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A Targeted Neurotransmitter Quantification and Nontargeted
RSC Advances View Article Online PAPER View Journal | View Issue A targeted neurotransmitter quantification and nontargeted metabolic profiling method for Cite this: RSC Adv., 2020, 10,18305 pharmacometabolomics analysis of olanzapine by using UPLC-HRMS† Dan Liu,‡a Zhuoling An,‡b Pengfei Li,b Yanhua Chen,a Ruiping Zhang, a Lihong Liu,*b Jiuming He *a and Zeper Ablizac Neurotransmitters (NTs) are specific endogenous metabolites that act as “messengers” in synaptic transmission and are widely distributed in the central nervous system. Olanzapine (OLZ), a first-line antipsychotic drug, plays a key role in sedation and hypnosis, but, it presents clinical problems with a narrow therapeutic window, large individual differences and serious adverse effects, as well as an unclear mechanism in vivo. Herein, a simultaneous targeted NT quantification and nontargeted metabolomics method was developed and validated for pharmacometabolomics analysis of OLZ by Creative Commons Attribution-NonCommercial 3.0 Unported Licence. using ultra-high-performance liquid chromatography coupled with high-resolution mass spectrometry (UPLC-HRMS). Considering the low physiological concentrations of NTs, a full MS scan and target selective ion monitoring (tSIM) scan were combined for nontargeted metabolomics and targeted NT quantification, respectively. By using this strategy, NTs at a very low physiological concentration can be accurately detected and quantified in biological samples by tSIM scans. Moreover, simultaneously nontargeted profiling was also achieved by the full -
Cloning, Biochemical Characterization and Inhibition of Alanine Racemase from Streptococcus Iniae
bioRxiv preprint doi: https://doi.org/10.1101/611251; this version posted April 16, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Cloning, Biochemical Characterization and Inhibition of Alanine racemase from Streptococcus iniae Murtala Muhammad, Yangyang Li, Siyu Gong, Yanmin Shi, Jiansong Ju, Baohua Zhao*, Dong Liu* College of Life Science, Hebei Normal University, Shijiazhuang 050024, China; *Correspondence: Baohua Zhao and Dong Liu; E-mail: [email protected], [email protected]; College of Life Science, Hebei Normal University, Shijiazhuang 050024, China. Running Title: Inhibitors of alanine racemase Summary statement: Antimicrobial target 1 bioRxiv preprint doi: https://doi.org/10.1101/611251; this version posted April 16, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. ABSTRACT Streptococcus iniae is a pathogenic and zoonotic bacteria that impacted high mortality to many fish species, as well as capable of causing serious disease to humans. Alanine racemase (Alr, EC 5.1.1.1) is a pyridoxal-5′-phosphate (PLP)-containing homodimeric enzyme that catalyzes the racemization of L-alanine and D-alanine. In this study, we purified alanine racemase from the pathogenic strain of S. iniae, determined its biochemical characteristics and inhibitors. The alr gene has an open reading frame (ORF) of 1107 bp, encoding a protein of 369 amino acids, which has a molecular mass of 40 kDa. The optimal enzyme activity occurred at 35°C and a pH of 9.5. -
Metabolomics Profiling and Pathway Analysis of Human Plasma and Urine T Reveal Further Insights Into the Multifactorial Nature of Coronary Artery Disease ⁎ ⁎ Arwa M
Clinica Chimica Acta 493 (2019) 112–122 Contents lists available at ScienceDirect Clinica Chimica Acta journal homepage: www.elsevier.com/locate/cca Metabolomics profiling and pathway analysis of human plasma and urine T reveal further insights into the multifactorial nature of coronary artery disease ⁎ ⁎ Arwa M. Amina,b, ,1, Hamza Mostafaa, ,1, Nor Hayati Arifc, Muhamad Ali SK Abdul Kadera,d, Yuen Kah Haya a School of Pharmaceutical Sciences, Universiti Sains Malaysia, Penang, Malaysia b Department of Clinical and Hospital Pharmacy, College of Pharmacy, Taibah University, Al Madinah Al Munawwarah, Saudi Arabia c Psychiatry Department, Hospital Pulau Pinang, Malaysia d Cardiology Department, Hospital Pulau Pinang, Penang, Malaysia ARTICLE INFO ABSTRACT Keywords: Background: Coronary artery disease (CAD) claims lives yearly. Nuclear magnetic resonance (1H NMR) meta- Coronary artery disease bolomics analysis is efficient in identifying metabolic biomarkers which lend credence to diagnosis. Weaimedto 1 H NMR identify CAD metabotypes and its implicated pathways using 1H NMR analysis. Metabolomics Methods: We analysed plasma and urine samples of 50 stable CAD patients and 50 healthy controls using 1H Systems biology NMR. Orthogonal partial least square discriminant analysis (OPLS-DA) followed by multivariate logistic re- Single nucleotide polymorphism gression (MVLR) models were developed to indicate the discriminating metabotypes. Metabolic pathway ana- Gut microbiota lysis was performed to identify the implicated pathways. Results: Both plasma and urine OPLS-DA models had specificity, sensitivity and accuracy of 100%, 96% and 98%, respectively. Plasma MVLR model had specificity, sensitivity, accuracy and AUROC of 92%, 86%, 89%and 0.96, respectively. The MVLR model of urine had specificity, sensitivity, accuracy and AUROC of 90%, 80%, 85% and 0.92, respectively. -
The Clinical Significance of the Organic Acids Test
The Clinical Significance of the Organic Acids Test The Organic Acids Test (OAT) provides an accurate metabolic snapshot of what is going on in the body. Besides offering the most complete and accurate evaluation of intestinal yeast and bacteria, it also provides information on important neurotransmitters, nutritional markers, glutathione status, oxalate metabolism, and much more. The test includes 76 urinary metabolite markers that can be very useful for discovering underlying causes of chronic illness. Patients and physicians report that treating yeast and bacterial abnormalities reduces fatigue, increases alertness and energy, improves sleep, normalizes bowel function, and reduces hyperactivity and abdominal pain. The OAT Assists in Evaluating: ■ Krebs Cycle Abnormalities ■ Neurotransmitter Levels ■ Nutritional Deficiencies ■ Antioxidant Deficiencies ■ Yeast and Clostridia Overgrowth ■ Fatty Acid Metabolism ■ Oxalate Levels ■ And More! The OAT Pairs Well with the Following Tests: ■ GPL-TOX: Toxic Non-Metal Chemical Profile ■ IgG Food Allergy + Candida ■ MycoTOX Profile ■ Phospholipase A2 Activity Test Learn how to better integrate the OAT into your practice, along with our other top tests by attending one of our GPL Academy Practitioner Workshops! Visit www.GPLWorkshops.com for workshop dates and locations. The following pages list the 76 metabolite markers of the Organic Acids Test. Included is the name of the metabolic marker, its clinical significance, and usual initial treatment. INTESTINAL MICROBIAL OVERGROWTH Yeast and Fungal Markers Elevated citramalic acid is produced mainly by Saccharomyces species or Propionibacteria Citramalic Acid overgrowth. High-potency, multi-strain probiotics may help rebalance GI flora. A metabolite produced by Aspergillus and possibly other fungal species in the GI tract. 5-Hydroxy-methyl- Prescription or natural antifungals, along with high-potency, multi-strain probiotics, furoic Acid may reduce overgrowth levels. -
Amino Acid Disorders
471 Review Article on Inborn Errors of Metabolism Page 1 of 10 Amino acid disorders Ermal Aliu1, Shibani Kanungo2, Georgianne L. Arnold1 1Children’s Hospital of Pittsburgh, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA; 2Western Michigan University Homer Stryker MD School of Medicine, Kalamazoo, MI, USA Contributions: (I) Conception and design: S Kanungo, GL Arnold; (II) Administrative support: S Kanungo; (III) Provision of study materials or patients: None; (IV) Collection and assembly of data: E Aliu, GL Arnold; (V) Data analysis and interpretation: None; (VI) Manuscript writing: All authors; (VII) Final approval of manuscript: All authors. Correspondence to: Georgianne L. Arnold, MD. UPMC Children’s Hospital of Pittsburgh, 4401 Penn Avenue, Suite 1200, Pittsburgh, PA 15224, USA. Email: [email protected]. Abstract: Amino acids serve as key building blocks and as an energy source for cell repair, survival, regeneration and growth. Each amino acid has an amino group, a carboxylic acid, and a unique carbon structure. Human utilize 21 different amino acids; most of these can be synthesized endogenously, but 9 are “essential” in that they must be ingested in the diet. In addition to their role as building blocks of protein, amino acids are key energy source (ketogenic, glucogenic or both), are building blocks of Kreb’s (aka TCA) cycle intermediates and other metabolites, and recycled as needed. A metabolic defect in the metabolism of tyrosine (homogentisic acid oxidase deficiency) historically defined Archibald Garrod as key architect in linking biochemistry, genetics and medicine and creation of the term ‘Inborn Error of Metabolism’ (IEM). The key concept of a single gene defect leading to a single enzyme dysfunction, leading to “intoxication” with a precursor in the metabolic pathway was vital to linking genetics and metabolic disorders and developing screening and treatment approaches as described in other chapters in this issue. -
Pharmacometabolomics of Response to Sertraline and to Placebo in Major Depressive Disorder – Possible Role for Methoxyindole Pathway
Pharmacometabolomics of Response to Sertraline and to Placebo in Major Depressive Disorder – Possible Role for Methoxyindole Pathway Hongjie Zhu1., Mikhail B. Bogdanov2., Stephen H. Boyle1, Wayne Matson3, Swati Sharma3, Samantha Matson3,4, Erik Churchill1, Oliver Fiehn5, John A. Rush6, Ranga R. Krishnan1,6, Eve Pickering7, Marielle Delnomdedieu8, Rima Kaddurah-Daouk1*, Pharmacometabolomics Research Network 1 Department of Psychiatry and Behavioral Sciences, Duke University, Durham, North Carolina, United States of America, 2 Department of Neurology and Neuroscience Weill Cornell Medical College, New York, New York, United States of America, 3 Department of Systems Biochemistry, Bedford VA Medical Center, Bedford, Massachusetts, United States of America, 4 Massachusetts General Hospital, Boston, Massachusetts, United States of America, 5 Genome Center, University of California Davis, Davis, California, United States of America, 6 Duke-NUS Graduate Medical School, Singapore, Singapore, 7 Pfizer Global R&D, Clinical Research Statistics, Groton, Connecticut, United States of America, 8 Pfizer Global R&D, Neuroscience Clinical Research, Groton, Connecticut, United States of America Abstract Therapeutic response to selective serotonin (5-HT) reuptake inhibitors in Major Depressive Disorder (MDD) varies considerably among patients, and the onset of antidepressant therapeutic action is delayed until after 2 to 4 weeks of treatment. The objective of this study was to analyze changes within methoxyindole and kynurenine (KYN) branches of tryptophan pathway to determine whether differential regulation within these branches may contribute to mechanism of variation in response to treatment. Metabolomics approach was used to characterize early biochemical changes in tryptophan pathway and correlated biochemical changes with treatment outcome. Outpatients with MDD were randomly assigned to sertraline (n = 35) or placebo (n = 40) in a double-blind 4-week trial; response to treatment was measured using the 17-item Hamilton Rating Scale for Depression (HAMD17). -
Review Article the Use of Omic Technologies Applied to Traditional Chinese Medicine Research
Hindawi Evidence-Based Complementary and Alternative Medicine Volume 2017, Article ID 6359730, 19 pages https://doi.org/10.1155/2017/6359730 Review Article The Use of Omic Technologies Applied to Traditional Chinese Medicine Research Dalinda Isabel Sánchez-Vidaña,1 Rahim Rajwani,2 and Man-Sau Wong3 1 Department of Rehabilitation Sciences, The Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong 2Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong 3Department of Applied Biology and Chemical Technology, The Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong Correspondence should be addressed to Man-Sau Wong; [email protected] Received 28 July 2016; Revised 23 October 2016; Accepted 24 October 2016; Published 31 January 2017 Academic Editor: Fabio Firenzuoli Copyright © 2017 Dalinda Isabel Sanchez-Vida´ na˜ et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Natural products represent one of the most important reservoirs of structural and chemical diversity for the generation of leads in the drug development process. A growing number of researchers have shown interest in the development of drugs based on Chinese herbs. In this review, the use and potential of omic technologies as powerful tools in the modernization of traditional Chinese medicine are discussed. The analytical combination from each omic approach is crucial for understanding the working mechanisms of cells, tissues, organs, and organisms as well as the mechanisms of disease. Gradually, omic approaches have been introduced in every stage of the drug development process to generate high-quality Chinese medicine-based drugs. -
Orfadin, INN-Nitisinone
SCIENTIFIC DISCUSSION 1. Introduction 1.1 Problem statement Hereditary tyrosinaemia type 1 (HT-1) is a devastating inherited disease, mainly of childhood. It is characterised by severe liver dysfunction, impaired coagulation, painful neurological crises, renal tubular dysfunction and a considerable risk of hepatocellular carcinoma (Weinberg et al. 1976, Halvorsen 1990, Kvittingen 1991, van Spronsen et al. 1994, Mitchell et al. 1995). The condition is caused by an inborn error in the final step of the tyrosine degradation pathway (Lindblad et al. 1977). The incidence of HT-1 in Europe and North America is about one in 100,000 births, although in certain areas the incidence is considerably higher. In the province of Quebec, Canada, it is about one in 20,000 births (Mitchell et al. 1995). The mode of inheritance is autosomal recessive. The primary enzymatic defect in HT-1 is a reduced activity of fumarylacetoacetate hydrolase (FAH) in the liver, the last enzyme in the tyrosine degradation pathway. As a consequence, fumaylacetoacetate (FAA) and maleylacetoacetate (MAA), upstream of the enzymatic block, accumulate. Both intermediates are highly reactive and unstable and cannot be detected in the serum or urine of affected children. Degradation products of MAA and FAA are succinylacetone (SA) and succinylacetoacetate (SAA) which are (especially SA) toxic, and which are measurable in the serum and urine and are hallmarks of the disease. SA is also an inhibitor of Porphobilinogen synthase (PBG), leading to an accumulation of 5-aminolevulinate (5-ALA) which is thought to be responsible for the neurologic crises resembling the crises of the porphyrias. The accumulation of toxic metabolites starts at birth and the severity of phenotype is reflected in the age of onset of symptoms (Halvorsen 1990, van Spronsen et al. -
Selection and Characterization of Alanine Racemase Inhibitors Against
Wang et al. BMC Microbiology (2017) 17:122 DOI 10.1186/s12866-017-1010-x RESEARCHARTICLE Open Access Selection and characterization of alanine racemase inhibitors against Aeromonas hydrophila Yaping Wang1, Chao Yang2, Wen Xue1, Ting Zhang1, Xipei Liu1, Jiansong Ju1, Baohua Zhao1* and Dong Liu1* Abstract Background: Combining experimental and computational screening methods has been of keen interest in drug discovery. In the present study, we developed an efficient screening method that has been used to screen 2100 small-molecule compounds for alanine racemase Alr-2 inhibitors. Results: We identified ten novel non-substrate Alr-2 inhibitors, of which patulin, homogentisic acid, and hydroquinone were active against Aeromonas hydrophila. The compounds were found to be capable of inhibiting Alr-2 to different extents with 50% inhibitory concentrations (IC50) ranging from 6.6 to 17.7 μM. These compounds inhibited the growth of A. hydrophila with minimal inhibitory concentrations (MICs) ranging from 20 to 120 μg/ml. These compounds have no activity on horseradish peroxidase and D-amino acid oxidase at a concentration of 50 μM. The MTT assay revealed that homogentisic acid and hydroquinone have minimal cytotoxicity against mammalian cells. The kinetic studies indicated a competitive inhibition of homogentisic acid against Alr-2 with an inhibition constant (Ki) of 51.7 μM, while hydroquinone was a noncompetitive inhibitor with a Ki of 212 μM. Molecular docking studies suggested that homogentisic acid binds to the active site of racemase, while hydroquinone lies near the active center of alanine racemase. Conclusions: Our findings suggested that combining experimental and computational methods could be used for an efficient, large-scale screening of alanine racemase inhibitors against A. -
Mass Spectrometry-Based Applications and Analytical Method Development for Metabolomics
Drug Research Program Division of Pharmaceutical Chemistry and Technology Faculty of Pharmacy University of Helsinki Finland MASS SPECTROMETRY-BASED APPLICATIONS AND ANALYTICAL METHOD DEVELOPMENT FOR METABOLOMICS Päivi Pöhö ACADEMIC DISSERTATION To be presented, with the permission of the Faculty of Pharmacy of the University of Helsinki, for public examination in lecture room 1041, Biocenter 2, on 31 January 2020, at 12 noon. Helsinki 2020 ©Päivi Pöhö ISBN 978-951-51-5757-7 (print) ISBN 978-951-51-5758-4 (online) ISSN 2342-3161 (print) ISSN 2342-317X (online) http://ethesis.helsinki.fi Unigrafia, Helsinki, Finland, 2020 Published in DSHealth series ‘Dissertationes Scholae Doctoralis Ad Sanitatem Investigandam Universitatis Helsinkiensis’ The Faculty of Pharmacy uses the Urkund system (plagiarism recognition) to examine all doctoral dissertations. Supervisors Professor Risto Kostiainen Drug Research Program Division of Pharmaceutical Chemistry and Technology Faculty of Pharmacy University of Helsinki Finland Professor Tapio Kotiaho Drug Research Program Division of Pharmaceutical Chemistry and Technology Faculty of Pharmacy and Department of Chemistry Faculty of Science University of Helsinki Finland Reviewers Professor Kati Hanhineva Institute of Public Health and Clinical Nutrition Faculty of Health Sciences University of Eastern Finland Kuopio Finland Professor Uwe Karst Institute of Inorganic and Analytical Chemistry University of Münster Münster Germany Opponent Professor Jonas Bergquist Department of Chemistry - BMC Uppsala University Uppsala Sweden 3 ABSTRACT Metabolites are small molecules present in a biological system that have multiple important biological functions. Changes in metabolite levels reflect genetic and environmental alterations and play a role in multiple diseases. Metabolomics is a discipline that aims to analyze all the small molecules in a biological system simultaneously. -
COMPILATION of AMINO ACIDS, DRUGS, METABOLITES and OTHER COMPOUNDS in MASSTRAK AMINO ACID ANALYSIS SOLUTION Paula Hong, Kendon S
COMPILATION OF AMINO ACIDS, DRUGS, METABOLITES AND OTHER COMPOUNDS IN MASSTRAK AMINO ACID ANALYSIS SOLUTION Paula Hong, Kendon S. Graham, Alexandre Paccou, T homas E. Wheat and Diane M. Diehl INTRODUCTION LC conditions Physiological amino acid analysis is commonly performed to LC System: Waters ACQUITY UPLC® System with TUV monitor and study a wide variety of metabolic processes. A wide Column: MassTrak AAA Column 2.1 x 150 mm, 1.7 µm variety of drugs, foods, and metabolic intermediates that may Column Temp: 43 ˚C be present in biological fluids can appear as peaks in amino Flow Rate: 400 µL/min. acid analysis, therefore, it is important to be able to identify Mobile Phase A: MassTrak AAA Eluent A Concentrate, unknown compounds.1,2,3 The reproducibility and robustness of diluted 1:10 the MassTrak Amino Acid Analysis Solution make this method well Mobile Phase B: MassTrak AAA Eluent B suited to such a study as well.4 Weak Needle Wash: 5/95 Acetonitrile/Water Strong Needle Wash: 95/5 Acetonitrile/Water Gradient: MassTrak AAA Standard Gradient (as provided in kit) Detection: UV @ 260 nm Injection Volume: 1 µL EXPERIMENTAL Injection Mode: Partial Loop with Needle Overfill (PLNO) Compound sample preparation A library of compounds was assembled. Each compound was derivatized individually and spiked into the MassTrak™ AAA Solution Standard prior to chromatographic analysis. The elution RESULTS AND DISCUSSION position of each tested compound could be related to known amino acids. A wide variety of antibiotics, pharmaceutical compounds and metabolite by-products are found in biological fluids. The reten- 1. -
The Skin in Genetically-Controlled Metabolic Disorders P
Review Article J Med Genet: first published as 10.1136/jmg.10.2.101 on 1 June 1973. Downloaded from Journal of Medical Genetics (1973). 10, 101. The Skin in Genetically-controlled Metabolic Disorders P. C. H. NEWBOLD Department of Medicine, Cambridge University Medical School, Hills Road, Cambridge CB2 2QL Diseased nature oftentimes breaks forth however, it may lead to difficulty in assessing intelli- In strange eruptions.-Henry IV, part 1, III, i. gence, which is within normal range in 50% of The skin is now commonly accepted as a mirror patients. There is suggestive evidence of a re- of internal disease, but as with other looking-glasses, lationship between subnormal folate levels and low the evidence offered may be selected or ignored. intelligence (Carey et al, 1968), and studies have The epidermis is an interesting structure, especially shown increased turnover of folate coenzymes and rich in tyrosine, phenylalanine, tryptophan, and resulting folate depletion in these patients (Carey et histidine, when compared with the corium (Roth- al, 1968; Butterworth, Krumdieck, and Baugh, man, 1965). Tyrosinaemia and histidinaemia do 1971). There is also a high incidence of an organic not include cutaneous manifestations, but culture of brain syndrome following intracranial vascular skin fibroblasts is a helpful diagnostic tool for study- thromboses (Dunn, Perry, and Dolman, 1966), ing metabolic defects such as citrullinaemia, cysti- copyright. nosis, and maple-syrup urine disease (Scriver, 1969). Most of the conditions now to be described are rare, but if these metabolic diseases were com- mon, there could be no human race as we know it. Homocystinuria http://jmg.bmj.com/ This most informative anomaly was discovered during a study of mentally retarded patients in Ire- land (Carson and Neill, 1962).