scispace - formally typeset
Search or ask a question

Showing papers by "University of Illinois at Chicago published in 2016"


Journal ArticleDOI
Daniel J. Klionsky1, Kotb Abdelmohsen2, Akihisa Abe3, Joynal Abedin4  +2519 moreInstitutions (695)
TL;DR: In this paper, the authors present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macro-autophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes.
Abstract: In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. For example, a key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process versus those that measure flux through the autophagy pathway (i.e., the complete process including the amount and rate of cargo sequestered and degraded). In particular, a block in macroautophagy that results in autophagosome accumulation must be differentiated from stimuli that increase autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. It is worth emphasizing here that lysosomal digestion is a stage of autophagy and evaluating its competence is a crucial part of the evaluation of autophagic flux, or complete autophagy. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. Along these lines, because of the potential for pleiotropic effects due to blocking autophagy through genetic manipulation, it is imperative to target by gene knockout or RNA interference more than one autophagy-related protein. In addition, some individual Atg proteins, or groups of proteins, are involved in other cellular pathways implying that not all Atg proteins can be used as a specific marker for an autophagic process. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular assays, we hope to encourage technical innovation in the field.

5,187 citations


Journal ArticleDOI
Mingxun Wang1, Jeremy Carver1, Vanessa V. Phelan2, Laura M. Sanchez2, Neha Garg2, Yao Peng1, Don D. Nguyen1, Jeramie D. Watrous2, Clifford A. Kapono1, Tal Luzzatto-Knaan2, Carla Porto2, Amina Bouslimani2, Alexey V. Melnik2, Michael J. Meehan2, Wei-Ting Liu3, Max Crüsemann4, Paul D. Boudreau4, Eduardo Esquenazi, Mario Sandoval-Calderón5, Roland D. Kersten6, Laura A. Pace2, Robert A. Quinn7, Katherine R. Duncan8, Cheng-Chih Hsu1, Dimitrios J. Floros1, Ronnie G. Gavilan, Karin Kleigrewe4, Trent R. Northen9, Rachel J. Dutton10, Delphine Parrot11, Erin E. Carlson12, Bertrand Aigle13, Charlotte Frydenlund Michelsen14, Lars Jelsbak14, Christian Sohlenkamp5, Pavel A. Pevzner1, Anna Edlund15, Anna Edlund16, Jeffrey S. McLean17, Jeffrey S. McLean15, Jörn Piel18, Brian T. Murphy19, Lena Gerwick4, Chih-Chuang Liaw20, Yu-Liang Yang21, Hans-Ulrich Humpf22, Maria Maansson14, Robert A. Keyzers23, Amy C. Sims24, Andrew R. Johnson25, Ashley M. Sidebottom25, Brian E. Sedio26, Andreas Klitgaard14, Charles B. Larson2, Charles B. Larson4, Cristopher A. Boya P., Daniel Torres-Mendoza, David Gonzalez2, Denise Brentan Silva27, Denise Brentan Silva28, Lucas Miranda Marques27, Daniel P. Demarque27, Egle Pociute, Ellis C. O’Neill4, Enora Briand11, Enora Briand4, Eric J. N. Helfrich18, Eve A. Granatosky29, Evgenia Glukhov4, Florian Ryffel18, Hailey Houson, Hosein Mohimani1, Jenan J. Kharbush4, Yi Zeng1, Julia A. Vorholt18, Kenji L. Kurita30, Pep Charusanti1, Kerry L. McPhail31, Kristian Fog Nielsen14, Lisa Vuong, Maryam Elfeki19, Matthew F. Traxler32, Niclas Engene33, Nobuhiro Koyama2, Oliver B. Vining31, Ralph S. Baric24, Ricardo Pianta Rodrigues da Silva27, Samantha J. Mascuch4, Sophie Tomasi11, Stefan Jenkins9, Venkat R. Macherla, Thomas Hoffman, Vinayak Agarwal4, Philip G. Williams34, Jingqui Dai34, Ram P. Neupane34, Joshua R. Gurr34, Andrés M. C. Rodríguez27, Anne Lamsa1, Chen Zhang1, Kathleen Dorrestein2, Brendan M. Duggan2, Jehad Almaliti2, Pierre-Marie Allard35, Prasad Phapale, Louis-Félix Nothias36, Theodore Alexandrov, Marc Litaudon36, Jean-Luc Wolfender35, Jennifer E. Kyle37, Thomas O. Metz37, Tyler Peryea38, Dac-Trung Nguyen38, Danielle VanLeer38, Paul Shinn38, Ajit Jadhav38, Rolf Müller, Katrina M. Waters37, Wenyuan Shi15, Xueting Liu39, Lixin Zhang39, Rob Knight1, Paul R. Jensen4, Bernhard O. Palsson1, Kit Pogliano1, Roger G. Linington30, Marcelino Gutiérrez, Norberto Peporine Lopes27, William H. Gerwick4, William H. Gerwick2, Bradley S. Moore4, Bradley S. Moore2, Pieter C. Dorrestein2, Pieter C. Dorrestein4, Nuno Bandeira2, Nuno Bandeira1 
TL;DR: In GNPS, crowdsourced curation of freely available community-wide reference MS libraries will underpin improved annotations and data-driven social-networking should facilitate identification of spectra and foster collaborations.
Abstract: The potential of the diverse chemistries present in natural products (NP) for biotechnology and medicine remains untapped because NP databases are not searchable with raw data and the NP community has no way to share data other than in published papers. Although mass spectrometry (MS) techniques are well-suited to high-throughput characterization of NP, there is a pressing need for an infrastructure to enable sharing and curation of data. We present Global Natural Products Social Molecular Networking (GNPS; http://gnps.ucsd.edu), an open-access knowledge base for community-wide organization and sharing of raw, processed or identified tandem mass (MS/MS) spectrometry data. In GNPS, crowdsourced curation of freely available community-wide reference MS libraries will underpin improved annotations. Data-driven social-networking should facilitate identification of spectra and foster collaborations. We also introduce the concept of 'living data' through continuous reanalysis of deposited data.

2,365 citations


Journal ArticleDOI
03 May 2016-JAMA
TL;DR: In the United States in 2010-2011, there was an estimated annual antibiotic prescription rate per 1000 population of 506, but only an estimated 353 antibiotic prescriptions were likely appropriate, supporting the need for establishing a goal for outpatient antibiotic stewardship.
Abstract: Importance The National Action Plan for Combating Antibiotic-Resistant Bacteria set a goal of reducing inappropriate outpatient antibiotic use by 50% by 2020, but the extent of inappropriate outpatient antibiotic use is unknown. Objective To estimate the rates of outpatient oral antibiotic prescribing by age and diagnosis, and the estimated portions of antibiotic use that may be inappropriate in adults and children in the United States. Design, Setting, and Participants Using the 2010-2011 National Ambulatory Medical Care Survey and National Hospital Ambulatory Medical Care Survey, annual numbers and population-adjusted rates with 95% confidence intervals of ambulatory visits with oral antibiotic prescriptions by age, region, and diagnosis in the United States were estimated. Exposures Ambulatory care visits. Main Outcomes and Measures Based on national guidelines and regional variation in prescribing, diagnosis-specific prevalence and rates of total and appropriate antibiotic prescriptions were determined. These rates were combined to calculate an estimate of the appropriate annual rate of antibiotic prescriptions per 1000 population. Results Of the 184 032 sampled visits, 12.6% of visits (95% CI, 12.0%-13.3%) resulted in antibiotic prescriptions. Sinusitis was the single diagnosis associated with the most antibiotic prescriptions per 1000 population (56 antibiotic prescriptions [95% CI, 48-64]), followed by suppurative otitis media (47 antibiotic prescriptions [95% CI, 41-54]), and pharyngitis (43 antibiotic prescriptions [95% CI, 38-49]). Collectively, acute respiratory conditions per 1000 population led to 221 antibiotic prescriptions (95% CI, 198-245) annually, but only 111 antibiotic prescriptions were estimated to be appropriate for these conditions. Per 1000 population, among all conditions and ages combined in 2010-2011, an estimated 506 antibiotic prescriptions (95% CI, 458-554) were written annually, and, of these, 353 antibiotic prescriptions were estimated to be appropriate antibiotic prescriptions. Conclusions and Relevance In the United States in 2010-2011, there was an estimated annual antibiotic prescription rate per 1000 population of 506, but only an estimated 353 antibiotic prescriptions were likely appropriate, supporting the need for establishing a goal for outpatient antibiotic stewardship.

1,162 citations


Journal ArticleDOI
TL;DR: A robust approach for sample preparation, instrumentation, acquisition parameters and data processing is explored and it is expected that a typical Raman experiment can be performed by a nonspecialist user to generate high-quality data for biological materials analysis.
Abstract: Raman spectroscopy can be used to measure the chemical composition of a sample, which can in turn be used to extract biological information. Many materials have characteristic Raman spectra, which means that Raman spectroscopy has proven to be an effective analytical approach in geology, semiconductor, materials and polymer science fields. The application of Raman spectroscopy and microscopy within biology is rapidly increasing because it can provide chemical and compositional information, but it does not typically suffer from interference from water molecules. Analysis does not conventionally require extensive sample preparation; biochemical and structural information can usually be obtained without labeling. In this protocol, we aim to standardize and bring together multiple experimental approaches from key leaders in the field for obtaining Raman spectra using a microspectrometer. As examples of the range of biological samples that can be analyzed, we provide instructions for acquiring Raman spectra, maps and images for fresh plant tissue, formalin-fixed and fresh frozen mammalian tissue, fixed cells and biofluids. We explore a robust approach for sample preparation, instrumentation, acquisition parameters and data processing. By using this approach, we expect that a typical Raman experiment can be performed by a nonspecialist user to generate high-quality data for biological materials analysis.

814 citations


Journal ArticleDOI
TL;DR: In this paper, a review outlines the different mechanisms of wrinkle, ripple and crumple formation, and the interplay between wrinkles and ripples' attributes (wavelength/width, amplitude/height, length/size, and bending radius) and graphene's electronic properties and other mechanical, optical, surface, and chemical properties.

780 citations


Journal ArticleDOI
TL;DR: Recommendations on screening for chloroquine and hydroxychloroquine retinopathy are revised in light of new information about the prevalence of toxicity, risk factors, fundus distribution, and effectiveness of screening tools.

768 citations


Journal ArticleDOI
TL;DR: An expert group to review the scientific evidence for the relationship of load and health outcomes in sport provides athletes, coaches and support staff with practical guidelines to manage load in sport.
Abstract: Athletes participating in elite sports are exposed to high training loads and increasingly saturated competition calendars. Emerging evidence indicates that poor load management is a major risk factor for injury. The International Olympic Committee convened an expert group to review the scientific evidence for the relationship of load (defined broadly to include rapid changes in training and competition load, competition calendar congestion, psychological load and travel) and health outcomes in sport. We summarise the results linking load to risk of injury in athletes, and provide athletes, coaches and support staff with practical guidelines to manage load in sport. This consensus statement includes guidelines for (1) prescription of training and competition load, as well as for (2) monitoring of training, competition and psychological load, athlete well-being and injury. In the process, we identified research priorities.

752 citations



Journal ArticleDOI
TL;DR: The possibility of exploiting the reprogrammed glucose metabolism for therapeutic approaches that selectively target cancer cells is discussed, which is mediated by oncogenic drivers and by the undifferentiated character of cancer cells.
Abstract: In recent years there has been a growing interest among cancer biologists in cancer metabolism. This Review summarizes past and recent advances in our understanding of the reprogramming of glucose metabolism in cancer cells, which is mediated by oncogenic drivers and by the undifferentiated character of cancer cells. The reprogrammed glucose metabolism in cancer cells is required to fulfil anabolic demands. This Review discusses the possibility of exploiting the reprogrammed glucose metabolism for therapeutic approaches that selectively target cancer cells.

715 citations


Journal ArticleDOI
TL;DR: Despite the paucity of well-designed randomized controlled trials, practical conclusions and an integrated treatment algorithm for the treatment of convulsive status epilepticus across the age spectrum (infants through adults) can be constructed.
Abstract: CONTEXT: The optimal pharmacologic treatment for early convulsive status epilepticus is unclear. OBJECTIVE: To analyze efficacy, tolerability and safety data for anticonvulsant treatment of children and adults with convulsive status epilepticus and use this analysis to develop an evidence-based treatment algorithm. DATA SOURCES: Structured literature review using MEDLINE, Embase, Current Contents, and Cochrane library supplemented with article reference lists. STUDY SELECTION: Randomized controlled trials of anticonvulsant treatment for seizures lasting longer than 5 minutes. DATA EXTRACTION: Individual studies were rated using predefined criteria and these results were used to form recommendations, conclusions, and an evidence-based treatment algorithm. RESULTS: A total of 38 randomized controlled trials were identified, rated and contributed to the assessment. Only four trials were considered to have class I evidence of efficacy. Two studies were rated as class II and the remaining 32 were judged to hav...

713 citations


Journal ArticleDOI
29 Jul 2016-Science
TL;DR: Nanostructuring tungsten diselenide nanoflakes enhances catalytic activity for carbon dioxide conversion to carbon monoxide in an ionic liquid medium and applies this catalyst in a light-harvesting artificial leaf platform that concurrently oxidized water in the absence of any external potential.
Abstract: Conversion of carbon dioxide (CO2) into fuels is an attractive solution to many energy and environmental challenges. However, the chemical inertness of CO2 renders many electrochemical and photochemical conversion processes inefficient. We report a transition metal dichalcogenide nanoarchitecture for catalytic electrochemical CO2 conversion to carbon monoxide (CO) in an ionic liquid. We found that tungsten diselenide nanoflakes show a current density of 18.95 milliamperes per square centimeter, CO faradaic efficiency of 24%, and CO formation turnover frequency of 0.28 per second at a low overpotential of 54 millivolts. We also applied this catalyst in a light-harvesting artificial leaf platform that concurrently oxidized water in the absence of any external potential.

Journal ArticleDOI
Vardan Khachatryan1, Albert M. Sirunyan1, Armen Tumasyan1, Wolfgang Adam  +2283 moreInstitutions (141)
TL;DR: Combined fits to CMS UE proton–proton data at 7TeV and to UEProton–antiproton data from the CDF experiment at lower s, are used to study the UE models and constrain their parameters, providing thereby improved predictions for proton-proton collisions at 13.
Abstract: New sets of parameters ("tunes") for the underlying-event (UE) modeling of the PYTHIA8, PYTHIA6 and HERWIG++ Monte Carlo event generators are constructed using different parton distribution functions. Combined fits to CMS UE data at sqrt(s) = 7 TeV and to UE data from the CDF experiment at lower sqrt(s), are used to study the UE models and constrain their parameters, providing thereby improved predictions for proton-proton collisions at 13 TeV. In addition, it is investigated whether the values of the parameters obtained from fits to UE observables are consistent with the values determined from fitting observables sensitive to double-parton scattering processes. Finally, comparisons of the UE tunes to "minimum bias" (MB) events, multijet, and Drell-Yan (q q-bar to Z / gamma* to lepton-antilepton + jets) observables at 7 and 8 TeV are presented, as well as predictions of MB and UE observables at 13 TeV.

Journal ArticleDOI
TL;DR: In this article, the authors used a modified intention-to-treat analysis using an inferential joint model combining a mixed-effects model for longitudinal outcomes and a survival model to handle non-ignorable missing data.

Posted Content
TL;DR: In this paper, the authors examine cross-sectional differences in the optimistic behavior of financial analysts and investigate whether the predic- tive accuracy of past information (e.g., time-series of earnings, past returns, etc.) is associated with the magnitude of the bias in analysts' earnings fore-casts.
Abstract: This paper examines cross-sectional differences in the optimistic behavior of financial analysts. Specifically, we investigate whether the predic- tive accuracy of past information (e.g., time-series of earnings, past returns, etc.) is associated with the magnitude of the bias in analysts' earnings fore- casts. We posit that there is higher demand for non-public information for firms whose earnings are difficult to accurately predict than for firms whose earnings can be accurately forecasted using public information. Assuming that opti- mism facilitates access to management's non-public information, we hypoth- esize that analysts will issue more optimistic forecasts for low predictability firms than for high predictability firms. Our results support this hypothesis.

Journal ArticleDOI
TL;DR: This study demonstrates that whole genome shotgun sequencing has multiple advantages compared with the 16S amplicon method including enhanced detection of bacterial species, increased detection of diversity and increased prediction of genes.

Journal ArticleDOI
21 Jan 2016-Nature
TL;DR: It is shown that crystalline LiO2 can be stabilized in a Li–O2 battery by using a suitable graphene-based cathode, which could open the way to high-energy-density batteries based onLiO2 as well as to other possible uses of this compound, such as oxygen storage.
Abstract: Lithium–oxygen batteries allow oxygen to be reduced at the battery’s cathode when a current is drawn; in present-day batteries, this results in formation of Li2O2, but it is now shown that another high energy density material, namely LiO2, with better electronic conduction can be used instead as the discharge product, if the electrode is decorated with iridium nanoparticles. Nonaqueous lithium–air batteries have a much superior theoretical gravimetric energy density compared to conventional lithium ion batteries, and thus have the potential for making long-range electric vehicles a reality. Batteries based on sodium and potassium superoxides have recently been reported, but thermodynamically unstable lithium superoxide (LiO2), with its potential high energy density, has proved more problematic. This paper demonstrates that crystalline LiO2 can be stabilized in a Li–O2 battery by using a suitable cathode material — reduced graphene oxide decorated with iridium nanoparticles. A battery based on this new lithium–oxygen chemistry was demonstrated through 40 cycles before failure, achieving high efficiency and good capacity. Batteries based on sodium superoxide and on potassium superoxide have recently been reported1,2,3. However, there have been no reports of a battery based on lithium superoxide (LiO2), despite much research4,5,6,7,8 into the lithium–oxygen (Li–O2) battery because of its potential high energy density. Several studies9,10,11,12,13,14,15,16 of Li–O2 batteries have found evidence of LiO2 being formed as one component of the discharge product along with lithium peroxide (Li2O2). In addition, theoretical calculations have indicated that some forms of LiO2 may have a long lifetime17. These studies also suggest that it might be possible to form LiO2 alone for use in a battery. However, solid LiO2 has been difficult to synthesize in pure form18 because it is thermodynamically unstable with respect to disproportionation, giving Li2O2 (refs 19, 20). Here we show that crystalline LiO2 can be stabilized in a Li–O2 battery by using a suitable graphene-based cathode. Various characterization techniques reveal no evidence for the presence of Li2O2. A novel templating growth mechanism involving the use of iridium nanoparticles on the cathode surface may be responsible for the growth of crystalline LiO2. Our results demonstrate that the LiO2 formed in the Li–O2 battery is stable enough for the battery to be repeatedly charged and discharged with a very low charge potential (about 3.2 volts). We anticipate that this discovery will lead to methods of synthesizing and stabilizing LiO2, which could open the way to high-energy-density batteries based on LiO2 as well as to other possible uses of this compound, such as oxygen storage.

Journal ArticleDOI
TL;DR: The first long-term glycemic correction of a diabetic, immunocompetent animal model using human SC-β cells is reported, which induced glycemic Correction without any immunosuppression until their removal at 174 d after implantation.
Abstract: When encapsulated with alginate derivatives that resist the foreign-body response, human embryonic stem cell–derived beta cells restore long-term normoglycemia in immunocompetent mice without the need for immunosuppression.

Book
07 Nov 2016
TL;DR: As statistical machine learning matures, it is time to make a major effort to break the isolated learning tradition and to study lifelong learning to bring machine learning to new heights.
Abstract: Lifelong Machine Learning (or Lifelong Learning) is an advanced machine learning paradigm that learns continuously, accumulates the knowledge learned in previous tasks, and uses it to help future learning. In the process, the learner becomes more and more knowledgeable and effective at learning. This learning ability is one of the hallmarks of human intelligence. However, the current dominant machine learning paradigm learns in isolation: given a training dataset, it runs a machine learning algorithm on the dataset to produce a model. It makes no attempt to retain the learned knowledge and use it in future learning. Although this isolated learning paradigm has been very successful, it requires a large number of training examples, and is only suitable for well-defined and narrow tasks. In comparison, we humans can learn effectively with a few examples because we have accumulated so much knowledge in the past which enables us to learn with little data or effort. Lifelong learning aims to achieve this capability. As statistical machine learning matures, it is time to make a major effort to break the isolated learning tradition and to study lifelong learning to bring machine learning to new heights. Applications such as intelligent assistants, chatbots, and physical robots that interact with humans and systems in real-life environments are also calling for such lifelong learning capabilities. Without the ability to accumulate the learned knowledge and use it to learn more knowledge incrementally, a system will probably never be truly intelligent. This book serves as an introductory text and survey to lifelong learning.

Journal ArticleDOI
TL;DR: The effects of electrolyte cation size can be attributed to a previously unrecognized consequence of cation hydrolysis occurring in the vicinity of the cathode, leading to an increase in cathode activity, a decrease in Faradaic efficiencies for H2 and CH4, and an increase for CO, C2H5OH, in full agreement with experimental observations for CO2 reduction over Ag and Cu.
Abstract: Electrolyte cation size is known to influence the electrochemical reduction of CO2 over metals; however, a satisfactory explanation for this phenomenon has not been developed. We report here that these effects can be attributed to a previously unrecognized consequence of cation hydrolysis occurring in the vicinity of the cathode. With increasing cation size, the pKa for cation hydrolysis decreases and is sufficiently low for hydrated K+, Rb+, and Cs+ to serve as buffering agents. Buffering lowers the pH near the cathode, leading to an increase in the local concentration of dissolved CO2. The consequences of these changes are an increase in cathode activity, a decrease in Faradaic efficiencies for H2 and CH4, and an increase in Faradaic efficiencies for CO, C2H4, and C2H5OH, in full agreement with experimental observations for CO2 reduction over Ag and Cu.

Journal ArticleDOI
TL;DR: Among patients with degenerative grade I spondylolisthesis, the addition of lumbar spinal fusion to laminectomy was associated with slightly greater but clinically meaningful improvement in overall physical health-related quality of life than lamin surgery alone.
Abstract: BackgroundThe comparative effectiveness of performing instrumented (rigid pedicle screws affixed to titanium alloy rods) lumbar spinal fusion in addition to decompressive laminectomy in patients with symptomatic lumbar grade I degenerative spondylolisthesis with spinal stenosis is unknown. MethodsIn this randomized, controlled trial, we assigned patients, 50 to 80 years of age, who had stable degenerative spondylolisthesis (degree of spondylolisthesis, 3 to 14 mm) and symptomatic lumbar spinal stenosis to undergo either decompressive laminectomy alone (decompression-alone group) or laminectomy with posterolateral instrumented fusion (fusion group). The primary outcome measure was the change in the physical-component summary score of the Medical Outcomes Study 36-Item Short-Form Health Survey (SF-36; range, 0 to 100, with higher scores indicating better quality of life) 2 years after surgery. The secondary outcome measure was the score on the Oswestry Disability Index (range, 0 to 100, with higher scores i...

Journal ArticleDOI
TL;DR: Genome-wide significant associations for overall microbial variation and individual taxa at multiple genetic loci identify other important points of host–microbe intersection, notably several disease susceptibility genes and sterol metabolism pathway components.
Abstract: Human gut microbiota is an important determinant for health and disease, and recent studies emphasize the numerous factors shaping its diversity. Here we performed a genome-wide association study (GWAS) of the gut microbiota using two cohorts from northern Germany totaling 1,812 individuals. Comprehensively controlling for diet and non-genetic parameters, we identify genome-wide significant associations for overall microbial variation and individual taxa at multiple genetic loci, including the VDR gene (encoding vitamin D receptor). We observe significant shifts in the microbiota of Vdr-/- mice relative to control mice and correlations between the microbiota and serum measurements of selected bile and fatty acids in humans, including known ligands and downstream metabolites of VDR. Genome-wide significant (P < 5 × 10-8) associations at multiple additional loci identify other important points of host-microbe intersection, notably several disease susceptibility genes and sterol metabolism pathway components. Non-genetic and genetic factors each account for approximately 10% of the variation in gut microbiota, whereby individual effects are relatively small.

Journal ArticleDOI
TL;DR: Sunitinib and sorafenib, two oral anti-angiogenic agents that are effective in advanced renal-cell carcinoma, are tested in patients with resected local disease at high risk for recurrence in a double-blind, placebo-controlled, randomised, phase 3 trial.

Journal ArticleDOI
TL;DR: It is shown that the hypertrophied and failing heart shifts to ketone bodies as a significant fuel source for oxidative ATP production, and whether this fuel shift is adaptive or maladaptive could unveil new therapeutic strategies for heart failure.
Abstract: Background— Significant evidence indicates that the failing heart is energy starved. During the development of heart failure, the capacity of the heart to utilize fatty acids, the chief fuel, is diminished. Identification of alternate pathways for myocardial fuel oxidation could unveil novel strategies to treat heart failure. Methods and Results— Quantitative mitochondrial proteomics was used to identify energy metabolic derangements that occur during the development of cardiac hypertrophy and heart failure in well-defined mouse models. As expected, the amounts of proteins involved in fatty acid utilization were downregulated in myocardial samples from the failing heart. Conversely, expression of β-hydroxybutyrate dehydrogenase 1, a key enzyme in the ketone oxidation pathway, was increased in the heart failure samples. Studies of relative oxidation in an isolated heart preparation using ex vivo nuclear magnetic resonance combined with targeted quantitative myocardial metabolomic profiling using mass spectrometry revealed that the hypertrophied and failing heart shifts to oxidizing ketone bodies as a fuel source in the context of reduced capacity to oxidize fatty acids. Distinct myocardial metabolomic signatures of ketone oxidation were identified. Conclusions— These results indicate that the hypertrophied and failing heart shifts to ketone bodies as a significant fuel source for oxidative ATP production. Specific metabolite biosignatures of in vivo cardiac ketone utilization were identified. Future studies aimed at determining whether this fuel shift is adaptive or maladaptive could unveil new therapeutic strategies for heart failure. # CLINICAL PERSPECTIVE {#article-title-65}

Journal ArticleDOI
TL;DR: The use of prescription medications and dietary supplements, and concurrent use of interacting medications, has increased since 2005, with 15% of older adults potentially at risk for a major drug-drug interaction.
Abstract: Importance Prescription and over-the-counter medicines and dietary supplements are commonly used, alone and together, among older adults. However, the effect of recent regulatory and market forces on these patterns is not known. Objectives To characterize changes in the prevalence of medication use, including concurrent use of prescription and over-the-counter medications and dietary supplements, and to quantify the frequency and types of potential major drug-drug interactions. Design, Setting, and Participants Descriptive analyses of a longitudinal, nationally representative sample of community-dwelling older adults 62 to 85 years old. In-home interviews with direct medication inspection were conducted in 2005-2006 and again in 2010-2011. The dates of the analysis were March to November 2015. We defined medication use as the use of at least 1 prescription or over-the-counter medication or dietary supplement at least daily or weekly and defined concurrent use as the regular use of at least 2 medications. We used Micromedex to identify potential major drug-drug interactions. Main Outcomes and Measures Population estimates of the prevalence of medication use (in aggregate and by therapeutic class), concurrent use, and major drug-drug interactions. Results The study cohort comprised 2351 participants in 2005-2006 and 2206 in 2010-2011. Their mean age was 70.9 years in 2005-2006 and 71.4 years in 2010-2011. Fifty-three percent of participants were female in 2005-2006, and 51.6% were female in 2010-2011. The use of at least 1 prescription medication slightly increased from 84.1% in 2005-2006 to 87.7% in 2010-2011 ( P = .003). Concurrent use of at least 5 prescription medications increased from 30.6% to 35.8% ( P = .02). While the use of over-the-counter medications declined from 44.4% to 37.9%, the use of dietary supplements increased from 51.8% to 63.7% ( P P P Conclusions and Relevance In this study, the use of prescription medications and dietary supplements, and concurrent use of interacting medications, has increased since 2005, with 15% of older adults potentially at risk for a major drug-drug interaction. Improving safety with the use of multiple medications has the potential to reduce preventable adverse drug events associated with medications commonly used among older adults.

Journal ArticleDOI
TL;DR: Transplanted PHPI provided glycemic control, restoration of hypoglycemia awareness, and protection from SHEs in subjects with intractable IAH and SHEs and should be considered for patients with T1D and IAH in whom other, less invasive current treatments have been ineffective in preventing SHEs.
Abstract: OBJECTIVE Impaired awareness of hypoglycemia (IAH) and severe hypoglycemic events (SHEs) cause substantial morbidity and mortality in patients with type 1 diabetes (T1D). Current therapies are effective in preventing SHEs in 50–80% of patients with IAH and SHEs, leaving a substantial number of patients at risk. We evaluated the effectiveness and safety of a standardized human pancreatic islet product in subjects in whom IAH and SHEs persisted despite medical treatment. RESEARCH DESIGN AND METHODS This multicenter, single-arm, phase 3 study of the investigational product purified human pancreatic islets (PHPI) was conducted at eight centers in North America. Forty-eight adults with T1D for >5 years, absent stimulated C-peptide, and documented IAH and SHEs despite expert care were enrolled. Each received immunosuppression and one or more transplants of PHPI, manufactured on-site under good manufacturing practice conditions using a common batch record and standardized lot release criteria and test methods. The primary end point was the achievement of HbA 1c RESULTS The primary end point was successfully met by 87.5% of subjects at 1 year, and by 71% at 2 years. The median HbA 1c level was 5.6% (38 mmol/mol) at both 1 and 2 years. Hypoglycemia awareness was restored, with highly significant improvements in Clarke and HYPO scores ( P > 0.0001). No study-related deaths or disabilities occurred. Five of the enrollees (10.4%) experienced bleeds requiring transfusions (corresponding to 5 of 75 procedures), and two enrollees (4.1%) had infections attributed to immunosuppression. Glomerular filtration rate decreased significantly on immunosuppression, and donor-specific antibodies developed in two patients. CONCLUSIONS Transplanted PHPI provided glycemic control, restoration of hypoglycemia awareness, and protection from SHEs in subjects with intractable IAH and SHEs. Safety events occurred related to the infusion procedure and immunosuppression, including bleeding and decreased renal function. Islet transplantation should be considered for patients with T1D and IAH in whom other, less invasive current treatments have been ineffective in preventing SHEs.

Journal ArticleDOI
TL;DR: It is shown that tumor endothelial cells (ECs) have a hyper-glycolytic metabolism, shunting intermediates to nucleotide synthesis, which reduces cancer cell invasion, intravasation, and metastasis by normalizing tumor vessels by PFKFB3-blockade treatment, which improved vessel maturation and perfusion.

Journal ArticleDOI
TL;DR: In this article, the authors estimate the rates of outpatient oral antibiotic prescribing by age and diagnosis, and the estimated portions of antibiotic use that may be inappropriate in adults and children in the United States.
Abstract: Importance The National Action Plan for Combating Antibiotic-Resistant Bacteria set a goal of reducing inappropriate outpatient antibiotic use by 50% by 2020, but the extent of inappropriate outpatient antibiotic use is unknown. Objective To estimate the rates of outpatient oral antibiotic prescribing by age and diagnosis, and the estimated portions of antibiotic use that may be inappropriate in adults and children in the United States. Design, Setting, and Participants Using the 2010-2011 National Ambulatory Medical Care Survey and National Hospital Ambulatory Medical Care Survey, annual numbers and population-adjusted rates with 95% confidence intervals of ambulatory visits with oral antibiotic prescriptions by age, region, and diagnosis in the United States were estimated. Exposures Ambulatory care visits. Main Outcomes and Measures Based on national guidelines and regional variation in prescribing, diagnosis-specific prevalence and rates of total and appropriate antibiotic prescriptions were determined. These rates were combined to calculate an estimate of the appropriate annual rate of antibiotic prescriptions per 1000 population. Results Of the 184 032 sampled visits, 12.6% of visits (95% CI, 12.0%-13.3%) resulted in antibiotic prescriptions. Sinusitis was the single diagnosis associated with the most antibiotic prescriptions per 1000 population (56 antibiotic prescriptions [95% CI, 48-64]), followed by suppurative otitis media (47 antibiotic prescriptions [95% CI, 41-54]), and pharyngitis (43 antibiotic prescriptions [95% CI, 38-49]). Collectively, acute respiratory conditions per 1000 population led to 221 antibiotic prescriptions (95% CI, 198-245) annually, but only 111 antibiotic prescriptions were estimated to be appropriate for these conditions. Per 1000 population, among all conditions and ages combined in 2010-2011, an estimated 506 antibiotic prescriptions (95% CI, 458-554) were written annually, and, of these, 353 antibiotic prescriptions were estimated to be appropriate antibiotic prescriptions. Conclusions and Relevance In the United States in 2010-2011, there was an estimated annual antibiotic prescription rate per 1000 population of 506, but only an estimated 353 antibiotic prescriptions were likely appropriate, supporting the need for establishing a goal for outpatient antibiotic stewardship.

Journal ArticleDOI
TL;DR: A broad-based consideration of the challenges and opportunities inherent in efforts to alter the course of schizophrenia is provided, including 'hybrid' strategies that both relieve presenting symptoms and reduce the risk of transition to schizophrenia or another psychiatric disorder.
Abstract: Despite a lack of recent progress in the treatment of schizophrenia, our understanding of its genetic and environmental causes has considerably improved, and their relationship to aberrant patterns of neurodevelopment has become clearer. This raises the possibility that 'disease-modifying' strategies could alter the course to — and of — this debilitating disorder, rather than simply alleviating symptoms. A promising window for course-altering intervention is around the time of the first episode of psychosis, especially in young people at risk of transition to schizophrenia. Indeed, studies performed in both individuals at risk of developing schizophrenia and rodent models for schizophrenia suggest that pre-diagnostic pharmacotherapy and psychosocial or cognitive-behavioural interventions can delay or moderate the emergence of psychosis. Of particular interest are 'hybrid' strategies that both relieve presenting symptoms and reduce the risk of transition to schizophrenia or another psychiatric disorder. This Review aims to provide a broad-based consideration of the challenges and opportunities inherent in efforts to alter the course of schizophrenia.

Journal ArticleDOI
TL;DR: In this paper, a p-n heterojunction photocatalyst n-BiVO4@p-MoS2 with core-shell structure was successfully fabricated for the first time through a facile in-situ hydrothermal method.
Abstract: The novel p–n heterojunction photocatalyst n-BiVO4@p-MoS2 with core–shell structure was successfully fabricated for the first time through a facile in-situ hydrothermal method, in which MoS2 shell thickness was easily tuned by varying the concentration of MoS2 precursor in the solution. The photocatalytic performances of samples were systematically investigated via the photocatalytic reduction of Cr6+ and oxidation of crystal violet (CV) under visible-light irradiation. The BiVO4@MoS2 samples exhibited excellent photocatalytic performance, among which, the BiVO4@MoS2 (10 wt%) sample with MoS2 shell 300 nm thickness, showed the highest photoreduction and photooxidation activities. The enhanced photocatalytic activities could be attributed to the suppression of charge recombination, the high specific surface area and strong adsorption ability toward the pollutant molecule, and the enhanced or tunable light absorption of BiVO4@MoS2. Especially, the core–shell structure geometry also increases the contact area between BiVO4 and MoS2, which facilitates the charge transfer at the BiVO4/MoS2 interface. The photocatalytic mechanism of BiVO4@MoS2 for reduction of Cr6+ and oxidation of CV was discussed in detail. Moreover, 12 photocatalytic degradation intermediates and products of CV were also identified by the gas chromatography–mass spectrometer (GC–MS).

Journal ArticleDOI
TL;DR: The implication for fitness to markedly alter the relationship between adiposity and prognosis and the potential impact of weight loss, in light of the obesity paradox, are all reviewed.