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Articles 31 - 60 of 407
Full-Text Articles in Life Sciences
Non-Transgenic Crispr-Mediated Knockout Of Entire Ergot Alkaloid Gene Clusters In Slow-Growing Asexual Polyploid Fungi, Simona Florea, Jolanta Jaromczyk, Christopher L. Schardl
Non-Transgenic Crispr-Mediated Knockout Of Entire Ergot Alkaloid Gene Clusters In Slow-Growing Asexual Polyploid Fungi, Simona Florea, Jolanta Jaromczyk, Christopher L. Schardl
Computer Science Faculty Publications
The Epichloë species of fungi include seed-borne symbionts (endophytes) of cool-season grasses that enhance plant fitness, although some also produce alkaloids that are toxic to livestock. Selected or mutated toxin-free endophytes can be introduced into forage cultivars for improved livestock performance. Long-read genome sequencing revealed clusters of ergot alkaloid biosynthesis (EAS) genes in Epichloë coenophiala strain e19 from tall fescue (Lolium arundinaceum) and Epichloë hybrida Lp1 from perennial ryegrass (Lolium perenne). The two homeologous clusters in E. coenophiala—a triploid hybrid species—were 196 kb (EAS1) and 75 kb (EAS2), and …
The History Of The International Grassland Congress 1927-2020, S. Ray Smith, Vivien G. Allen, Roger Wilkins, Garry D. Lacefield
The History Of The International Grassland Congress 1927-2020, S. Ray Smith, Vivien G. Allen, Roger Wilkins, Garry D. Lacefield
Plant and Soil Sciences Presentations
Grasslands cover 27% of the world’s land area and 70% of agricultural land. They form an important foundation for agriculture and livestock husbandry and contribute to the livelihoods of more than 800 million people. The International Grassland Congress (IGC) began as a meeting of a small group of forage researchers in Europe in 1927. It has now expanded into a gathering held every 3-5 years with over 1000 delegates from 80+ countries who represent research, extension, and primary production. The newly released IGC history provides not only an overview of the IGC Congress over the last 93 years, but highlights …
Wine Terroir And The Soil Bacteria: An Amplicon Sequencing-Based Assessment Of The Barossa Valley And Its Sub-Regions, Jia Zhou, Timothy R. Cavagnaro, Roberta De Bei, Tiffanie M. Nelson, John R. Stephen, Andrew Metcalfe, Matthew Gilliham, James Breen, Cassandra Collins, Carlos M. Rodríguez López
Wine Terroir And The Soil Bacteria: An Amplicon Sequencing-Based Assessment Of The Barossa Valley And Its Sub-Regions, Jia Zhou, Timothy R. Cavagnaro, Roberta De Bei, Tiffanie M. Nelson, John R. Stephen, Andrew Metcalfe, Matthew Gilliham, James Breen, Cassandra Collins, Carlos M. Rodríguez López
Horticulture Faculty Publications
A wines’ terroir, represented as wine traits with regional distinctiveness, is a reflection of both the biophysical and human-driven conditions in which the grapes were grown and wine made. Soil is an important factor contributing to the uniqueness of a wine produced by vines grown in specific conditions. Here, we evaluated the impact of environmental variables on the soil bacteria of 22 Barossa Valley vineyard sites based on the 16S rRNA gene hypervariable region 4. In this study, we report that both dispersal isolation by geographic distance and environmental heterogeneity (soil plant-available P content, elevation, rainfall, temperature, spacing between row …
Mitochondria Exert Age-Divergent Effects On Recovery From Spinal Cord Injury, Andrew N. Stewart, Katelyn E. Mcfarlane, Hemendra J. Vekaria, William M. Bailey, Stacey A. Slone, Lauren A. Tranthem, Bei Zhang, Samir P. Patel, Patrick G. Sullivan, John C. Gensel
Mitochondria Exert Age-Divergent Effects On Recovery From Spinal Cord Injury, Andrew N. Stewart, Katelyn E. Mcfarlane, Hemendra J. Vekaria, William M. Bailey, Stacey A. Slone, Lauren A. Tranthem, Bei Zhang, Samir P. Patel, Patrick G. Sullivan, John C. Gensel
Physiology Faculty Publications
The extent that age-dependent mitochondrial dysfunction drives neurodegeneration is not well understood. This study tested the hypothesis that mitochondria contribute to spinal cord injury (SCI)-induced neurodegeneration in an age-dependent manner by using 2,4-dinitrophenol (DNP) to uncouple electron transport, thereby increasing cellular respiration and reducing reactive oxygen species (ROS) production. We directly compared the effects of graded DNP doses in 4- and 14-month-old (MO) SCI-mice and found DNP to have increased efficacy in mitochondria isolated from 14-MO animals. In vivo, all DNP doses significantly exacerbated 4-MO SCI neurodegeneration coincident with worsened recovery. In contrast, low DNP doses (1.0-mg/kg/day) improved tissue …
Literature Retrieval For Precision Medicine With Neural Matching And Faceted Summarization, Jiho Noh, Ramakanth Kavuluru
Literature Retrieval For Precision Medicine With Neural Matching And Faceted Summarization, Jiho Noh, Ramakanth Kavuluru
Institute for Biomedical Informatics Faculty Publications
Information retrieval (IR) for precision medicine (PM) often involves looking for multiple pieces of evidence that characterize a patient case. This typically includes at least the name of a condition and a genetic variation that applies to the patient. Other factors such as demographic attributes, comorbidities, and social determinants may also be pertinent. As such, the retrieval problem is often formulated as ad hoc search but with multiple facets (e.g., disease, mutation) that may need to be incorporated. In this paper, we present a document reranking approach that combines neural query-document matching and text summarization toward such retrieval scenarios. Our …
A Tree Frog (Boana Pugnax) Dataset Of Skin Transcriptome For The Identification Of Biomolecules With Potential Antimicrobial Activities, Yamil Liscano Martinez, Claudia Marcela Arenas Gómez, Jeramiah J. Smith, Jean Paul Delgado
A Tree Frog (Boana Pugnax) Dataset Of Skin Transcriptome For The Identification Of Biomolecules With Potential Antimicrobial Activities, Yamil Liscano Martinez, Claudia Marcela Arenas Gómez, Jeramiah J. Smith, Jean Paul Delgado
Biology Faculty Publications
Increases in the prevalence of multiply resistant microbes have necessitated the search for new molecules with antimicrobial properties. One noteworthy avenue in this search is inspired by the presence of native antimicrobial peptides in the skin of amphibians. Having the second highest diversity of frogs worldwide, Colombian anurans represent an extensive natural reservoir that could be tapped in this search. Among this diversity, species such as Boana pugnax (the Chirique-Flusse Treefrog) are particularly notable, in that they thrive in a diversity of marginal habitats, utilize both aquatic and arboreal habitats, and are members of one of few genera that are …
Unveiling The Molecular Mechanism Of Sars-Cov-2 Main Protease Inhibition From 137 Crystal Structures Using Algebraic Topology And Deep Learning, Duc Duy Nguyen, Kaifu Gao, Jiahui Chen, Rui Wang, Guo-Wei Wei
Unveiling The Molecular Mechanism Of Sars-Cov-2 Main Protease Inhibition From 137 Crystal Structures Using Algebraic Topology And Deep Learning, Duc Duy Nguyen, Kaifu Gao, Jiahui Chen, Rui Wang, Guo-Wei Wei
Mathematics Faculty Publications
Currently, there is neither effective antiviral drugs nor vaccine for coronavirus disease 2019 (COVID-19) caused by acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Due to its high conservativeness and low similarity with human genes, SARS-CoV-2 main protease (Mpro) is one of the most favorable drug targets. However, the current understanding of the molecular mechanism of Mpro inhibition is limited by the lack of reliable binding affinity ranking and prediction of existing structures of Mpro-inhibitor complexes. This work integrates mathematics (i.e., algebraic topology) and deep learning (MathDL) to provide a reliable ranking of the binding …
Integrated Multiparametric Radiomics And Informatics System For Characterizing Breast Tumor Characteristics With The Oncotypedx Gene Assay, Michael A. Jacobs, Christopher B. Umbricht, Vishwa S. Parekh, Riham H. El Khouli, Leslie Cope, Katarzyna J. Macura, Susan Harvey, Antonio C. Wolff
Integrated Multiparametric Radiomics And Informatics System For Characterizing Breast Tumor Characteristics With The Oncotypedx Gene Assay, Michael A. Jacobs, Christopher B. Umbricht, Vishwa S. Parekh, Riham H. El Khouli, Leslie Cope, Katarzyna J. Macura, Susan Harvey, Antonio C. Wolff
Radiology Faculty Publications
Optimal use of multiparametric magnetic resonance imaging (mpMRI) can identify key MRI parameters and provide unique tissue signatures defining phenotypes of breast cancer. We have developed and implemented a new machine-learning informatic system, termed Informatics Radiomics Integration System (IRIS) that integrates clinical variables, derived from imaging and electronic medical health records (EHR) with multiparametric radiomics (mpRad) for identifying potential risk of local or systemic recurrence in breast cancer patients. We tested the model in patients (n = 80) who had Estrogen Receptor positive disease and underwent OncotypeDX gene testing, radiomic analysis, and breast mpMRI. The IRIS method was trained …
Timing Of Maximal Weight Reduction Following Bariatric Surgery: A Study In Chinese Patients, Ting Xu, Chen Wang, Hongwei Zhang, Xiaodong Han, Weijie Liu, Junfeng Han, Haoyong Yu, Jin Chen, Pin Zhang, Jianzhong Di
Timing Of Maximal Weight Reduction Following Bariatric Surgery: A Study In Chinese Patients, Ting Xu, Chen Wang, Hongwei Zhang, Xiaodong Han, Weijie Liu, Junfeng Han, Haoyong Yu, Jin Chen, Pin Zhang, Jianzhong Di
Computer Science Faculty Publications
Introduction: Bariatric surgery is a well-received treatment for obesity with maximal weight loss at 12–36 months postoperatively. We investigated the effect of early bariatric surgery on weight reduction of Chinese patients in accordance with their preoperation characteristics.
Materials and Methods: Altogether, 409 patients with obesity from a prospective cohort in a single bariatric center were enrolled retrospectively and evaluated for up to 4 years. Measurements obtained included surgery type, duration of diabetic condition, besides the usual body mass index data tuple. Weight reduction was expressed as percent total weight loss (%TWL) and percent excess weight loss (%EWL).
Results: RYGB or …
Near Simultaneous Laser Scanning Confocal And Atomic Force Microscopy (Conpokal) On Live Cells, Joree N. Sandin, Surya P. Aryal, Thomas E. Wilkop, Christopher I. Richards, Martha E. Grady
Near Simultaneous Laser Scanning Confocal And Atomic Force Microscopy (Conpokal) On Live Cells, Joree N. Sandin, Surya P. Aryal, Thomas E. Wilkop, Christopher I. Richards, Martha E. Grady
Physiology Faculty Publications
Techniques available for micro- and nano-scale mechanical characterization have exploded in the last few decades. From further development of the scanning and transmission electron microscope, to the invention of atomic force microscopy, and advances in fluorescent imaging, there have been substantial gains in technologies that enable the study of small materials. Conpokal is a portmanteau that combines confocal microscopy with atomic force microscopy (AFM), where a probe "pokes" the surface. Although each technique is extremely effective for the qualitative and/or quantitative image collection on their own, Conpokal provides the capability to test with blended fluorescence imaging and mechanical characterization. Designed …
Considerations For Studying Sex As A Biological Variable In Spinal Cord Injury, Andrew N. Stewart, Steven M. Maclean, Arnold J. Stromberg, Jessica P. Whelan, William M. Bailey, John C. Gensel, Melinda E. Wilson
Considerations For Studying Sex As A Biological Variable In Spinal Cord Injury, Andrew N. Stewart, Steven M. Maclean, Arnold J. Stromberg, Jessica P. Whelan, William M. Bailey, John C. Gensel, Melinda E. Wilson
Physiology Faculty Publications
In response to NIH initiatives to investigate sex as a biological variable in preclinical animal studies, researchers have increased their focus on male and female differences in neurotrauma. Inclusion of both sexes when modeling neurotrauma is leading to the identification of novel areas for therapeutic and scientific exploitation. Here, we review the organizational and activational effects of sex hormones on recovery from injury and how these changes impact the long-term health of spinal cord injury (SCI) patients. When determining how sex affects SCI it remains imperative to expand outcomes beyond locomotor recovery and consider other complications plaguing the quality of …
Shotgun Metagenomic Sequencing Data Of Sunflower Rhizosphere Microbial Community In South Africa, Olubukola Oluranti Babalola, Temitayo Tosin Alawiye, Carlos M. Rodriguez Lopez, Ayansina Segun Ayangbenro
Shotgun Metagenomic Sequencing Data Of Sunflower Rhizosphere Microbial Community In South Africa, Olubukola Oluranti Babalola, Temitayo Tosin Alawiye, Carlos M. Rodriguez Lopez, Ayansina Segun Ayangbenro
Horticulture Faculty Publications
This dataset presents shotgun metagenomic sequencing of sunflower rhizosphere microbiome in Bloemhof, South Africa. Data were collected to decipher the structure and function in the sunflower microbial community. Illumina HiSeq platform using next generation sequencing of the DNA was carried out. The metagenome comprised 8,991,566 sequences totaling 1,607,022,279 bp size and 66% GC content. The metagenome was deposited into the NCBI database and can be accessed with the SRA accession number SRR10418054. An online metagenome server (MG RAST) using the subsystem database revealed bacteria had the highest taxonomical representation with 98.47%, eukaryote at 1.23%, and archaea at 0.20%. The most …
Plasma And Serum Proteins Bound To Nanoceria: Insights Into Pathways By Which Nanoceria May Exert Its Beneficial And Deleterious Effects In Vivo, D. Allan Butterfield, Binghui Wang, Peng Wu, Sarita S. Hardas, Jason M. Unrine, Eric A. Grulke, Jian Cai, Jon B. Klein, William M. Pierce, Robert A. Yokel, Rukhsana Sultana
Plasma And Serum Proteins Bound To Nanoceria: Insights Into Pathways By Which Nanoceria May Exert Its Beneficial And Deleterious Effects In Vivo, D. Allan Butterfield, Binghui Wang, Peng Wu, Sarita S. Hardas, Jason M. Unrine, Eric A. Grulke, Jian Cai, Jon B. Klein, William M. Pierce, Robert A. Yokel, Rukhsana Sultana
Chemistry Faculty Publications
Nanoceria (CeO2, cerium oxide nanoparticles) is proposed as a therapeutic for multiple disorders. In blood, nanoceria becomes protein-coated, changing its surface properties to yield a different presentation to cells. There is little information on the interaction of nanoceria with blood proteins. The current study is the first to report the proteomics identification of plasma and serum proteins adsorbed to nanoceria. The results identify a number of plasma and serum proteins interacting with nanoceria, proteins whose normal activities regulate numerous cell functions: antioxidant/detoxification, energy regulation, lipoproteins, signaling, complement, immune function, coagulation, iron homeostasis, proteolysis, inflammation, protein folding, protease inhibition, adhesion, protein/RNA …
Β-Amyloid And Tau Drive Early Alzheimer's Disease Decline While Glucose Hypometabolism Drives Late Decline, Tyler C. Hammond, Xin Xing, Chris Wang, David Ma, Kwangsik Nho, Paul K. Crane, Fanny Elahi, David A. Ziegler, Gongbo Liang, Qiang Cheng, Lucille M. Yanckello, Nathan Jacobs, Ai-Ling Lin
Β-Amyloid And Tau Drive Early Alzheimer's Disease Decline While Glucose Hypometabolism Drives Late Decline, Tyler C. Hammond, Xin Xing, Chris Wang, David Ma, Kwangsik Nho, Paul K. Crane, Fanny Elahi, David A. Ziegler, Gongbo Liang, Qiang Cheng, Lucille M. Yanckello, Nathan Jacobs, Ai-Ling Lin
Sanders-Brown Center on Aging Faculty Publications
Clinical trials focusing on therapeutic candidates that modify β-amyloid (Aβ) have repeatedly failed to treat Alzheimer’s disease (AD), suggesting that Aβ may not be the optimal target for treating AD. The evaluation of Aβ, tau, and neurodegenerative (A/T/N) biomarkers has been proposed for classifying AD. However, it remains unclear whether disturbances in each arm of the A/T/N framework contribute equally throughout the progression of AD. Here, using the random forest machine learning method to analyze participants in the Alzheimer’s Disease Neuroimaging Initiative dataset, we show that A/T/N biomarkers show varying importance in predicting AD development, with elevated biomarkers of Aβ …
Recent Shrinkage And Fragmentation Of Bluegrass Landscape In Kentucky, Bo Tao, Yanjun Yang, Jia Yang, S. Ray Smith, James F. Fox, Alex C. Ruane, Jinze Liu, Wei Ren
Recent Shrinkage And Fragmentation Of Bluegrass Landscape In Kentucky, Bo Tao, Yanjun Yang, Jia Yang, S. Ray Smith, James F. Fox, Alex C. Ruane, Jinze Liu, Wei Ren
Plant and Soil Sciences Faculty Publications
The Bluegrass Region is an area in north-central Kentucky with unique natural and cultural significance, which possesses some of the most fertile soils in the world. Over recent decades, land use and land cover changes have threatened the protection of the unique natural, scenic, and historic resources in this region. In this study, we applied a fragmentation model and a set of landscape metrics together with the satellite-derived USDA Cropland Data Layer to examine the shrinkage and fragmentation of grassland in the Bluegrass Region, Kentucky during 2008–2018. Our results showed that recent land use change across the Bluegrass Region is …
Influence Of Timber Harvesting Operations And Streamside Management Zone Effectiveness On Sediment Delivery To Headwater Streams In Appalachia, Daniel Bowker, Jeffrey W. Stringer, Christopher D. Barton
Influence Of Timber Harvesting Operations And Streamside Management Zone Effectiveness On Sediment Delivery To Headwater Streams In Appalachia, Daniel Bowker, Jeffrey W. Stringer, Christopher D. Barton
Forestry and Natural Resources Faculty Publications
Disturbances created by timber harvesting equipment and associated haul roads and skid trails can create overland sediment flows (sediment paths), especially in steeply sloping terrain, leading to stream sedimentation. This study investigated the effect of variables associated with GPS tracked harvest equipment movement, skid trail development and retirement, topography, and streamside management zone (SMZ) width and tree retention on sediment delivery to streams. While the intensity of harvest equipment traffic was not correlated with sediment path development, the presence and location of skid trails were. All of the sediment paths were found to originate at water control structures, influenced by …
Reviewing Fire, Climate, Deer, And Foundation Species As Drivers Of Historically Open Oak And Pine Forests And Transition To Closed Forests, Brice B. Hanberry, Marc D. Abrams, Mary A. Arthur, J. Morgan Varner
Reviewing Fire, Climate, Deer, And Foundation Species As Drivers Of Historically Open Oak And Pine Forests And Transition To Closed Forests, Brice B. Hanberry, Marc D. Abrams, Mary A. Arthur, J. Morgan Varner
Forestry and Natural Resources Faculty Publications
Historically open oak and pine savannas and woodlands have transitioned to closed forests comprised of increased numbers of tree species throughout the eastern United States. We reviewed evidence for and against a suite of previously postulated drivers of forest transition focused on (1) change in fire regimes, (2) increased precipitation, (3) increased white-tailed deer densities, and (4) loss of American chestnut. We found that fire and fire exclusion provide a parsimonious mechanism for historical dominance by open forests of fire-tolerant oak and/or pine species and subsequent transition to closed forests with fire-sensitive tree species that fill the vertical profile. Based …
Research Data Management From The Stem Perspective: Reproducibility, Data Reuse, Data Integration, Melissa D. Clarkson
Research Data Management From The Stem Perspective: Reproducibility, Data Reuse, Data Integration, Melissa D. Clarkson
Institute for Biomedical Informatics Presentations
This presentation highlights three big ideas in STEM data management:
- Reproducibility requires scripted pipelines
- Data reuse requires metadata and documentation
- Data integration requires use of standards
It also provides an overview of the FAIR principles for research data management.
Impacts Of 1.5 °C And 2 °C Global Warming On Net Primary Productivity And Carbon Balance In China’S Terrestrial Ecosystems, Li Yu, Fengxue Gu, Mei Huang, Bo Tao, Man Hao, Zhaosheng Wang
Impacts Of 1.5 °C And 2 °C Global Warming On Net Primary Productivity And Carbon Balance In China’S Terrestrial Ecosystems, Li Yu, Fengxue Gu, Mei Huang, Bo Tao, Man Hao, Zhaosheng Wang
Plant and Soil Sciences Faculty Publications
Assessing potential impacts of 1.5 °C and 2 °C global warming and identifying the risks of further 0.5 °C warming are crucial for climate adaptation and disaster risk management. Four earth system models in the Coupled Model Intercomparison Project Phase 5 (CMIP5) and a process-based ecosystem model are used in this study to assess the impacts and potential risks of the two warming targets on the carbon cycle of China’s terrestrial ecosystems. Results show that warming generally stimulates the increase of net primary productivity (NPP) and net ecosystem productivity (NEP) under both representative concentration pathway (RCP) 4.5 and RCP8.5 scenarios. …
Food Frontiers: An Academically Sponsored New Journal, Li-Shu Wang, Jesus Simal-Gandara, Ming Du, Baiyi Lu, José L. Quiles, Zhen-Yu Chen, Bernhard Hennig, Mingfu Wang, Hang Xiao, Jayashree Arcot, Tianli Yue, Baodong Zheng, Xiaobo Zou, Yoshinori Marunaka, Lianzhong Ai, Weibin Bai, Maurizio Battino, Francesca Giampieri, Milen I. Georgiev, Xiaojun Liao, Youling L. Xiong
Food Frontiers: An Academically Sponsored New Journal, Li-Shu Wang, Jesus Simal-Gandara, Ming Du, Baiyi Lu, José L. Quiles, Zhen-Yu Chen, Bernhard Hennig, Mingfu Wang, Hang Xiao, Jayashree Arcot, Tianli Yue, Baodong Zheng, Xiaobo Zou, Yoshinori Marunaka, Lianzhong Ai, Weibin Bai, Maurizio Battino, Francesca Giampieri, Milen I. Georgiev, Xiaojun Liao, Youling L. Xiong
Superfund Research Center Faculty Publications
No abstract provided.
Global Pattern And Change Of Cropland Soil Organic Carbon During 1901-2010: Roles Of Climate, Atmospheric Chemistry, Land Use And Management, Wei Ren, Kamaljit Banger, Bo Tao, Jia Yang, Yawen Huang, Hanqin Tian
Global Pattern And Change Of Cropland Soil Organic Carbon During 1901-2010: Roles Of Climate, Atmospheric Chemistry, Land Use And Management, Wei Ren, Kamaljit Banger, Bo Tao, Jia Yang, Yawen Huang, Hanqin Tian
Plant and Soil Sciences Faculty Publications
Soil organic carbon (SOC) in croplands is a key property of soil quality for ensuring food security and agricultural sustainability, and also plays a central role in the global carbon (C) budget. When managed sustainably, soils may play a critical role in mitigating climate change by sequestering C and decreasing greenhouse gas emissions into the atmosphere. However, the magnitude and spatio-temporal patterns of global cropland SOC are far from well constrained due to high land surface heterogeneity, complicated mechanisms, and multiple influencing factors. Here, we use a process-based agroecosystem model (DLEM-Ag) in combination with diverse spatially-explicit gridded environmental data to …
Healthful Nutrition As A Prevention And Intervention Paradigm To Decrease The Vulnerability To Environmental Toxicity Or Stressors And Associated Inflammatory Disease Risks, Bernhard Hennig, Pan Deng
Healthful Nutrition As A Prevention And Intervention Paradigm To Decrease The Vulnerability To Environmental Toxicity Or Stressors And Associated Inflammatory Disease Risks, Bernhard Hennig, Pan Deng
Superfund Research Center Faculty Publications
No abstract provided.
Chronic Muscle Weakness And Mitochondrial Dysfunction In The Absence Of Sustained Atrophy In A Preclinical Sepsis Model, Allison M. Owen, Samir P. Patel, Jeffrey D. Smith, Beverly K. Balasuriya, Stephanie F. Mori, Gregory S. Hawk, Arnold J. Stromberg, Naohide Kuriyama, Masao Kaneki, Alexander G. Rabchevsky, Timothy A. Butterfield, Karyn A. Esser, Charlotte A. Peterson, Marlene E. Starr, Hiroshi Saito
Chronic Muscle Weakness And Mitochondrial Dysfunction In The Absence Of Sustained Atrophy In A Preclinical Sepsis Model, Allison M. Owen, Samir P. Patel, Jeffrey D. Smith, Beverly K. Balasuriya, Stephanie F. Mori, Gregory S. Hawk, Arnold J. Stromberg, Naohide Kuriyama, Masao Kaneki, Alexander G. Rabchevsky, Timothy A. Butterfield, Karyn A. Esser, Charlotte A. Peterson, Marlene E. Starr, Hiroshi Saito
Physiology Faculty Publications
Chronic critical illness is a global clinical issue affecting millions of sepsis survivors annually. Survivors report chronic skeletal muscle weakness and development of new functional limitations that persist for years. To delineate mechanisms of sepsis-induced chronic weakness, we first surpassed a critical barrier by establishing a murine model of sepsis with ICU-like interventions that allows for the study of survivors. We show that sepsis survivors have profound weakness for at least 1 month, even after recovery of muscle mass. Abnormal mitochondrial ultrastructure, impaired respiration and electron transport chain activities, and persistent protein oxidative damage were evident in the muscle of …
Post-Acquisition Processing Confounds In Brain Volumetric Quantification Of White Matter Hyperintensities, Ahmed A. Bahrani, Omar M. Al-Janabi, Erin L. Abner, Shoshana H. Bardach, Richard J. Kryscio, Donna M. Wilcock, Charles D. Smith, Gregory A. Jicha
Post-Acquisition Processing Confounds In Brain Volumetric Quantification Of White Matter Hyperintensities, Ahmed A. Bahrani, Omar M. Al-Janabi, Erin L. Abner, Shoshana H. Bardach, Richard J. Kryscio, Donna M. Wilcock, Charles D. Smith, Gregory A. Jicha
Neurology Faculty Publications
BACKGROUND: Disparate research sites using identical or near-identical magnetic resonance imaging (MRI) acquisition techniques often produce results that demonstrate significant variability regarding volumetric quantification of white matter hyperintensities (WMH) in the aging population. The sources of such variability have not previously been fully explored.
NEW METHOD: 3D FLAIR sequences from a group of randomly selected aged subjects were analyzed to identify sources-of-variability in post-acquisition processing that can be problematic when comparing WMH volumetric data across disparate sites. The methods developed focused on standardizing post-acquisition protocol processing methods to develop a protocol with less than 0.5% inter-rater variance.
RESULTS: A series …
Soil Net Nitrogen Mineralisation Across Global Grasslands, A. C. Risch, S. Zimmerman, R. Ochoa-Hueso, M. Schütz, B. Frey, J. L. Firn, P. A. Fay, F. Hagedorn, E. T. Borer, E. W. Seabloom, W. S. Harpole, J. M. H. Knops, Rebecca L. Mcculley, A. A. D. Broadbent, C. J. Stevens, M. L. Silveria, P. B. Adler, S. Báez, L. A. Biederman, J. M. Blair
Soil Net Nitrogen Mineralisation Across Global Grasslands, A. C. Risch, S. Zimmerman, R. Ochoa-Hueso, M. Schütz, B. Frey, J. L. Firn, P. A. Fay, F. Hagedorn, E. T. Borer, E. W. Seabloom, W. S. Harpole, J. M. H. Knops, Rebecca L. Mcculley, A. A. D. Broadbent, C. J. Stevens, M. L. Silveria, P. B. Adler, S. Báez, L. A. Biederman, J. M. Blair
Plant and Soil Sciences Faculty Publications
Soil nitrogen mineralisation (Nmin), the conversion of organic into inorganic N, is important for productivity and nutrient cycling. The balance between mineralisation and immobilisation (net Nmin) varies with soil properties and climate. However, because most global-scale assessments of net Nmin are laboratory-based, its regulation under field-conditions and implications for real-world soil functioning remain uncertain. Here, we explore the drivers of realised (field) and potential (laboratory) soil net Nmin across 30 grasslands worldwide. We find that realised Nmin is largely explained by temperature of the wettest quarter, microbial biomass, clay content and bulk density. …
Enhancing Timeliness Of Drug Overdose Mortality Surveillance: A Machine Learning Approach, Patrick J. Ward, Peter J. Rock, Svetla Slavova, April M. Young, Terry L. Bunn, Ramakanth Kavuluru
Enhancing Timeliness Of Drug Overdose Mortality Surveillance: A Machine Learning Approach, Patrick J. Ward, Peter J. Rock, Svetla Slavova, April M. Young, Terry L. Bunn, Ramakanth Kavuluru
Kentucky Injury Prevention and Research Center Faculty Publications
BACKGROUND: Timely data is key to effective public health responses to epidemics. Drug overdose deaths are identified in surveillance systems through ICD-10 codes present on death certificates. ICD-10 coding takes time, but free-text information is available on death certificates prior to ICD-10 coding. The objective of this study was to develop a machine learning method to classify free-text death certificates as drug overdoses to provide faster drug overdose mortality surveillance.
METHODS: Using 2017–2018 Kentucky death certificate data, free-text fields were tokenized and features were created from these tokens using natural language processing (NLP). Word, bigram, and trigram features were created …
Usgs 104(B) Grant Program: Kentucky’S Fy 2018 Projects, Emily Koyagi, Steve Evans, Lindell Ormsbee
Usgs 104(B) Grant Program: Kentucky’S Fy 2018 Projects, Emily Koyagi, Steve Evans, Lindell Ormsbee
KWRRI Annual Technical Reports (USGS’s 104b Grant Program)
The Kentucky Water Resources Research Institute (KWRRI) is one of 54 federally authorized water resource institutes or centers throughout the United States and its territories. It operates under the authority of the Water Resources Research Act of 1964 (P.L. 88-379 codified at 42 U.S.C. 10301 et seq.) through the Water Resources Research Institutes Program administered by the United States Geological Survey (USGS). KWRRI’s annual base grant program under section 104(b) supports the following objectives specified in the Water Resources Research Act:
1. Plan, conduct, or otherwise arrange for competent applied and peer reviewed research that fosters: a. improvements in water …
Metformin Blunts Muscle Hypertrophy In Response To Progressive Resistance Exercise Training In Older Adults: A Randomized, Double‐Blind, Placebo‐Controlled, Multicenter Trial: The Masters Trial, R. Grace Walton, Cory M. Dungan, Douglas E. Long, S. Craig Tuggle, Kate Kosmac, Bailey D. Peck, Heather M. Bush, Alejandro G. Villasante Tezanos, Gerald Mcgwin, Samuel T. Windham, Fernando Ovalle, Marcas M. Bamman, Philip A. Kern, Charlotte A. Peterson
Metformin Blunts Muscle Hypertrophy In Response To Progressive Resistance Exercise Training In Older Adults: A Randomized, Double‐Blind, Placebo‐Controlled, Multicenter Trial: The Masters Trial, R. Grace Walton, Cory M. Dungan, Douglas E. Long, S. Craig Tuggle, Kate Kosmac, Bailey D. Peck, Heather M. Bush, Alejandro G. Villasante Tezanos, Gerald Mcgwin, Samuel T. Windham, Fernando Ovalle, Marcas M. Bamman, Philip A. Kern, Charlotte A. Peterson
Center for Muscle Biology Faculty Publications
Progressive resistance exercise training (PRT) is the most effective known intervention for combating aging skeletal muscle atrophy. However, the hypertrophic response to PRT is variable, and this may be due to muscle inflammation susceptibility. Metformin reduces inflammation, so we hypothesized that metformin would augment the muscle response to PRT in healthy women and men aged 65 and older. In a randomized, double-blind trial, participants received 1,700 mg/day metformin (N = 46) or placebo (N = 48) throughout the study, and all subjects performed 14 weeks of supervised PRT. Although responses to PRT varied, placebo gained more lean body …
Climate Change Impacts On Winter Wheat Yield In Northern China, Xiu Geng, Fang Wang, Wei Ren, Zhixin Hao
Climate Change Impacts On Winter Wheat Yield In Northern China, Xiu Geng, Fang Wang, Wei Ren, Zhixin Hao
Plant and Soil Sciences Faculty Publications
Exploring the impacts of climate change on agriculture is one of important topics with respect to climate change. We quantitatively examined the impacts of climate change on winter wheat yield in Northern China using the Cobb–Douglas production function. Utilizing time-series data of agricultural production and meteorological observations from 1981 to 2016, the impacts of climatic factors on wheat production were assessed. It was found that the contribution of climatic factors to winter wheat yield per unit area (WYPA) was 0.762–1.921% in absolute terms. Growing season average temperature (GSAT) had a negative impact on WYPA for the period of 1981–2016. A …
Crystal Structure Of Zymonic Acid And A Redetermination Of Its Precursor, Pyruvic Acid, Dominik Heger, Alexis J. Eugene, Sean R. Parkin, Marcelo I. Guzman
Crystal Structure Of Zymonic Acid And A Redetermination Of Its Precursor, Pyruvic Acid, Dominik Heger, Alexis J. Eugene, Sean R. Parkin, Marcelo I. Guzman
Chemistry Faculty Publications
The structure of zymonic acid (systematic name: 4-hydroxy-2-methyl-5-oxo-2,5-dihydrofuran-2-carboxylic acid), C6H6O5, which had previously eluded crystallographic determination, is presented here for the first time. It forms by intramolecular condensation of parapyruvic acid, which is the product of aldol condensation of pyruvic acid. A redetermination of the crystal structure of pyruvic acid (systematic name: 2-oxopropanoic acid), C3H4O3, at low temperature (90 K) and with increased precision, is also presented [for the previous structure, see: Harata et al. (1977). Acta Cryst. B33, 210–212]. In zymonic acid, the hydroxylactone ring …