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C. Difficile Spores Valerate + Clindamycin C
This is an Open Access document downloaded from ORCA, Cardiff University's institutional repository: http://orca.cf.ac.uk/114080/ This is the author’s version of a work that was submitted to / accepted for publication. Citation for final published version: McDonald, Julie A.K., Mullish, Benjamin H., Pechlivanis, Alexandros, Liu, Zhigang, Brignardello, Jerusa, Kao, Dina, Holmes, Elaine, Li, Jia V., Clarke, Thomas B., Thursz, Mark R. and Marchesi, Julian R. 2018. Inhibiting growth of Clostridioides difficile by restoring valerate, produced by the intestinal microbiota. Gastroenterology 155 (5) , pp. 1495-1507. 10.1053/j.gastro.2018.07.014 file Publishers page: http://dx.doi.org/10.1053/j.gastro.2018.07.014 <http://dx.doi.org/10.1053/j.gastro.2018.07.014> Please note: Changes made as a result of publishing processes such as copy-editing, formatting and page numbers may not be reflected in this version. For the definitive version of this publication, please refer to the published source. You are advised to consult the publisher’s version if you wish to cite this paper. This version is being made available in accordance with publisher policies. See http://orca.cf.ac.uk/policies.html for usage policies. Copyright and moral rights for publications made available in ORCA are retained by the copyright holders. Accepted Manuscript Inhibiting Growth of Clostridioides difficile by Restoring Valerate, Produced by the Intestinal Microbiota Julie A.K. McDonald, Benjamin H. Mullish, Alexandros Pechlivanis, Zhigang Liu, Jerusa Brignardello, Dina Kao, -
Mortality Following Clostridioides Difficile Infection in Europe: a Retrospective Multicenter Case-Control Study
antibiotics Article Mortality Following Clostridioides difficile Infection in Europe: A Retrospective Multicenter Case-Control Study Jacek Czepiel 1,* , Marcela Krutova 2,3, Assaf Mizrahi 3,4,5 , Nagham Khanafer 3,6,7, David A. Enoch 8, Márta Patyi 9, Aleksander Deptuła 10, Antonella Agodi 11 , Xavier Nuvials 12 , Hanna Pituch 3,13 , Małgorzata Wójcik-Bugajska 14, Iwona Filipczak-Bryniarska 15, Bartosz Brzozowski 16, Marcin Krzanowski 17, Katarzyna Konturek 18, Marcin Fedewicz 19, Mateusz Michalak 20, Lorra Monpierre 4, Philippe Vanhems 6,7, Theodore Gouliouris 8, Artur Jurczyszyn 21, Sarah Goldman-Mazur 21, Dorota Wulta ´nska 13 , Ed J. Kuijper 3,22,23, Jan Skupie ´n 24, Grazyna˙ Biesiada 1 and Aleksander Garlicki 1 1 Department of Infectious and Tropical Diseases, Jagiellonian University Medical College, 30-688 Krakow, Poland; [email protected] (G.B.); [email protected] (A.G.) 2 Department of Medical Microbiology, Charles University, 2nd Faculty of Medicine and Motol University Hospital, 15006 Prague, Czech Republic; [email protected] or [email protected] 3 ESCMID Study Group for Clostridioides Difficile (ESGCD), 4001 Basel, Switzerland; [email protected] (A.M.); [email protected] (N.K.); [email protected] (H.P.); [email protected] (E.J.K.) 4 Service de Microbiologie Clinique, Groupe Hospitalier Paris Saint-Joseph, 75014 Paris, France; [email protected] 5 Institut Micalis UMR 1319, Université Paris-Saclay, INRAe, AgroParisTech, 92290 Châtenay Malabry, France 6 Unité d’Hygiène, Epidémiologie -
Raman Imaging of Small Biomolecules
BB48CH15_Min ARjats.cls April 16, 2019 13:8 Annual Review of Biophysics Raman Imaging of Small Biomolecules Yihui Shen, Fanghao Hu, and Wei Min Department of Chemistry, Columbia University, New York, NY 10027, USA; email: [email protected] Annu. Rev. Biophys. 2019. 48:347–69 Keywords First published as a Review in Advance on Raman microscopy, small molecule imaging, vibrational tags, lipid March 20, 2019 metabolism, drug imaging The Annual Review of Biophysics is online at biophys.annualreviews.org Abstract Access provided by Columbia University on 06/21/19. For personal use only. https://doi.org/10.1146/annurev-biophys-052118- Imaging techniques greatly facilitate the comprehensive knowledge of Annu. Rev. Biophys. 2019.48:347-369. Downloaded from www.annualreviews.org 115500 biological systems. Although imaging methodology for biomacromolecules Copyright © 2019 by Annual Reviews. such as protein and nucleic acids has been long established, micro- All rights reserved scopic techniques and contrast mechanisms are relatively limited for small biomolecules, which are equally important participants in biological pro- cesses. Recent developments in Raman imaging, including both microscopy and tailored vibrational tags, have created exciting opportunities for non- invasive imaging of small biomolecules in living cells, tissues, and organ- isms. Here, we summarize the principle and workflow of small-biomolecule imaging by Raman microscopy. Then, we review recent efforts in imaging, for example, lipids, metabolites, and drugs. The unique advantage of Raman imaging has been manifested in a variety of applications that have provided novel biological insights. 347 BB48CH15_Min ARjats.cls April 16, 2019 13:8 Contents THENEEDFORIMAGINGSMALLBIOMOLECULES........................ 348 IMAGINGSMALLMOLECULESBYVIBRATIONALCONTRAST............. 349 LINEAR AND NONLINEAR RAMAN SCATTERING SPECTROSCOPY ANDMICROSCOPY......................................................... -
Small Molecules, Big Impact
FOR RESEARCH USE ONLY. NOT INTENDED FOR HUMAN OR ANIMAL DIAGNOSTIC OR THERAPEUTIC USES. STEMCELL TECHNOLOGIES INC.’S QUALITY MANAGEMENT SYSTEM IS CERTIFIED TO ISO 13485 MEDICAL DEVICE STANDARDS. TGFβ: The TGFβ superfamily members are major regulators of self-renewal and differentiation to mesendodermal lineages. p38 / p53: p38 MAPK is activated in response to cellular stresses, and influences apoptosis and cellular differentiation. p53 is activated in Pathway Activators: IDE1, IDE2; Pathway Inhibitors: SB431542, LY364947, RepSox, Dorsomorphin, LDN193189 response to cellular stresses and regulates growth arrest, apoptosis and/or DNA repair. Inhibition of p53 is used to facilitate reprogramming. Pathway Inhibitors: BIRB-796, SB202190, SB203580, Cyclic Pifithrin-α, Pifithrin-μ Hedgehog: The Hedgehog pathway is important in the differentiation of mesenchymal subtypes (e.g. osteocytes) and in neural subtypes (e.g. dopaminergic neurons). FGF: FGF signaling via MEK/ERK is critical for self-renewal and proliferation of human PSCs. However, other receptor tyrosine kinases can Pathway Activator: Purmorphamine; Pathway Inhibitors: Cyclopamine, HPI-1 also act through the MEK/ERK and PI3K signaling pathways. Pathway Activators: Pyrintegrin, PS-48; Pathway Inhbitors: Pluripotin, PD0325901, PD98059, Reversine IWP-2 WNT: The WNT pathway regulates differentiation to the mesoendodermal lineages, induces self-renewal of PSCs, and aids in reprogramming. IWP-3 Pathway Activators: BIO, CHIR99021, Kenpaullone, SB216763; Pathway Inhibitors: IWP-2, IWP-3, IWP-4, -
Cadazolid/ACT-179811 Protocol AC-061A301
Cadazolid/ACT-179811 Protocol AC-061A301 A multi-center, randomized, double-blind study to compare the efficacy and safety of cadazolid versus vancomycin in subjects with Clostridium difficile-associated diarrhea (CDAD) NCT Number NCT01987895 Document Version, Date Final Version 3, 22 October 2015 Document History: - Original Version 29 August 2013 - Amendment 1 11 December 2014 - Amendment 2 22 October 2015 Main reason for Amendment 1 The main analysis of the primary endpoint Clinical Cure will be conducted on two co-primary analysis sets (i.e., modified intent-to-treat [mITT] analysis set and Per-protocol analysis set [PPS]) instead of sequential analysis. Further changes include the addition of an emerging hypervirulent Clostridium difficile strain, the addition of endpoints related to susceptibility testing of C. difficile and vancomycin-resistant enterococci, and general clarifications of eligibility criteria and statistical analyses including a modification to the definition of recurrence for analyses of secondary variable sustained cure rate. Main reason for Amendment 2 To remove the interim analysis originally planned after the randomization of 67% of the subjects. Confidentiality statement Property of Actelion Pharmaceuticals Ltd. May not be used, divulged, published or otherwise disclosed without the consent of Actelion Pharmaceuticals Ltd Cadazolid/ACT-179811 EudraCT: 2013-002528-17 Clostridium difficile-associated diarrhea Doc No D-15.418 Protocol AC-061A301 Confidential Version 3 22 October 2015, page 2/138 SPONSOR CONTACT DETAILS SPONSOR ACTELION Pharmaceuticals Ltd Gewerbestrasse 16 CH-4123 Allschwil Switzerland Clinical Trial Physician MEDICAL HOTLINE Toll phone number: +41 61 227 05 63 Site-specific toll telephone numbers and toll-free numbers for the Medical Hotline can be found in the Investigator Site File. -
Management of Adult Clostridium Difficile Digestive Contaminations: a Literature Review
European Journal of Clinical Microbiology & Infectious Diseases (2019) 38:209–231 https://doi.org/10.1007/s10096-018-3419-z REVIEW Management of adult Clostridium difficile digestive contaminations: a literature review Fanny Mathias1 & Christophe Curti1,2 & Marc Montana1,3 & Charléric Bornet4 & Patrice Vanelle 1,2 Received: 5 October 2018 /Accepted: 30 October 2018 /Published online: 29 November 2018 # Springer-Verlag GmbH Germany, part of Springer Nature 2018 Abstract Clostridium difficile infections (CDI) dramatically increased during the last decade and cause a major public health problem. Current treatments are limited by the high disease recurrence rate, severity of clinical forms, disruption of the gut microbiota, and colonization by vancomycin-resistant enterococci (VRE). In this review, we resumed current treatment options from official recommendation to promising alternatives available in the management of adult CDI, with regard to severity and recurring or non-recurring character of the infection. Vancomycin remains the first-line antibiotic in the management of mild to severe CDI. The use of metronidazole is discussed following the latest US recommendations that replaced it by fidaxomicin as first-line treatment of an initial episode of non-severe CDI. Fidaxomicin, the most recent antibiotic approved for CDI in adults, has several advantages compared to vancomycin and metronidazole, but its efficacy seems limited in cases of multiple recurrences. Innovative therapies such as fecal microbiota transplantation (FMT) and antitoxin antibodies were developed to limit the occurrence of recurrence of CDI. Research is therefore very active, and new antibiotics are being studied as surotomycin, cadazolid, and rinidazole. Keywords Clostridiumdifficile .Fidaxomicin .Fecalmicrobiotatransplantation .Antitoxinantibodies .Surotomycin .Cadazolid Introduction (Fig. -
Monoclonal Antibodies and Small-Molecule Drugs: WHAT GENERAL NEUROLOGISTS NEED to KNOW
THIS CONTENT IS SPONSORED BY AMGEN INC. AND NOVARTIS PHARMACEUTICALS CORPORATION USA-334-83498 Monoclonal Antibodies and Small-Molecule Drugs: WHAT GENERAL NEUROLOGISTS NEED TO KNOW APRIL 2020 I VOL. 28 NO. 4 A Member of the Network Introduction plasma concentration 1–8 days) than IV, but this route permits self- Numerous drug modalities have been approved to treat neurologic administration at home.9,22 diseases, including small-molecule drugs (SMDs) and biologics SMDs generally have wide distribution into tissues, organs and such as monoclonal antibodies (mAbs).1-3 While both are consid- plasma.10,23 They are metabolized by CYP450 enzymes via oxidation, ered targeted therapies,2-7 each has unique characteristics that may leading to renal elimination in the urine, and by conjugation reac- affect their use in clinical practice.5,8,9 This article describes the gen- tions (eg, glucuronidation), leading to hepatic/biliary elimination in eral characteristics of SMDs and mAbs and discusses some of their the stool.10,24,25 mAbs have a small range of distribution.10,23 Particu- safety implications relevant to their use by general neurologists in larly relevant to neurology, therapeutic mAbs do not readily cross clinical practice. the blood–brain barrier and therefore have minimal distribution in the central nervous system (CNS).8,9 Therapeutic mAbs are also Characteristics of SMDs and mAbs too large for clearance by renal or hepatic mechanisms, and instead The general characteristics and pharmacokinetics (PK) of are metabolized by two primary -
Antimicrobial Resistance in Companion Animal Pathogens in Australia and Assessment of Pradofloxacin on the Gut Microbiota
Antimicrobial resistance in companion animal pathogens in Australia and assessment of pradofloxacin on the gut microbiota Sugiyono Saputra A thesis submitted in fulfilment of the requirements of the degree of Doctor of Philosophy School of Animal and Veterinary Sciences The University of Adelaide February 2018 Table of Contents Thesis Declaration ...................................................................................................................... iii Dedication ................................................................................................................................. iv Acknowledgement ...................................................................................................................... v Preamble .................................................................................................................................... vi List of Publications ..................................................................................................................... vii Abstract .......................................................................................................................................ix Chapter 1 General Introduction ................................................................................................. 1 1.1. Antimicrobials and their consequences ............................................................................ 2 1.2. The emergence and monitoring AMR................................................................................ 2 -
Mechanisms of Action for Small Molecules Revealed by Structural Biology in Drug Discovery
International Journal of Molecular Sciences Review Mechanisms of Action for Small Molecules Revealed by Structural Biology in Drug Discovery Qingxin Li 1,* and CongBao Kang 2,* 1 Guangdong Provincial Engineering Laboratory of Biomass High Value Utilization, Guangdong Provincial Bioengineering Institute (Guangzhou Sugarcane Industry Research Institute), Guangdong Academy of Sciences, Guangzhou 510316, China 2 Experimental Drug Development Centre (EDDC), Agency for Science, Technology and Research (A*STAR), 10 Biopolis Road, Chromos, #05-01, Singapore 138670, Singapore * Correspondence: [email protected] (Q.L.); [email protected] (C.K.); Tel.: +86-020-84168436 (Q.L.); +65-64070602 (C.K.) Received: 12 June 2020; Accepted: 20 July 2020; Published: 24 July 2020 Abstract: Small-molecule drugs are organic compounds affecting molecular pathways by targeting important proteins. These compounds have a low molecular weight, making them penetrate cells easily. Small-molecule drugs can be developed from leads derived from rational drug design or isolated from natural resources. A target-based drug discovery project usually includes target identification, target validation, hit identification, hit to lead and lead optimization. Understanding molecular interactions between small molecules and their targets is critical in drug discovery. Although many biophysical and biochemical methods are able to elucidate molecular interactions of small molecules with their targets, structural biology is the most powerful tool to determine the mechanisms of action for both targets and the developed compounds. Herein, we reviewed the application of structural biology to investigate binding modes of orthosteric and allosteric inhibitors. It is exemplified that structural biology provides a clear view of the binding modes of protease inhibitors and phosphatase inhibitors. -
Small Molecule and Protein Docking Introduction
Small Molecule and Protein Docking Introduction • A significant portion of biology is built on the paradigm sequence structure function • As we sequence more genomes and get more structural information, the next challenge will be to predict interactions and binding for two or more biomolecules (nucleic acids, proteins, peptides, drugs or other small molecules) Introduction • The questions we are interested in are: – Do two biomolecules bind each other? – If so, how do they bind? – What is the binding free energy or affinity? • The goals we have are: – Searching for lead compounds – Estimating effect of modifications – General understanding of binding – … Rationale • The ability to predict the binding site and binding affinity of a drug or compound is immensely valuable in the area or pharmaceutical design • Most (if not all) drug companies use computational methods as one of the first methods of screening or development • Computer-aided drug design is a more daunting task, but there are several examples of drugs developed with a significant contribution from computational methods Examples • Tacrine – inhibits acetylcholinesterase and boost acetylcholine levels (for treating Alzheimer’s disease) • Relenza – targets influenza • Invirase, Norvir, Crixivan – Various HIV protease inhibitors • Celebrex – inhibits Cox-2 enzyme which causes inflammation (not our fault) Docking • Docking refers to a computational scheme that tries to find the best binding orientation between two biomolecules where the starting point is the atomic coordinates of the two molecules • Additional data may be provided (biochemical, mutational, conservation, etc.) and this can significantly improve the performance, however this extra information is not required Bound vs. Unbound Docking • The simplest problem is the “bound” docking problem. -
Reporting Data from High-Throughput Screening of Small-Molecule Libraries
COMMENTARY Reporting data from high-throughput screening of small-molecule libraries James Inglese, Caroline E Shamu & R Kiplin Guy Publications reporting results of small-molecule screens are becoming more common as academic researchers increasingly make use of high-throughput screening (HTS) facilities. However, no standards have been formally established for reporting small-molecule screening data, and often key information important for the evaluation and interpretation of results is omitted in published HTS protocols. Here, we propose concise guidelines for reporting small-molecule HTS data. High-throughput screening (HTS) is becoming providing a basis for evaluation, comparison in the assay. Controls are used to determine a routine method for identifying probes used in and replication of small-molecule screens. We an assay ‘window’ and validate the biological chemical biology. The flexibility of the process have divided small-molecule screen protocol response. It is often desirable to provide an has allowed numerous and disparate areas of information into five categories: the assay, the indication as to the efficacy of the controls. biology to engage with an equally diverse palate library, the HTS process, the post-HTS analy- For example, here is an assay strategy descrip- of chemistry. However, with this diversity, the sis of data and compound structures, and the tion that might be written for a fluorescence many components associated with HTS—the screen results (Fig. 1). Within each category, polarization assay: bioassay, the assay format, the nature of the we describe key pieces of information that are library, reagent and sample delivery meth- important for interpretation and replication This screen was carried out to identify compounds ods, the detection instrumentation, the level of a screen (Table 1). -
Cadazolid for the Treatment of Clostridium Difficile Infection: Results of Two Double-Blind, Placebo-Controlled, Non-Inferiority, Randomised Phase 3 Trials
This is a repository copy of Cadazolid for the treatment of Clostridium difficile infection: results of two double-blind, placebo-controlled, non-inferiority, randomised phase 3 trials. White Rose Research Online URL for this paper: http://eprints.whiterose.ac.uk/142608/ Version: Accepted Version Article: Gerding, DN, Cornely, OA, Grill, S et al. (11 more authors) (2019) Cadazolid for the treatment of Clostridium difficile infection: results of two double-blind, placebo-controlled, non-inferiority, randomised phase 3 trials. The Lancet Infectious Diseases, 19 (3). pp. 265-274. ISSN 1473-3099 https://doi.org/10.1016/s1473-3099(18)30614-5 © 2019 Elsevier Ltd. This manuscript version is made available under the CC-BY-NC-ND 4.0 license http://creativecommons.org/licenses/by-nc-nd/4.0/. Reuse This article is distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs (CC BY-NC-ND) licence. This licence only allows you to download this work and share it with others as long as you credit the authors, but you can’t change the article in any way or use it commercially. More information and the full terms of the licence here: https://creativecommons.org/licenses/ Takedown If you consider content in White Rose Research Online to be in breach of UK law, please notify us by emailing [email protected] including the URL of the record and the reason for the withdrawal request. [email protected] https://eprints.whiterose.ac.uk/ Cadazolid for the treatment of Clostridium difficile infection: results of two double- blind, double-dummy, non-inferiority, randomised controlled phase 3 trials Prof.