtNPM1, but most patients either fail to respond or eventually relapse. Utilizing single-cell RNA-Seq, ChiP-Seq, ATAC-Seq, RNA-Seq, RPPA, and mass cytometry (CyTOF) analyses, present pre-clinical studies elucidate gene-expression correlates of MI efficacy in AML cells harboring MLL1-r or mtNPM1. Notably, MI-mediated genome-wide, concordant, log2 fold-perturbations in ATAC-Seq and RNA-Seq peaks were observed at the loci of MLL-FP target genes, with upregulation of mRNAs associated with AML differentiation. MI treatment also reduced the number of AML cells expressing the stem/progenitor cell signature. A …