1,763 results on '"COLLIN R"'
Search Results
2. Running Cadence and the Influence on Frontal Plane Knee Deviations
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Jacob R. Peterson, Collin R. Sanders, Nathan S. Reynolds, Conner A. Alford, Michael J. Platt, Jeffrey J. Parr, Felix Twum, James R. Burns, and David R. Dolbow
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running ,cadence ,knee ,injury prevention ,patellofemoral pain ,Medicine (General) ,R5-920 - Abstract
Background: Patellofemoral pain is one of the most common injuries in recreational runners, with significant implications for dynamic knee valgus. The knee valgus angle can be corrected surgically or with a more conservative non-operative approach. Increasing running cadence may be an effective biomechanical gait retraining intervention to reduce knee valgus and thus patellofemoral pain. The primary purpose of this study was to examine if an increase in cadence could change the knee valgus angle. Methods: Ten asymptomatic recreational runners were recorded running on a treadmill during control and experimental intervals. Each interval lasted five minutes, and participants ran at 100% and 110% of their baseline cadence. Peak angles of knee valgus were compared between both intervals using the video analysis software application Dartfish Express. A paired sample, a two-tailed t-test, was used to determine the significant difference between bilateral frontal plane knee angle measurements during both intervals. Results: The average decrease in knee valgus measured in control versus experimental intervals was 2.23° for the right leg and 2.05° for the left leg, with a significance of p < 0.001 and p < 0.001, respectively. Conclusion: The results indicated a statistically significant decrease in angles of dynamic knee valgus, attributable to increased cadence. These changes in knee valgus angle are likely to have a positive impact on preventing and reducing pain associated with PFP.
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- 2024
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3. A Laboratory‐Validated, Graph‐Based Flow and Transport Model for Naturally Fractured Media
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Collin R. Sutton and Christopher Zahasky
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fractures ,flow and transport experiments ,positron emission tomography ,radiotracer ,graph models ,Geophysics. Cosmic physics ,QC801-809 - Abstract
Abstract Fractures are a primary feature controlling flow, transport, and coupled processes in geologic systems. To date, experimental image‐based observations of these processes have been challenging. Here, we use pulse‐tracer experiments with a conservative radiotracer ([18F]‐fludeoxyglucose) spanning multiple flow rates with simultaneous positron emission tomography imaging to characterize transport in a 5.08 cm fractured Sierra granite core. A graph‐based, laboratory‐validated flow and transport model is successfully demonstrated to describe the conservative solute transport in the natural fracture. Model network complexity, determined by the number of nodes and edges, significantly impacts model fit to observed data. Large graphs over‐describe a fracture plane and act similarly to a porous medium while small graphs oversimplify the solute transport behavior. To our knowledge, this work provides the first validation of graph‐based flow and transport models across a range of experimental conditions and sets the groundwork for upscaling to more complex and computationally efficient fracture models.
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- 2025
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4. Beyond Point Masses. II. Non-Keplerian Shape Effects Are Detectable in Several TNO Binaries
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Benjamin C. N. Proudfoot, Darin A. Ragozzine, Meagan L. Thatcher, Will Grundy, Dallin J. Spencer, Tahina M. Alailima, Sawyer Allen, Penelope C. Bowden, Susanne Byrd, Conner D. Camacho, Gibson H. Campbell, Edison P. Carlisle, Jacob A. Christensen, Noah K. Christensen, Kaelyn Clement, Benjamin J. Derieg, Mara K. Dille, Cristian Dorrett, Abigail L. Ellefson, Taylor S. Fleming, N. J. Freeman, Ethan J. Gibson, William G. Giforos, Jacob A. Guerrette, Olivia Haddock, S. Ashton Hammond, Zachary A. Hampson, Joshua D. Hancock, Madeline S. Harmer, Joseph R. Henderson, Chandler R. Jensen, David Jensen, Ryleigh E. Jensen, Joshua S. Jones, Cameron C. Kubal, Jacob N. Lunt, Stephanie Martins, McKenna Matheson, Dahlia Maxwell, Timothy D. Morrell, McKenna M. Myckowiak, Maia A. Nelsen, Spencer T. Neu, Giovanna G. Nuccitelli, Kayson M. Reardon, Austin S. Reid, Kenneth G. Richards, Megan R. W. Robertson, Tanner D. Rydalch, Conner B. Scoresby, Ryan L. Scott, Zacory D. Shakespear, Elliot A. Silveira, Grace C. Steed, Christiana Z. Suggs, Garrett D. Suggs, Derek M. Tobias, Matthew L. Toole, McKayla L. Townsend, Kade L. Vickers, Collin R. Wagner, Madeline S. Wright, and Emma M. A. Zappala
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Trans-Neptunian objects ,Small Solar System bodies ,Asteroid satellites ,Astronomy ,QB1-991 - Abstract
About 40 trans-Neptunian binaries (TNBs) have fully determined orbits with about 10 others being solved except for breaking the mirror ambiguity. Despite decades of study, almost all TNBs have only ever been analyzed with a model that assumes perfect Keplerian motion (e.g., two point masses). In reality, all TNB systems are non-Keplerian due to nonspherical shapes, possible presence of undetected system components, and/or solar perturbations. In this work, we focus on identifying candidates for detectable non-Keplerian motion based on sample of 45 well-characterized binaries. We use MultiMoon , a non-Keplerian Bayesian inference tool, to analyze published relative astrometry allowing for nonspherical shapes of each TNB system’s primary. We first reproduce the results of previous Keplerian fitting efforts with MultiMoon , which serves as a comparison for the non-Keplerian fits and confirms that these fits are not biased by the assumption of a Keplerian orbit. We unambiguously detect non-Keplerian motion in eight TNB systems across a range of primary radii, mutual orbit separations, and system masses. As a proof of concept for non-Keplerian fitting, we perform detailed fits for (66652) Borasisi-Pabu, possibly revealing a J _2 ≈ 0.44, implying Borasisi (and/or Pabu) may be a contact binary or an unresolved compact binary. However, full confirmation of this result will require new observations. This work begins the next generation of TNB analyses that go beyond the point mass assumption to provide unique and valuable information on the physical properties of TNBs with implications for their formation and evolution.
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- 2024
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5. Harnessing Plant Sugar Metabolism for Glycoengineering
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Sophia N. Tang, Collin R. Barnum, Matthew J. Szarzanowicz, Sasilada Sirirungruang, and Patrick M. Shih
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glycoengineering ,metabolic engineering ,glycoconjugates ,glycosides ,carbohydrates ,nucleotide sugars ,Biology (General) ,QH301-705.5 - Abstract
Plants possess an innate ability to generate vast amounts of sugar and produce a range of sugar-derived compounds that can be utilized for applications in industry, health, and agriculture. Nucleotide sugars lie at the unique intersection of primary and specialized metabolism, enabling the biosynthesis of numerous molecules ranging from small glycosides to complex polysaccharides. Plants are tolerant to perturbations to their balance of nucleotide sugars, allowing for the overproduction of endogenous nucleotide sugars to push flux towards a particular product without necessitating the re-engineering of upstream pathways. Pathways to produce even non-native nucleotide sugars may be introduced to synthesize entirely novel products. Heterologously expressed glycosyltransferases capable of unique sugar chemistries can further widen the synthetic repertoire of a plant, and transporters can increase the amount of nucleotide sugars available to glycosyltransferases. In this opinion piece, we examine recent successes and potential future uses of engineered nucleotide sugar biosynthetic, transport, and utilization pathways to improve the production of target compounds. Additionally, we highlight current efforts to engineer glycosyltransferases. Ultimately, the robust nature of plant sugar biochemistry renders plants a powerful chassis for the production of target glycoconjugates and glycans.
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- 2023
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6. Phase-space Energization of Ions in Oblique Shocks
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James Juno, Collin R. Brown, Gregory G. Howes, Colby C. Haggerty, Jason M. TenBarge, Lynn B. Wilson III, Damiano Caprioli, and Kristopher G. Klein
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Plasma astrophysics ,Shocks ,Plasma physics ,Space plasmas ,High energy astrophysics ,Astrophysics ,QB460-466 - Abstract
Examining energization of kinetic plasmas in phase space is a growing topic of interest, owing to the wealth of data in phase space compared to traditional bulk energization diagnostics. Via the field-particle correlation (FPC) technique and using multiple means of numerically integrating the plasma kinetic equation, we have studied the energization of ions in phase space within oblique collisionless shocks. The perspective afforded to us with this analysis in phase space allows us to characterize distinct populations of energized ions. In particular, we focus on ions that reflect multiple times off the shock front through shock-drift acceleration, and how to distinguish these different reflected populations in phase space using the FPC technique. We further extend our analysis to simulations of three-dimensional shocks undergoing more complicated dynamics, such as shock ripple, to demonstrate the ability to recover the phase-space signatures of this energization process in a more general system. This work thus extends previous applications of the FPC technique to more realistic collisionless shock environments, providing stronger evidence of the technique’s utility for simulation, laboratory, and spacecraft analysis.
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- 2023
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7. Structural and biochemical basis for regiospecificity of the flavonoid glycosyltransferase UGT95A1
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Sirirungruang, Sasilada, Blay, Vincent, Scott, Yasmine F, Pereira, Jose H, Hammel, Michal, Barnum, Collin R, Adams, Paul D, and Shih, Patrick M
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Biochemistry and Cell Biology ,Medicinal and Biomolecular Chemistry ,Chemical Sciences ,Biological Sciences ,Generic health relevance ,Glycosylation ,Glycosyltransferases ,Substrate Specificity ,Flavonoids ,Crystallography ,X-Ray ,Plant Proteins ,Binding Sites ,Luteolin ,Models ,Molecular ,Protein Conformation ,SAXS ,crystal structure ,enzyme catalysis ,enzyme kinetics ,enzyme structure ,glycoside ,glycosylation ,glycosyltransferases ,molecular docking ,molecular dynamics ,Medical and Health Sciences ,Biochemistry & Molecular Biology ,Biological sciences ,Biomedical and clinical sciences ,Chemical sciences - Abstract
Glycosylation is a predominant strategy plants use to fine-tune the properties of small molecule metabolites to affect their bioactivity, transport, and storage. It is also important in biotechnology and medicine as many glycosides are utilized in human health. Small molecule glycosylation is largely carried out by family 1 glycosyltransferases. Here, we report a structural and biochemical investigation of UGT95A1, a family 1 GT enzyme from Pilosella officinarum that exhibits a strong, unusual regiospecificity for the 3'-O position of flavonoid acceptor substrate luteolin. We obtained an apo crystal structure to help drive the analyses of a series of binding site mutants, revealing that while most residues are tolerant to mutations, key residues M145 and D464 are important for overall glycosylation activity. Interestingly, E347 is crucial for maintaining the strong preference for 3'-O glycosylation, while R462 can be mutated to increase regioselectivity. The structural determinants of regioselectivity were further confirmed in homologous enzymes. Our study also suggests that the enzyme contains large, highly dynamic, disordered regions. We showed that while most disordered regions of the protein have little to no implication in catalysis, the disordered regions conserved among investigated homologs are important to both the overall efficiency and regiospecificity of the enzyme. This report represents a comprehensive in-depth analysis of a family 1 GT enzyme with a unique substrate regiospecificity and may provide a basis for enzyme functional prediction and engineering.
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- 2024
8. Utilizing Plant Synthetic Biology to Improve Human Health and Wellness
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Collin R. Barnum, Benjamin J. Endelman, and Patrick M. Shih
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plant synthetic biology ,natural products ,nutraceuticals ,pharmaceuticals ,human health ,nutrition ,Plant culture ,SB1-1110 - Abstract
Plants offer a vast source of bioactive chemicals with the potential to improve human health through the prevention and treatment of disease. However, many potential therapeutics are produced in small amounts or in species that are difficult to cultivate. The rapidly evolving field of plant synthetic biology provides tools to capitalize on the inventive chemistry of plants by transferring metabolic pathways for therapeutics into far more tenable plants, increasing our ability to produce complex pharmaceuticals in well-studied plant systems. Plant synthetic biology also provides methods to enhance the ability to fortify crops with nutrients and nutraceuticals. In this review, we discuss (1) the potential of plant synthetic biology to improve human health by generating plants that produce pharmaceuticals, nutrients, and nutraceuticals and (2) the technological challenges hindering our ability to generate plants producing health-promoting small molecules.
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- 2021
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9. Artificial intelligence improves resident detection of pediatric and young adult upper extremity fractures
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Zech, John R., Ezuma, Chimere O., Patel, Shreya, Edwards, Collin R., Posner, Russell, Hannon, Erin, Williams, Faith, Lala, Sonali V., Ahmad, Zohaib Y., Moy, Matthew P., and Wong, Tony T.
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- 2024
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10. SIV and Mycobacterium tuberculosis synergy within the granuloma accelerates the reactivation pattern of latent tuberculosis.
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Collin R Diedrich, Tara Rutledge, Pauline Maiello, Tonilynn M Baranowski, Alexander G White, H Jacob Borish, Paul Karell, Forrest Hopkins, Jessica Brown, Sarah M Fortune, JoAnne L Flynn, Zandrea Ambrose, and Philana Ling Lin
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Immunologic diseases. Allergy ,RC581-607 ,Biology (General) ,QH301-705.5 - Abstract
Human immunodeficiency virus infection is the most common risk factor for severe forms of tuberculosis (TB), regardless of CD4 T cell count. Using a well-characterized cynomolgus macaque model of human TB, we compared radiographic, immunologic and microbiologic characteristics of early (subclinical) reactivation of latent M. tuberculosis (Mtb) infection among animals subsequently infected with simian immunodeficiency virus (SIV) or who underwent anti-CD4 depletion by a depletion antibody. CD4 depleted animals had significantly fewer CD4 T cells within granulomas compared to Mtb/SIV co-infected and Mtb-only control animals. After 2 months of treatment, subclinical reactivation occurred at similar rates among CD4 depleted (5 of 7 animals) and SIV infected animals (4 of 8 animals). However, SIV-induced reactivation was associated with more dissemination of lung granulomas that were permissive to Mtb growth resulting in greater bacterial burden within granulomas compared to CD4 depleted reactivators. Granulomas from Mtb/SIV animals displayed a more robust T cell activation profile (IFN-α, IFN-γ, TNF, IL-17, IL-2, IL-10, IL-4 and granzyme B) compared to CD4 depleted animals and controls though these effectors did not protect against reactivation or dissemination, but instead may be related to increased viral and/or Mtb antigens. SIV replication within the granuloma was associated with reactivation, greater overall Mtb growth and reduced Mtb killing resulting in greater overall Mtb burden. These data support that SIV disrupts protective immune responses against latent Mtb infection beyond the loss of CD4 T cells, and that synergy between SIV and Mtb occurs within granulomas.
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- 2020
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11. Engineered plants provide a photosynthetic platform for the production of diverse human milk oligosaccharides
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Barnum, Collin R, Paviani, Bruna, Couture, Garret, Masarweh, Chad, Chen, Ye, Huang, Yu-Ping, Markel, Kasey, Mills, David A, Lebrilla, Carlito B, Barile, Daniela, Yang, Minliang, and Shih, Patrick M
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Agriculture ,Land and Farm Management ,Agricultural ,Veterinary and Food Sciences ,Food Sciences ,Nutrition ,Pediatric ,Breastfeeding ,Lactation and Breast Milk ,Oligosaccharides ,Humans ,Milk ,Human ,Plants ,Genetically Modified ,Prebiotics ,Photosynthesis ,Agriculture ,land and farm management ,Food sciences - Abstract
Human milk oligosaccharides (HMOs) are a diverse class of carbohydrates which support the health and development of infants. The vast health benefits of HMOs have made them a commercial target for microbial production; however, producing the approximately 200 structurally diverse HMOs at scale has proved difficult. Here we produce a diversity of HMOs by leveraging the robust carbohydrate anabolism of plants. This diversity includes high-value and complex HMOs, such as lacto-N-fucopentaose I. HMOs produced in transgenic plants provided strong bifidogenic properties, indicating their ability to serve as a prebiotic supplement with potential applications in adult and infant health. Technoeconomic analyses demonstrate that producing HMOs in plants provides a path to the large-scale production of specific HMOs at lower prices than microbial production platforms. Our work demonstrates the promise in leveraging plants for the low-cost and sustainable production of HMOs.
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- 2024
12. SIV Evolutionary Dynamics in Cynomolgus Macaques during SIV-Mycobacterium tuberculosis Co-Infection
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Kaho H. Tisthammer, Christopher Kline, Tara Rutledge, Collin R. Diedrich, Sergio Ita, Philana Ling Lin, Zandrea Ambrose, and Pleuni S. Pennings
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SIV ,co-infection ,viral evolution ,Mtb ,viral diversity ,macaques ,Microbiology ,QR1-502 - Abstract
Co-infection with Mycobacterium tuberculosis (Mtb) and human immunodeficiency virus (HIV) is a worldwide public health concern, leading to worse clinical outcomes caused by both pathogens. We used a non-human primate model of simian immunodeficiency virus (SIV)-Mtb co-infection, in which latent Mtb infection was established prior to SIVmac251 infection. The evolutionary dynamics of SIV env was evaluated from samples in plasma, lymph nodes, and lungs (including granulomas) of SIV-Mtb co-infected and SIV only control animals. While the diversity of the challenge virus was low and overall viral diversity remained relatively low over 6–9 weeks, changes in viral diversity and divergence were observed, including evidence for tissue compartmentalization. Overall, viral diversity was highest in SIV-Mtb animals that did not develop clinical Mtb reactivation compared to animals with Mtb reactivation. Among lung granulomas, viral diversity was positively correlated with the frequency of CD4+ T cells and negatively correlated with the frequency of CD8+ T cells. SIV diversity was highest in the thoracic lymph nodes compared to other sites, suggesting that lymphatic drainage from the lungs in co-infected animals provides an advantageous environment for SIV replication. This is the first assessment of SIV diversity across tissue compartments during SIV-Mtb co-infection after established Mtb latency.
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- 2021
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13. Effects of treatment changes on asthma phenotype prevalence and airway neutrophil function
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Collin R. Brooks, Christine J. Van Dalen, Elizabeth Harding, Ian F. Hermans, and Jeroen Douwes
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Asthma ,Inflammatory phenotype ,Induced sputum ,Neutrophils ,Eosinophils ,Diseases of the respiratory system ,RC705-779 - Abstract
Abstract Background Asthma inflammatory phenotypes are often defined by relative cell counts of airway eosinophils/neutrophils. However, the importance of neutrophilia remains unclear, as does the effect of ICS treatment on asthma phenotypes and airway neutrophil function. The purpose of this study was to assess asthma phenotype prevalence/characteristics in a community setting, and, in a nested preliminary study, determine how treatment changes affect phenotype stability and inflammation, with particular focus on airway neutrophils. Methods Fifty adult asthmatics and 39 non-asthmatics were assessed using questionnaires, skin prick tests, spirometry, exhaled nitric oxide (FENO) measurement, and sputum induction. Twenty-one asthmatics underwent further assessment following treatment optimisation (n = 11) or sub-optimisation (n = 10). Results Forty percent (20/50) had eosinophilic asthma (EA) and 8% had neutrophilic asthma. EA was associated with increased FENO, bronchodilator reversibility (BDR) and reduced lung function (p
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- 2017
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14. Agrobacterium tumefaciens: A Bacterium Primed for Synthetic Biology
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Mitchell G. Thompson, William M. Moore, Niklas F. C. Hummel, Allison N. Pearson, Collin R. Barnum, Henrik V. Scheller, and Patrick M. Shih
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Biotechnology ,TP248.13-248.65 ,Genetics ,QH426-470 - Abstract
Agrobacterium tumefaciens is an important tool in plant biotechnology due to its natural ability to transfer DNA into the genomes of host plants. Genetic manipulations of A. tumefaciens have yielded considerable advances in increasing transformational efficiency in a number of plant species and cultivars. Moreover, there is overwhelming evidence that modulating the expression of various mediators of A. tumefaciens virulence can lead to more successful plant transformation; thus, the application of synthetic biology to enable targeted engineering of the bacterium may enable new opportunities for advancing plant biotechnology. In this review, we highlight engineering targets in both A. tumefaciens and plant hosts that could be exploited more effectively through precision genetic control to generate high-quality transformation events in a wider range of host plants. We then further discuss the current state of A. tumefaciens and plant engineering with regard to plant transformation and describe how future work may incorporate a rigorous synthetic biology approach to tailor strains of A. tumefaciens used in plant transformation.
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- 2020
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15. Exercise band-induced lens dislocations: A case series
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Luca M. Rosignoli, Kathleen A. Regan, Matthew J. Gray, Collin R. Ohning, and Siva S.R. Iyer
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Ophthalmology ,RE1-994 - Abstract
Purpose: We report three cases of lens dislocation due to ocular trauma from a recoiling exercise band. Observations: Three patients had closed globe injury resulting in lens dislocation. All had previously undergone intraocular surgeries; two patients were within three weeks of pars plana vitrectomy for retinal detachment repair. Findings included vision loss, hyphema, and increased intraocular pressure refractory to medical management. The retina remained attached post-traumatically in all cases. Lens removal or repositioning resulted in improved vision. Conclusions and Importance: A recoiling exercise band can cause lens dislocation, hyphema, and ocular hypertension that may require surgical intervention. Our report emphasizes the importance of patient counseling in the perioperative period for the prevention of traumatic complications. Keywords: Closed globe injury, Exercise band, Resistance band, Lens dislocation, Ocular hypertension
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- 2019
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16. Engineering Brassica Crops to Optimize Delivery of Bioactive Products Postcooking
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Barnum, Collin R, Cho, Myeong-Je, Markel, Kasey, and Shih, Patrick M
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Biochemistry and Cell Biology ,Bioinformatics and Computational Biology ,Biological Sciences ,Nutrition ,Dietary Supplements ,Complementary and Integrative Health ,3.3 Nutrition and chemoprevention ,Humans ,Brassica ,Glucosinolates ,Cooking ,Crops ,Agricultural ,Glycoside Hydrolases ,Isothiocyanates ,myrosinase ,enzyme thermostability ,plant syntheticbiology ,glucosinolate ,plant synthetic biology ,Medicinal and Biomolecular Chemistry ,Biomedical Engineering ,Biochemistry and cell biology ,Bioinformatics and computational biology - Abstract
Glucosinolates are plant-specialized metabolites that can be hydrolyzed by glycosyl hydrolases, called myrosinases, creating a variety of hydrolysis products that benefit human health. While cruciferous vegetables are a rich source of glucosinolates, they are often cooked before consumption, limiting the conversion of glucosinolates to hydrolysis products due to the denaturation of myrosinases. Here we screen a panel of glycosyl hydrolases for high thermostability and engineer the Brassica crop, broccoli (Brassica oleracea L.), for the improved conversion of glucosinolates to chemopreventive hydrolysis products. Our transgenic broccoli lines enabled glucosinolate hydrolysis to occur at higher cooking temperatures, 20 °C higher than in wild-type broccoli. The process of cooking fundamentally transforms the bioavailability of many health-relevant bioactive compounds in our diet. Our findings demonstrate the promise of leveraging genetic engineering to tailor crops with novel traits that cannot be achieved through conventional breeding and improve the nutritional properties of the plants we consume.
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- 2024
17. Pleasurable and problematic receptive anal intercourse and diseases of the colon, rectum and anus
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Dickstein, Daniel R., Edwards, Collin R., Rowan, Catherine R., Avanessian, Bella, Chubak, Barbara M., Wheldon, Christopher W., Simoes, Priya K., Buckstein, Michael H., Keefer, Laurie A., Safer, Joshua D., Sigel, Keith, Goodman, Karyn A., Rosser, B. R. Simon, Goldstone, Stephen E., Wong, Serre-Yu, and Marshall, Deborah C.
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- 2024
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18. Shopper marketing nutrition interventions: Social norms on grocery carts increase produce spending without increasing shopper budgets
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Collin R. Payne, Mihai Niculescu, David R. Just, and Michael P. Kelly
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Behavioral economics ,Grocery store ,Fruits ,Vegetables ,Shopper marketing ,Social norms ,Medicine - Abstract
Objectives: We assessed the efficacy of an easy-to-implement shopper marketing nutrition intervention in a pilot and two additional studies to increase produce demand without decreasing store profitability or increasing shopper budgets. Methods: We created grocery cart placards that detailed the number of produce items purchased (i.e., descriptive norm) at particular stores (i.e., provincial norm). The effect of these placards on produce spending was assessed across 971,706 individual person grocery store transactions aggregated by day. The pilot study designated a baseline period (in both control and intervention store) followed by installation of grocery cart placards (in the intervention store) for two weeks. The pilot study was conducted in Texas in 2012. In two additional stores, we designated baseline periods followed by 28 days of the same grocery cart placard intervention as in the pilot. Additional interventions were conducted in New Mexico in 2013. Results: The pilot study resulted in a significant difference between average produce spending per day per person across treatment periods (i.e., intervention versus same time period in control) (16%) and the difference between average produce spending per day per person across stores in the control periods (4%); Furthermore, the same intervention in two additional stores resulted in significant produce spending increases of 12.4% and 7.5% per day per person respectively. In all stores, total spending did not change. Conclusions: Descriptive and provincial social norm messages (i.e., on grocery cart placards) may be an overlooked tool to increase produce demand without decreasing store profitability and increasing shopper budgets.
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- 2015
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19. Observation of low-lying isomeric states in $^{136}$Cs: a new avenue for dark matter and solar neutrino detection in xenon detectors
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Haselschwardt, Scott J., Lenardo, Brian G., Daniels, Timothy, Finch, Sean W., Friesen, Forrest Q. L., Howell, Calvin R., Malone, Collin R., Mancil, Ethan, and Tornow, Werner
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Nuclear Experiment ,High Energy Physics - Experiment - Abstract
We report on new measurements establishing the existence of low-lying isomeric states in $^{136}$Cs using $\gamma$ rays produced in $^{136}$Xe(p,n)$^{136}$Cs reactions. Two states with $\mathcal{O}(100)$~ns lifetimes are placed in the decay sequence of the $^{136}$Cs levels that are populated in charged-current interactions of solar neutrinos and fermionic dark matter with $^{136}$Xe. Xenon-based experiments can therefore exploit a delayed-coincidence tag of these interactions, greatly suppressing backgrounds to enable spectroscopic studies of solar neutrinos and dark matter., Comment: Supplemental material available upon request. Version accepted by Phys.Rev.Lett
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- 2023
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20. Plant glycosyltransferases for expanding bioactive glycoside diversity
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Sirirungruang, Sasilada, Barnum, Collin R, Tang, Sophia N, and Shih, Patrick M
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Medicinal and Biomolecular Chemistry ,Organic Chemistry ,Chemical Sciences ,Glycosyltransferases ,Glycosides ,Glycosylation ,Plants ,Drug Discovery ,Biological Sciences ,Medical and Health Sciences ,Medicinal and biomolecular chemistry ,Traditional ,complementary and integrative medicine - Abstract
Glycosylation is a successful strategy to alter the pharmacological properties of small molecules, and it has emerged as a unique approach to expand the chemical space of natural products that can be explored in drug discovery. Traditionally, most glycosylation events have been carried out chemically, often requiring many protection and deprotection steps to achieve a target molecule. Enzymatic glycosylation by glycosyltransferases could provide an alternative strategy for producing new glycosides. In particular, the glycosyltransferase family has greatly expanded in plants, representing a rich enzymatic resource to mine and expand the diversity of glycosides with novel bioactive properties. This article highlights previous and prospective uses for plant glycosyltransferases in generating bioactive glycosides and altering their pharmacological properties.
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- 2023
21. Isolation and Phase-Space Energization Analysis of the Instabilities in Collisionless Shocks
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Brown, Collin R., Juno, James, Howes, Gregory G., Haggerty, Colby C., and Constantinou, Sage
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Physics - Plasma Physics - Abstract
We analyze the generation of kinetic instabilities and their effect on the energization of ions in non-relativistic, oblique collisionless shocks using a 3D-3V simulation by $\texttt{dHybridR}$, a hybrid particle-in-cell code. At sufficiently high Mach number, quasi-perpendicular and oblique shocks can experience rippling of the shock surface caused by kinetic instabilities arising from free energy in the ion velocity distribution due to the combination of the incoming ion beam and the population of ions reflected at the shock front. To understand the role of the ripple on particle energization, we devise the new instability isolation method to identify the unstable modes underlying the ripple and interpret the results in terms of the governing kinetic instability. We generate velocity-space signatures using the field-particle correlation technique to look at energy transfer in phase space from the isolated instability driving the shock ripple, providing a viewpoint on the different dynamics of distinct populations of ions in phase space. We generate velocity-space signatures of the energy transfer in phase space of the isolated instability driving the shock ripple using the field-particle correlation technique. Together, the field-particle correlation technique and our new instability isolation method provide a unique viewpoint on the different dynamics of distinct populations of ions in phase space and allow us to completely characterize the energetics of the collisionless shock under investigation., Comment: 32 pages, 14 figures, accepted by the Journal of Plasma Physics
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- 2022
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22. A Suite of Constitutive Promoters for Tuning Gene Expression in Plants
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Zhou, Andy, Kirkpatrick, Liam D, Ornelas, Izaiah J, Washington, Lorenzo J, Hummel, Niklas FC, Gee, Christopher W, Tang, Sophia N, Barnum, Collin R, Scheller, Henrik V, and Shih, Patrick M
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Biochemistry and Cell Biology ,Biological Sciences ,Biotechnology ,Genetics ,Bioengineering ,Plants ,Promoter Regions ,Genetic ,Transgenes ,Plasmids ,Gene Expression ,synthetic biology ,plant ,transgene expression ,promoter library ,STARR seq ,transcriptome mining ,Medicinal and Biomolecular Chemistry ,Biomedical Engineering ,Biochemistry and cell biology ,Bioinformatics and computational biology - Abstract
The need for convenient tools to express transgenes over a large dynamic range is pervasive throughout plant synthetic biology; however, current efforts are largely limited by the heavy reliance on a small set of strong promoters, precluding more nuanced and refined engineering endeavors in planta. To address this technical gap, we characterize a suite of constitutive promoters that span a wide range of transcriptional levels and develop a GoldenGate-based plasmid toolkit named PCONS, optimized for versatile cloning and rapid testing of transgene expression at varying strengths. We demonstrate how easy access to a stepwise gradient of expression levels can be used for optimizing synthetic transcriptional systems and the production of small molecules in planta. We also systematically investigate the potential of using PCONS as an internal standard in plant biology experimental design, establishing the best practices for signal normalization in experiments. Although our library has primarily been developed for optimizing expression in N. benthamiana, we demonstrate the translatability of our promoters across distantly related species using a multiplexed reporter assay with barcoded transcripts. Our findings showcase the advantages of the PCONS library as an invaluable toolkit for plant synthetic biology.
- Published
- 2023
23. Educating healthcare workers in snakebite management: A study to determine the effectiveness of the snake bite life support workshop
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Sreekumar, Aravind, Abraham, Siju V., Rajeev, P.C., Chanchal A. B, Vijay, Suseel, Appu, Mathew, Deo, George, Collin R., and Palatty, Babu U.
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- 2025
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24. Signal-in-noise detection across the lifespan in a mouse model of presbycusis
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Brunelle, Dimitri L., Park, Collin R., Fawcett, Timothy J., and Walton, Joseph P.
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- 2025
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25. Near-infrared imaging of adoptive immune cell therapy in breast cancer model using cell membrane labeling.
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Fatma M Youniss, Gobalakrishnan Sundaresan, Laura J Graham, Li Wang, Collin R Berry, Gajanan K Dewkar, Purnima Jose, Harry D Bear, and Jamal Zweit
- Subjects
Medicine ,Science - Abstract
The overall objective of this study is to non-invasively image and assess tumor targeting and retention of directly labeled T-lymphocytes following their adoptive transfer in mice. T-lymphocytes obtained from draining lymph nodes of 4T1 (murine breast cancer cell) sensitized BALB/C mice were activated in-vitro with Bryostatin/Ionomycin for 18 hours, and were grown in the presence of Interleukin-2 for 6 days. T-lymphocytes were then directly labeled with 1,1-dioctadecyltetramethyl indotricarbocyanine Iodide (DiR), a lipophilic near infrared fluorescent dye that labels the cell membrane. Assays for viability, proliferation, and function of labeled T-lymphocytes showed that they were unaffected by DiR labeling. The DiR labeled cells were injected via tail vein in mice bearing 4T1 tumors in the flank. In some cases labeled 4T1 specific T-lymphocytes were injected a week before 4T1 tumor cell implantation. Multi-spectral in vivo fluorescence imaging was done to subtract the autofluorescence and isolate the near infrared signal carried by the T-lymphocytes. In recipient mice with established 4T1 tumors, labeled 4T1 specific T-lymphocytes showed marked tumor retention, which peaked 6 days post infusion and persisted at the tumor site for up to 3 weeks. When 4T1 tumor cells were implanted 1-week post-infusion of labeled T-lymphocytes, T-lymphocytes responded to the immunologic challenge and accumulated at the site of 4T1 cell implantation within two hours and the signal persisted for 2 more weeks. Tumor accumulation of labeled 4T1 specific T-lymphocytes was absent in mice bearing Meth A sarcoma tumors. When lysate of 4T1 specific labeled T-lymphocytes was injected into 4T1 tumor bearing mice the near infrared signal was not detected at the tumor site. In conclusion, our validated results confirm that the near infrared signal detected at the tumor site represents the DiR labeled 4T1 specific viable T-lymphocytes and their response to immunologic challenge can be imaged in vivo.
- Published
- 2014
- Full Text
- View/download PDF
26. Functional invariant natural killer T-cell and CD1d axis in chronic lymphocytic leukemia: implications for immunotherapy
- Author
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Robert Weinkove, Collin R. Brooks, John M. Carter, Ian F. Hermans, and Franca Ronchese
- Subjects
Diseases of the blood and blood-forming organs ,RC633-647.5 - Abstract
Invariant natural killer T cells recognize glycolipid antigens such as α-galactosylceramide presented by CD1d. In preclinical models of B-cell malignancies, α-galactosylceramide is an adjuvant to tumor vaccination, enhancing tumor-specific T-cell responses and prolonging survival. However, numerical and functional invariant natural killer T-cell defects exist in patients with some cancers. Our aim was to assess this axis in patients with chronic lymphocytic leukemia. The numbers of circulating invariant natural killer T cells and the expression of CD1d on antigen-presenting cells were evaluated in patients with chronic lymphocytic leukemia and age-matched controls. Cytokine profile and in vitro proliferative capacity were determined. Patient- and control-derived invariant natural killer T-cell lines were generated and characterized, and allogeneic and autologous responses to α-galactosylce-ramide-treated leukemia cells were assessed. Absolute numbers and phenotype of invariant natural killer T cells were normal in patients with untreated chronic lymphocytic leukemia, and cytokine profile and proliferative capacity were intact. Chemotherapy-treated patients had reduced numbers of invariant natural killer T cells and myeloid dendritic cells, but α-galactosylceramide-induced proliferation was preserved. Invariant natural killer T-cell lines from patients lysed CD1d-expressing targets. Irradiated α-galactosylceramide-treated leukemic cells elicited allogeneic and autologous invariant natural killer T-cell proliferation, and α-galactosylceramide treatment led to increased proliferation of conventional T cells in response to tumor. In conclusion, the invariant natural killer T-cell and CD1d axis is fundamentally intact in patients with early-stage chronic lymphocytic leukemia and, despite reduced circulating numbers, function is retained in fludarabine-treated patients. Immunotherapies exploiting the adjuvant effect of α-galactosylceramide may be feasible.
- Published
- 2013
- Full Text
- View/download PDF
27. Implementation of a Neonatal Hyperbilirubinemia Clinical Pathway in a Pediatric Emergency Department
- Author
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Miller, Collin R., Haut, Catherine, Zomorrodi, Arezoo, Chara, Karina, and Wilson, Janice
- Published
- 2024
- Full Text
- View/download PDF
28. Metagenomic detection of viruses in aerosol samples from workers in animal slaughterhouses.
- Author
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Richard J Hall, Mily Leblanc-Maridor, Jing Wang, Xiaoyun Ren, Nicole E Moore, Collin R Brooks, Matthew Peacey, Jeroen Douwes, and David J McLean
- Subjects
Medicine ,Science - Abstract
Published studies have shown that workers in animal slaughterhouses are at a higher risk of lung cancers as compared to the general population. No specific causal agents have been identified, and exposures to several chemicals have been examined and found to be unrelated. Evidence suggests a biological aetiology as the risk is highest for workers who are exposed to live animals or to biological material containing animal faeces, urine or blood. To investigate possible biological exposures in animal slaughterhouses, we used a metagenomic approach to characterise the profile of organisms present within an aerosol sample. An assessment of aerosol exposures for individual workers was achieved by the collection of personal samples that represent the inhalable fraction of dust/bioaerosol in workplace air in both cattle and sheep slaughterhouses. Two sets of nine personal aerosol samples were pooled for the cattle processing and sheep processing areas respectively, with a total of 332,677,346 sequence reads and 250,144,492 sequence reads of 85 bp in length produced for each. Eukaryotic genome sequence was found in both sampling locations, and bovine, ovine and human sequences were common. Sequences from WU polyomavirus and human papillomavirus 120 were detected in the metagenomic dataset from the cattle processing area, and these sequences were confirmed as being present in the original personal aerosol samples. This study presents the first metagenomic description of personal aerosol exposure and this methodology could be applied to a variety of environments. Also, the detection of two candidate viruses warrants further investigation in the setting of occupational exposures in animal slaughterhouses.
- Published
- 2013
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- View/download PDF
29. Influence of Pre-Training Predator Stress on the Expression of c-fos mRNA in the Hippocampus, Amygdala and Striatum Following Long-Term Spatial Memory Retrieval
- Author
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Michael B VanElzakker, Phillip R Zoladz, Vanessa M Thompson, Collin R Park, Joshua D Halonen, Robert L Spencer, and David M Diamond
- Subjects
Amygdala ,Hippocampus ,rat ,spatial memory ,stress ,memory retrieval ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
We have studied the influence of pre-training psychological stress on the expression of c-fos mRNA following long-term spatial memory retrieval. Rats were trained to learn the location of a hidden escape platform in the radial-arm water maze, and then their memory for the platform location was assessed 24 hr later. Rat brains were extracted 30 min after the 24 hr memory test trial for analysis of c-fos mRNA. Four groups were tested: 1) Rats given standard training (Standard); 2) Rats given cat exposure (Predator Stress) 30 min prior to training (Pre-Training Stress); 3) Rats given water exposure only (Water Yoked); and 4) Rats given no water exposure (Home Cage). The Standard trained group exhibited excellent 24 hr memory which was accompanied by increased c-fos mRNA in the dorsal hippocampus and basolateral amygdala (BLA). The Water Yoked group exhibited no increase in c-fos mRNA in any brain region. Rats in the Pre-Training Stress group were classified into two subgroups: good and bad memory performers. Neither of the two Pre-Training Stress subgroups exhibited a significant change in c-fos mRNA expression in the dorsal hippocampus or BLA. Instead, stressed rats with good memory exhibited significantly greater c-fos mRNA expression in the dorsolateral striatum (DLS) compared to stressed rats with bad memory. This finding suggests that stressed rats with good memory used their DLS to generate a non-spatial (cue-based) strategy to learn and subsequently retrieve the memory of the platform location. Collectively, these findings provide evidence at a molecular level for the involvement of the hippocampus and BLA in the retrieval of spatial memory and contribute novel observations on the influence of pre-training stress in activating the DLS in response to long-term memory retrieval.
- Published
- 2011
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- View/download PDF
30. Reactivation of latent tuberculosis in cynomolgus macaques infected with SIV is associated with early peripheral T cell depletion and not virus load.
- Author
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Collin R Diedrich, Joshua T Mattila, Edwin Klein, Chris Janssen, Jiayao Phuah, Timothy J Sturgeon, Ronald C Montelaro, Philana Ling Lin, and Joanne L Flynn
- Subjects
Medicine ,Science - Abstract
HIV-infected individuals with latent Mycobacterium tuberculosis (Mtb) infection are at significantly greater risk of reactivation tuberculosis (TB) than HIV-negative individuals with latent TB, even while CD4 T cell numbers are well preserved. Factors underlying high rates of reactivation are poorly understood and investigative tools are limited. We used cynomolgus macaques with latent TB co-infected with SIVmac251 to develop the first animal model of reactivated TB in HIV-infected humans to better explore these factors. All latent animals developed reactivated TB following SIV infection, with a variable time to reactivation (up to 11 months post-SIV). Reactivation was independent of virus load but correlated with depletion of peripheral T cells during acute SIV infection. Animals experiencing reactivation early after SIV infection (
- Published
- 2010
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31. Approach to startup inventory for viable commercial fusion power plant
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Malone, Collin R, Flynn, Holly B, Somers, Alex D, Rowell, P Arron, and Larsen, George K
- Published
- 2024
- Full Text
- View/download PDF
32. Inhibition of p38 MAPK suppresses inflammatory cytokine induction by etoposide, 5-fluorouracil, and doxorubicin without affecting tumoricidal activity.
- Author
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Collin R Elsea, Daniel A Roberts, Brian J Druker, and Lisa J Wood
- Subjects
Medicine ,Science - Abstract
Cancer patients undergoing treatment with systemic cancer chemotherapy drugs often experience debilitating fatigue similar to sickness behavior, a normal response to infection or tissue damage caused by the production of the inflammatory cytokines IL-1beta, TNF-alpha, and IL-6. The p38 mitogen activated protein kinase (p38 MAPK) plays a central role in the production of these cytokines and consequently the development of sickness behavior. Targeted inhibitors of p38 MAPK can reduce systemic inflammatory cytokine production and the development of sickness behavior. Several systemic cancer chemotherapy drugs have been shown to stimulate inflammatory cytokine production, yet whether this response is related to a common ability to activate p38 MAPK is not known and is the focus of this study. This understanding may present the possibility of using p38 MAPK inhibitors to reduce chemotherapy-induced inflammatory cytokine production and consequently treatment-related fatigue. One caveat of this approach is a potential reduction in chemotherapeutic efficacy as some believe that p38 MAPK activity is required for chemotherapy-induced cytotoxicity of tumor cells. The purpose of this study was to demonstrate proof of principal that p38 MAPK inhibition can block chemotherapy-induced inflammatory cytokine production without inhibiting drug-induced cytotoxicity using murine peritoneal macrophages and Lewis Lung Carcinoma (LLC1) cells as model cell systems. Using these cells we assessed the requirement of etoposide, doxorubicin, 5-fluorouracil, and docetaxel for p38 MAPK in inflammatory cytokine production and cytotoxicity. Study findings demonstrate that clinically relevant doses of etoposide, doxorubicin, and 5-FU activated p38 MAPK in both macrophages and LLC1 cells. In contrast, docetaxel failed to activate p38 MAPK in either cell type. Activation of p38 MAPK mediated the drug's effects on inflammatory cytokine production in macrophages but not LLC1 cytotoxicity and this was confirmed with inhibitor studies.
- Published
- 2008
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33. The Temporal Dynamics Model of Emotional Memory Processing: A Synthesis on the Neurobiological Basis of Stress-Induced Amnesia, Flashbulb and Traumatic Memories, and the Yerkes-Dodson Law
- Author
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David M. Diamond, Adam M. Campbell, Collin R. Park, Joshua Halonen, and Phillip R. Zoladz
- Subjects
Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
We have reviewed research on the effects of stress on LTP in the hippocampus, amygdala and prefrontal cortex (PFC) and present new findings which provide insight into how the attention and memory-related functions of these structures are influenced by strong emotionality. We have incorporated the stress-LTP findings into our “temporal dynamics” model, which provides a framework for understanding the neurobiological basis of flashbulb and traumatic memories, as well as stress-induced amnesia. An important feature of the model is the idea that endogenous mechanisms of plasticity in the hippocampus and amygdala are rapidly activated for a relatively short period of time by a strong emotional learning experience. Following this activational period, both structures undergo a state in which the induction of new plasticity is suppressed, which facilitates the memory consolidation process. We further propose that with the onset of strong emotionality, the hippocampus rapidly shifts from a “configural/cognitive map” mode to a “flashbulb memory” mode, which underlies the long-lasting, but fragmented, nature of traumatic memories. Finally, we have speculated on the significance of stress-LTP interactions in the context of the Yerkes-Dodson Law, a well-cited, but misunderstood, century-old principle which states that the relationship between arousal and behavioral performance can be linear or curvilinear, depending on the difficulty of the task.
- Published
- 2007
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- View/download PDF
34. Permissive Influence of Stress in the Expression of a U-Shaped Relationship between Serum Corticosterone Levels and Spatial Memory Errors in Rats
- Author
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Collin R. Park, Adam M. Campbell, James C. Woodson, Taro P. Smith, Monika Fleshner, and David M. Diamond
- Subjects
Therapeutics. Pharmacology ,RM1-950 - Abstract
The relationship between glucocorticoids (GCs) and memory is complex, in that memory impairments can occur in response to manipulations that either increase or decrease GC levels. We investigated this issue by assessing the relationship between serum corticosterone (the primary rodent GC) and memory in rats trained in the radial arm water maze, a hippocampus-dependent spatial memory task. Each day, rats learned a new location of the hidden escape platform and then 30 min later their memory of the location of the platform was tested. Under control conditions, well-trained rats had excellent spatial memory and moderately elevated corticosterone levels (∼26 μg/dl versus a baseline of ∼2 μg/dl). Their memory was impaired when corticosterone levels were either reduced by metyrapone (a corticosterone synthesis inhibitor) or increased by acute stress (predator exposure), forming an overall U-shaped relationship between corticosterone levels and memory. We then addressed whether there was a causal relationship between elevated corticosterone levels and impaired memory. If elevated corticosterone levels were a sufficient condition to impair memory, then exogenously administered corticosterone, alone, should have impaired performance. However, we found that spatial memory was not impaired in corticosterone-injected rats that were not exposed to the cat. This work demonstrates that an intermediate level of corticosterone correlated with optimal memory, and either a decrease or an increase in corticosterone levels, in conjunction with strong emotionality, impaired spatial memory. These findings indicate that fear-provoking conditions, which are known to engage the amygdala, interact with stress levels of corticosterone to influence hippocampal functioning.
- Published
- 2006
- Full Text
- View/download PDF
35. Optimization of Heterologous Glucoraphanin Production In Planta
- Author
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Barnum, Collin R, Endelman, Benjamin J, Ornelas, Izaiah J, Pignolet, Roxanna M, and Shih, Patrick M
- Subjects
Biological Sciences ,Industrial Biotechnology ,Complementary and Integrative Health ,Nutrition ,Glucosinolates ,Imidoesters ,Oximes ,Sulfoxides ,Nicotiana ,glucoraphanin ,coexpression analysis ,plant natural products ,transient expression ,Nicotiana benthamiana ,Medicinal and Biomolecular Chemistry ,Biochemistry and Cell Biology ,Biomedical Engineering ,Biochemistry and cell biology ,Bioinformatics and computational biology - Abstract
Glucoraphanin is a plant specialized metabolite found in cruciferous vegetables that has long been a target for production in a heterologous host because it can subsequently be hydrolyzed to form the chemopreventive compound sulforaphane before and during consumption. However, previous studies have only been able to produce small amounts of glucoraphanin in heterologous plant and microbial systems compared to the levels found in glucoraphanin-producing plants, suggesting that there may be missing auxiliary genes that play a role in improving production in planta. In an effort to identify auxiliary genes required for high glucoraphanin production, we leveraged transient expression in Nicotiana benthamiana to screen a combination of previously uncharacterized coexpressed genes and rationally selected genes alongside the glucoraphanin biosynthetic pathway. This strategy alleviated metabolic bottlenecks, which improved glucoraphanin production by 4.74-fold. Our optimized glucoraphanin biosynthetic pathway provides a pathway amenable for high glucoraphanin production.
- Published
- 2022
36. Robust nonlinear model predictive control of continuous crystallization using Bayesian last layer surrogate models
- Author
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Johnson, Collin R., Fiedler, Felix, and Lucia, Sergio
- Published
- 2024
- Full Text
- View/download PDF
37. Utilizing Plant Synthetic Biology to Improve Human Health and Wellness
- Author
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Barnum, Collin R, Endelman, Benjamin J, and Shih, Patrick M
- Subjects
Plant Biology ,Biological Sciences ,Complementary and Integrative Health ,Prevention ,Bioengineering ,Good Health and Well Being ,plant synthetic biology ,natural products ,nutraceuticals ,pharmaceuticals ,human health ,nutrition ,Crop and pasture production ,Plant biology - Abstract
Plants offer a vast source of bioactive chemicals with the potential to improve human health through the prevention and treatment of disease. However, many potential therapeutics are produced in small amounts or in species that are difficult to cultivate. The rapidly evolving field of plant synthetic biology provides tools to capitalize on the inventive chemistry of plants by transferring metabolic pathways for therapeutics into far more tenable plants, increasing our ability to produce complex pharmaceuticals in well-studied plant systems. Plant synthetic biology also provides methods to enhance the ability to fortify crops with nutrients and nutraceuticals. In this review, we discuss (1) the potential of plant synthetic biology to improve human health by generating plants that produce pharmaceuticals, nutrients, and nutraceuticals and (2) the technological challenges hindering our ability to generate plants producing health-promoting small molecules.
- Published
- 2021
38. Agrobacterium tumefaciens: A Bacterium Primed for Synthetic Biology
- Author
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Thompson, Mitchell G, Moore, William M, Hummel, Niklas FC, Pearson, Allison N, Barnum, Collin R, Scheller, Henrik V, and Shih, Patrick M
- Abstract
Agrobacterium tumefaciens is an important tool in plant biotechnology due to its natural ability to transfer DNA into the genomes of host plants. Genetic manipulations of A. tumefaciens have yielded considerable advances in increasing transformational efficiency in a number of plant species and cultivars. Moreover, there is overwhelming evidence that modulating the expression of various mediators of A. tumefaciens virulence can lead to more successful plant transformation; thus, the application of synthetic biology to enable targeted engineering of the bacterium may enable new opportunities for advancing plant biotechnology. In this review, we highlight engineering targets in both A. tumefaciens and plant hosts that could be exploited more effectively through precision genetic control to generate high-quality transformation events in a wider range of host plants. We then further discuss the current state of A. tumefaciens and plant engineering with regard to plant transformation and describe how future work may incorporate a rigorous synthetic biology approach to tailor strains of A. tumefaciens used in plant transformation.
- Published
- 2020
39. Structure of transmembrane AMPA receptor regulatory protein subunit γ2.
- Author
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Hale, W. Dylan, Romero, Alejandra Montaño, Koylass, Nicholas, Warrick, Collin R., Qiu, Zhaozhu, Huganir, Richard L., and Twomey, Edward C.
- Subjects
GLUTAMATE receptors ,CYTOLOGY ,LIFE sciences ,CLAUDINS ,PROTEIN receptors ,AMPA receptors - Abstract
Transmembrane AMPA receptor regulatory proteins (TARPs) are claudin-like proteins that tightly regulate AMPA receptors (AMPARs) and are fundamental for excitatory neurotransmission. With cryo-electron microscopy (cryo-EM) we reconstruct the 36 kDa TARP subunit γ2 to 2.3 Å, which points to structural diversity among TARPs. Our data reveals critical motifs that distinguish TARPs from claudins and define how sequence variations within TARPs differentiate subfamilies and their regulation of AMPARs. TARPs are tetraspanins that are claudin-like but regulate glutamate receptors. Here, the moieties that define TARP function and distinguish them from claudins are uncovered through cryo-EM, structure prediction, and electrophysiology. [ABSTRACT FROM AUTHOR]
- Published
- 2025
- Full Text
- View/download PDF
40. Too Soon to Breathe Easy: Trends in Asbestosis Morbidity and Mortality in Wisconsin.
- Author
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Creswell, Paul D., McCoy, Katherine E., Modji, Komi K.S., Morris, Collin R., and Bedno, Sheryl
- Published
- 2025
- Full Text
- View/download PDF
41. Running Cadence and the Influence on Frontal Plane Knee Deviations.
- Author
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Peterson, Jacob R., Sanders, Collin R., Reynolds, Nathan S., Alford, Conner A., Platt, Michael J., Parr, Jeffrey J., Twum, Felix, Burns, James R., and Dolbow, David R.
- Subjects
KNEE pain ,RUNNERS (Sports) ,APPLICATION software ,PREVENTION of injury ,KNEE ,LONG-distance running - Abstract
Background: Patellofemoral pain is one of the most common injuries in recreational runners, with significant implications for dynamic knee valgus. The knee valgus angle can be corrected surgically or with a more conservative non-operative approach. Increasing running cadence may be an effective biomechanical gait retraining intervention to reduce knee valgus and thus patellofemoral pain. The primary purpose of this study was to examine if an increase in cadence could change the knee valgus angle. Methods: Ten asymptomatic recreational runners were recorded running on a treadmill during control and experimental intervals. Each interval lasted five minutes, and participants ran at 100% and 110% of their baseline cadence. Peak angles of knee valgus were compared between both intervals using the video analysis software application Dartfish Express. A paired sample, a two-tailed t-test, was used to determine the significant difference between bilateral frontal plane knee angle measurements during both intervals. Results: The average decrease in knee valgus measured in control versus experimental intervals was 2.23° for the right leg and 2.05° for the left leg, with a significance of p < 0.001 and p < 0.001, respectively. Conclusion: The results indicated a statistically significant decrease in angles of dynamic knee valgus, attributable to increased cadence. These changes in knee valgus angle are likely to have a positive impact on preventing and reducing pain associated with PFP. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
- View/download PDF
42. Collective mechanical responses of cadherin-based adhesive junctions as predicted by simulations
- Author
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Neel, Brandon L., Nisler, Collin R., Walujkar, Sanket, Araya-Secchi, Raul, and Sotomayor, Marcos
- Published
- 2022
- Full Text
- View/download PDF
43. Elastic versus brittle mechanical responses predicted for dimeric cadherin complexes
- Author
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Neel, Brandon L., Nisler, Collin R., Walujkar, Sanket, Araya-Secchi, Raul, and Sotomayor, Marcos
- Published
- 2022
- Full Text
- View/download PDF
44. Structure of the ancient TRPY1 channel from Saccharomyces cerevisiae reveals mechanisms of modulation by lipids and calcium
- Author
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Ahmed, Tofayel, Nisler, Collin R., Fluck, Edwin C., III, Walujkar, Sanket, Sotomayor, Marcos, and Moiseenkova-Bell, Vera Y.
- Published
- 2022
- Full Text
- View/download PDF
45. Flammability thresholds or flammability gradients? Determinants of fire across savanna–forest transitions
- Author
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Newberry, Brooklynn M., Power, Collin R., Abreu, Rodolfo C. R., Durigan, Giselda, Rossatto, Davi R., and Hoffmann, William A.
- Published
- 2020
46. Évaluation des pratiques professionnelles pour le suivi des grossesses prolongées dans un réseau de périnatalité
- Author
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Lesvenan, C., Simoni, M., Olivier, M., Winer, N., Banaszkiewicz, N., Collin, R., Coutin, A.-S., Dochez, V., Flamant, C., Gascoin, G., Gillard, P., Legendre, G., and Arthuis, C.
- Published
- 2021
- Full Text
- View/download PDF
47. Démembrement des pathologies aiguës de la hanche du sportif
- Author
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Maillard, B., Sanfilippo, D., Collin, R., Thirion, T., and Kaux, J.F.
- Published
- 2021
- Full Text
- View/download PDF
48. Microorganisms in Milk Powders
- Author
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Lindsay, D., primary, Collin, R., additional, and van Hekezen, R., additional
- Published
- 2022
- Full Text
- View/download PDF
49. Design and Fabrication of an Electric Basic Utility Vehicle.
- Author
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Collin R. Durkin, Cesar D. Campos-Martinez, Chin Yan Lee, and Warren S. Vaz
- Published
- 2020
- Full Text
- View/download PDF
50. Pairing tones with vagus nerve stimulation improves brain stem responses to speech in the valproic acid model of autism.
- Author
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Tamaoki, Yuko, Pasapula, Varun, Danaphongse, Tanya T., Reyes, Alfonso R., Chandler, Collin R., Borland, Michael S., Riley, Jonathan R., Carroll, Alan M., and Engineer, Crystal T.
- Subjects
VAGUS nerve stimulation ,LABORATORY rats ,SPEECH perception ,AUDITORY pathways ,AUDITORY perception - Abstract
Receptive language deficits and aberrant auditory processing are often observed in individuals with autism spectrum disorders (ASD). Symptoms associated with ASD are observed in rodents prenatally exposed to valproic acid (VPA), including deficits in speech sound discrimination ability. These perceptual difficulties are accompanied by changes in neural activity patterns. In both cortical and subcortical levels of the auditory pathway, VPA-exposed rats have impaired responses to speech sounds. Developing a method to improve these neural deficits throughout the auditory pathway is necessary. The purpose of this study was to investigate the ability of vagus nerve stimulation (VNS) paired with sounds to restore degraded inferior colliculus (IC) responses in VPA-exposed rats. VNS paired with the speech sound "dad" was presented to a group of VPA-exposed rats 300 times per day for 20 days. Another group of VPA-exposed rats were presented with VNS paired with multiple tone frequencies for 20 days. The IC responses were recorded from 19 saline-exposed control rats and 18 VPA-exposed with no VNS, 8 VNS-speech paired VPA-exposed, and 7 VNS-tone paired VPA-exposed female and male rats. Pairing VNS with tones increased the IC response strength to speech sounds by 44% compared to VPA-exposed rats alone. Contrarily, VNS-speech pairing significantly decreased the IC response to speech compared with VPA-exposed rats by 5%. The present research indicates that pairing VNS with tones improved sound processing in rats exposed to VPA and suggests that auditory processing can be improved through targeted plasticity. NEW & NOTEWORTHY: Pairing vagus nerve stimulation (VNS) with sounds has improved auditory processing in the auditory cortex of normal-hearing rats and autism models of rats. This study tests the ability of VNS-sound pairing to restore auditory processing in the inferior colliculus (IC) of valproic acid (VPA)-exposed rats. Pairing VNS with tones significantly reversed the degraded sound processing in the IC in VPA-exposed rats. The findings provide evidence that auditory processing in autism rat models can be improved through VNS. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
- View/download PDF
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