Clinical Implications of 20-Hydroxyeicosatetraenoic Acid in the Kidney, Liver, Lung and Brain
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Identification and Developmental Expression of the Full Complement Of
Goldstone et al. BMC Genomics 2010, 11:643 http://www.biomedcentral.com/1471-2164/11/643 RESEARCH ARTICLE Open Access Identification and developmental expression of the full complement of Cytochrome P450 genes in Zebrafish Jared V Goldstone1, Andrew G McArthur2, Akira Kubota1, Juliano Zanette1,3, Thiago Parente1,4, Maria E Jönsson1,5, David R Nelson6, John J Stegeman1* Abstract Background: Increasing use of zebrafish in drug discovery and mechanistic toxicology demands knowledge of cytochrome P450 (CYP) gene regulation and function. CYP enzymes catalyze oxidative transformation leading to activation or inactivation of many endogenous and exogenous chemicals, with consequences for normal physiology and disease processes. Many CYPs potentially have roles in developmental specification, and many chemicals that cause developmental abnormalities are substrates for CYPs. Here we identify and annotate the full suite of CYP genes in zebrafish, compare these to the human CYP gene complement, and determine the expression of CYP genes during normal development. Results: Zebrafish have a total of 94 CYP genes, distributed among 18 gene families found also in mammals. There are 32 genes in CYP families 5 to 51, most of which are direct orthologs of human CYPs that are involved in endogenous functions including synthesis or inactivation of regulatory molecules. The high degree of sequence similarity suggests conservation of enzyme activities for these CYPs, confirmed in reports for some steroidogenic enzymes (e.g. CYP19, aromatase; CYP11A, P450scc; CYP17, steroid 17a-hydroxylase), and the CYP26 retinoic acid hydroxylases. Complexity is much greater in gene families 1, 2, and 3, which include CYPs prominent in metabolism of drugs and pollutants, as well as of endogenous substrates. -
Cytochrome P450 Enzymes in Oxygenation of Prostaglandin Endoperoxides and Arachidonic Acid
Comprehensive Summaries of Uppsala Dissertations from the Faculty of Pharmacy 231 _____________________________ _____________________________ Cytochrome P450 Enzymes in Oxygenation of Prostaglandin Endoperoxides and Arachidonic Acid Cloning, Expression and Catalytic Properties of CYP4F8 and CYP4F21 BY JOHAN BYLUND ACTA UNIVERSITATIS UPSALIENSIS UPPSALA 2000 Dissertation for the Degree of Doctor of Philosophy (Faculty of Pharmacy) in Pharmaceutical Pharmacology presented at Uppsala University in 2000 ABSTRACT Bylund, J. 2000. Cytochrome P450 Enzymes in Oxygenation of Prostaglandin Endoperoxides and Arachidonic Acid: Cloning, Expression and Catalytic Properties of CYP4F8 and CYP4F21. Acta Universitatis Upsaliensis. Comprehensive Summaries of Uppsala Dissertations from Faculty of Pharmacy 231 50 pp. Uppsala. ISBN 91-554-4784-8. Cytochrome P450 (P450 or CYP) is an enzyme system involved in the oxygenation of a wide range of endogenous compounds as well as foreign chemicals and drugs. This thesis describes investigations of P450-catalyzed oxygenation of prostaglandins, linoleic and arachidonic acids. The formation of bisallylic hydroxy metabolites of linoleic and arachidonic acids was studied with human recombinant P450s and with human liver microsomes. Several P450 enzymes catalyzed the formation of bisallylic hydroxy metabolites. Inhibition studies and stereochemical analysis of metabolites suggest that the enzyme CYP1A2 may contribute to the biosynthesis of bisallylic hydroxy fatty acid metabolites in adult human liver microsomes. 19R-Hydroxy-PGE and 20-hydroxy-PGE are major components of human and ovine semen, respectively. They are formed in the seminal vesicles, but the mechanism of their biosynthesis is unknown. Reverse transcription-polymerase chain reaction using degenerate primers for mammalian CYP4 family genes, revealed expression of two novel P450 genes in human and ovine seminal vesicles. -
Synonymous Single Nucleotide Polymorphisms in Human Cytochrome
DMD Fast Forward. Published on February 9, 2009 as doi:10.1124/dmd.108.026047 DMD #26047 TITLE PAGE: A BIOINFORMATICS APPROACH FOR THE PHENOTYPE PREDICTION OF NON- SYNONYMOUS SINGLE NUCLEOTIDE POLYMORPHISMS IN HUMAN CYTOCHROME P450S LIN-LIN WANG, YONG LI, SHU-FENG ZHOU Department of Nutrition and Food Hygiene, School of Public Health, Peking University, Beijing 100191, P. R. China (LL Wang & Y Li) Discipline of Chinese Medicine, School of Health Sciences, RMIT University, Bundoora, Victoria 3083, Australia (LL Wang & SF Zhou). 1 Copyright 2009 by the American Society for Pharmacology and Experimental Therapeutics. DMD #26047 RUNNING TITLE PAGE: a) Running title: Prediction of phenotype of human CYPs. b) Author for correspondence: A/Prof. Shu-Feng Zhou, MD, PhD Discipline of Chinese Medicine, School of Health Sciences, RMIT University, WHO Collaborating Center for Traditional Medicine, Bundoora, Victoria 3083, Australia. Tel: + 61 3 9925 7794; fax: +61 3 9925 7178. Email: [email protected] c) Number of text pages: 21 Number of tables: 10 Number of figures: 2 Number of references: 40 Number of words in Abstract: 249 Number of words in Introduction: 749 Number of words in Discussion: 1459 d) Non-standard abbreviations: CYP, cytochrome P450; nsSNP, non-synonymous single nucleotide polymorphism. 2 DMD #26047 ABSTRACT Non-synonymous single nucleotide polymorphisms (nsSNPs) in coding regions that can lead to amino acid changes may cause alteration of protein function and account for susceptivity to disease. Identification of deleterious nsSNPs from tolerant nsSNPs is important for characterizing the genetic basis of human disease, assessing individual susceptibility to disease, understanding the pathogenesis of disease, identifying molecular targets for drug treatment and conducting individualized pharmacotherapy. -
Colorectal Cancer and Omega Hydroxylases
1 The differential expression of omega-3 and omega-6 fatty acid metabolising enzymes in colorectal cancer and its prognostic significance Abdo Alnabulsi1,2, Rebecca Swan1, Beatriz Cash2, Ayham Alnabulsi2, Graeme I Murray1 1Pathology, School of Medicine, Medical Sciences and Nutrition, University of Aberdeen, Aberdeen, AB25, 2ZD, UK. 2Vertebrate Antibodies, Zoology Building, Tillydrone Avenue, Aberdeen, AB24 2TZ, UK. Address correspondence to: Professor Graeme I Murray Email [email protected] Phone: +44(0)1224 553794 Fax: +44(0)1224 663002 Running title: omega hydroxylases and colorectal cancer 2 Abstract Background: Colorectal cancer is a common malignancy and one of the leading causes of cancer related deaths. The metabolism of omega fatty acids has been implicated in tumour growth and metastasis. Methods: This study has characterised the expression of omega fatty acid metabolising enzymes CYP4A11, CYP4F11, CYP4V2 and CYP4Z1 using monoclonal antibodies we have developed. Immunohistochemistry was performed on a tissue microarray containing 650 primary colorectal cancers, 285 lymph node metastasis and 50 normal colonic mucosa. Results: The differential expression of CYP4A11 and CYP4F11 showed a strong association with survival in both the whole patient cohort (HR=1.203, 95% CI=1.092-1.324, χ2=14.968, p=0.001) and in mismatch repair proficient tumours (HR=1.276, 95% CI=1.095-1.488, χ2=9.988, p=0.007). Multivariate analysis revealed that the differential expression of CYP4A11 and CYP4F11 was independently prognostic in both the whole patient cohort (p = 0.019) and in mismatch repair proficient tumours (p=0.046). Conclusions: A significant and independent association has been identified between overall survival and the differential expression of CYP4A11 and CYP4F11 in the whole patient cohort and in mismatch repair proficient tumours. -
Warfarin Sensitivity (CYP2C8, CYP2C9
Patient Report |FINAL Section 79-1 of New York State Civil Rights Law requires informed consent be obtained from patients (or their legal guardians) prior to pursuing genetic testing. These forms must be kept on file by the ordering physician. Consent forms for genetic testing are available at www.aruplab.com. Incidental findings are not reported unless clinically significant but are available upon request. A Neg result indicates that no variants were detected. All variant alleles are defined based on consensus nomenclature and suggest reduced function of the associated protein(s). CYP2C8 and CYP2C9 are associated with inactivation of warfarin through metabolism. Variant alleles suggest reduced rates of warfarin metabolism, a prolonged time required to achieve steady-state concentrations, and a reduced dose requirement. CYP4F2 is associated with vitamin K recycling. Variant alleles suggest an increased dose requirement. VKORC1 is the therapeutic target for warfarin. Variant alleles suggest increased warfarin sensitivity and a reduced dose requirement. Dosing calculators such as that available through www.WarfarinDosing.org are available to predict loading and therapeutic/maintenance doses. This result has been reviewed and approved by , Ph.D. BACKGROUND INFORMATION: Warfarin Sensitivity (CYP2C8, CYP2C9 , CYP4F2, VKORC1) Genotyping CHARACTERISTICS: Warfarin sensitivity can lead to a life-threatening overdose event such as excessive bleeding. Genetic variation is recognized to explain a large proportion of variability in warfarin dose requirements. This test may predict individual warfarin sensitivity and non-standard dose requirements. The cytochrome P450 (CYP) isozymes 2C8 and 2C9 are involved in the metabolism of many drugs. Variants in the genes that code for CYP2C8 and CYP2C9 may influence pharmacokinetics of substrates such as warfarin, and may predict or explain non-standard dose requirements, therapeutic failure or adverse reactions. -
Supplementary Tables, Figures and Other Documents
Clinical Relevance of a 16-Gene Pharmacogenetic Panel Test for Medication Management in a Cohort of 135 Patients David Niedrig1,2, Ali Rahmany1,3, Kai Heib4, Karl-Dietrich Hatz4, Katja Ludin5, Andrea M. Burden3, Markus Béchir6, Andreas Serra7, Stefan Russmann1,3,7,* 1 drugsafety.ch; Zurich, Switzerland 2 Hospital Pharmacy, Clinic Hirslanden Zurich; Zurich Switzerland 3 Swiss Federal Institute of Technology Zurich (ETHZ); Zurich, Switzerland 4 INTLAB AG; Uetikon am See, Switzerland 5 Labor Risch, Molecular Genetics; Berne, Switzerland 6 Center for Internal Medicine, Clinic Hirslanden Aarau; Aarau, Switzerland 7 Institute of Internal Medicine and Nephrology, Clinic Hirslanden Zurich; Zurich, Switzerland * Correspondence: [email protected]; Tel.: +41 (0)44 221 1003 Supplementary Tables, Figures and Other Documents Figure S1: Example of credit-card sized pharmacogenomic profile issued to patients 1 Table S2: SNPs analyzed by the 16-gene panel test Gene Allele rs number ABCB1 Haplotypes 1236-2677- rs1045642 ABCB1 3435 rs1128503 ABCB1 rs2032582 COMT Haplotypes 6269-4633- rs4633 COMT 4818-4680 rs4680 COMT rs4818 COMT rs6269 CYP1A2 *1C rs2069514 CYP1A2 *1F rs762551 CYP1A2 *1K rs12720461 CYP1A2 *7 rs56107638 CYP1A2 *11 rs72547513 CYP2B6 *6 rs3745274 CYP2B6 *18 rs28399499 CYP2C19 *2 rs4244285 CYP2C19 *3 rs4986893 CYP2C19 *4 rs28399504 CYP2C19 *5 rs56337013 CYP2C19 *6 rs72552267 CYP2C19 *7 rs72558186 CYP2C19 *8 rs41291556 CYP2C19 *17 rs12248560 CYP2C9 *2 rs1799853 CYP2C9 *3 rs1057910 CYP2C9 *4 rs56165452 CYP2C9 *5 rs28371686 CYP2C9 *6 rs9332131 CYP2C9 -
Supplementary Material
Supplementary Material Table S1: Significant downregulated KEGGs pathways identified by DAVID following exposure to five cinnamon- based phenylpropanoids (p < 0.05). p-value Term: Genes (Benjamini) Cytokine-cytokine receptor interaction: FASLG, TNFSF14, CXCL11, IL11, FLT3LG, CCL3L1, CCL3L3, CXCR6, XCR1, 2.43 × 105 RTEL1, CSF2RA, TNFRSF17, TNFRSF14, CCNL2, VEGFB, AMH, TNFRSF10B, INHBE, IFNB1, CCR3, VEGFA, CCR2, IL12A, CCL1, CCL3, CXCL5, TNFRSF25, CCR1, CSF1, CX3CL1, CCL7, CCL24, TNFRSF1B, IL12RB1, CCL21, FIGF, EPO, IL4, IL18R1, FLT1, TGFBR1, EDA2R, HGF, TNFSF8, KDR, LEP, GH2, CCL13, EPOR, XCL1, IFNA16, XCL2 Neuroactive ligand-receptor interaction: OPRM1, THRA, GRIK1, DRD2, GRIK2, TACR2, TACR1, GABRB1, LPAR4, 9.68 × 105 GRIK5, FPR1, PRSS1, GNRHR, FPR2, EDNRA, AGTR2, LTB4R, PRSS2, CNR1, S1PR4, CALCRL, TAAR5, GABRE, PTGER1, GABRG3, C5AR1, PTGER3, PTGER4, GABRA6, GABRA5, GRM1, PLG, LEP, CRHR1, GH2, GRM3, SSTR2, Chlorogenic acid Chlorogenic CHRM3, GRIA1, MC2R, P2RX2, TBXA2R, GHSR, HTR2C, TSHR, LHB, GLP1R, OPRD1 Hematopoietic cell lineage: IL4, CR1, CD8B, CSF1, FCER2, GYPA, ITGA2, IL11, GP9, FLT3LG, CD38, CD19, DNTT, 9.29 × 104 GP1BB, CD22, EPOR, CSF2RA, CD14, THPO, EPO, HLA-DRA, ITGA2B Cytokine-cytokine receptor interaction: IL6ST, IL21R, IL19, TNFSF15, CXCR3, IL15, CXCL11, TGFB1, IL11, FLT3LG, CXCL10, CCR10, XCR1, RTEL1, CSF2RA, IL21, CCNL2, VEGFB, CCR8, AMH, TNFRSF10C, IFNB1, PDGFRA, EDA, CXCL5, TNFRSF25, CSF1, IFNW1, CNTFR, CX3CL1, CCL5, TNFRSF4, CCL4, CCL27, CCL24, CCL25, CCL23, IFNA6, IFNA5, FIGF, EPO, AMHR2, IL2RA, FLT4, TGFBR2, EDA2R, -
Rare Novel CYP2U1 and ZFYVE26 Variants Identified in Two Pakistani Families with Spastic 2 Paraplegia
1 Rare novel CYP2U1 and ZFYVE26 variants identified in two Pakistani families with spastic 2 paraplegia. 3 Farah Bibi1, Stephanie Efthymiou2, Thomas Bourinaris2, Ambreen Tariq2, SYNaPS Study Group, 4 Faisal Zafar3, Nouzhat Rana3, Vincenzo Salpietro2, Henry Houlden2, Ghazala Kaukab Raja1 5 6 1. University Institute of Biochemistry & Biotechnology, PMAS – Arid Agriculture University, 7 Rawalpindi, 43600, Pakistan 8 2. Department of Neuromuscular disorders, UCL Institute of Neurology, Queen Square, London 9 WC1N 3BG, UK 10 3. Department of Pediatrics, Multan Nishtar Hospital, Multan, 60000, Pakistan. 11 Corresponding author: Prof. Ghazala Kaukab Raja, University Institute of Biochemistry & 12 Biotechnology, PMAS-Arid Agriculture University, Rawalpindi, 43600, Pakistan, 13 [email protected] 14 Keywords: spastic paraplegia, SPG15, SPG56, next generation sequencing, consanguinity 15 Word count: 1894 16 17 Abstract 18 Bakground: Hereditary Spastic paraplegias (HSPs) are a clinically and genetically heterogeneous 19 group of degenerative disorders characterized by progressive spasticity and weakness of the 20 lower limbs. This study aimed to identify causative gene variants in two unrelated 21 consanguineous Pakistani families presented with 2 different forms of HSP. 22 Methods: Whole exome sequencing (WES) was performed in the two families and variants were 23 validated by Sanger sequencing and segregation analysis. 24 Analysis: In family A, a homozygous pathogenic variant in ZFYVE26 was identified in one family. 25 While in family B, a frameshift variant in CYP2U1 was identified in 4 affected individuals 26 presented with clinical features of SPG56. Our study is the first report of ZFYVE26 mutations 27 causing HSP in the Pakistani population and the second report of CYP2U1 in a Pakistani family. -
Fatty Acid Oxidation
FATTY ACID OXIDATION 1 FATTY ACIDS A fatty acid contains a long hydrocarbon chain and a terminal carboxylate group. The hydrocarbon chain may be saturated (with no double bond) or may be unsaturated (containing double bond). Fatty acids can be obtained from- Diet Adipolysis De novo synthesis 2 FUNCTIONS OF FATTY ACIDS Fatty acids have four major physiological roles. 1)Fatty acids are building blocks of phospholipids and glycolipids. 2)Many proteins are modified by the covalent attachment of fatty acids, which target them to membrane locations 3)Fatty acids are fuel molecules. They are stored as triacylglycerols. Fatty acids mobilized from triacylglycerols are oxidized to meet the energy needs of a cell or organism. 4)Fatty acid derivatives serve as hormones and intracellular messengers e.g. steroids, sex hormones and prostaglandins. 3 TRIGLYCERIDES Triglycerides are a highly concentrated stores of energy because they are reduced and anhydrous. The yield from the complete oxidation of fatty acids is about 9 kcal g-1 (38 kJ g-1) Triacylglycerols are nonpolar, and are stored in a nearly anhydrous form, whereas much more polar proteins and carbohydrates are more highly 4 TRIGLYCERIDES V/S GLYCOGEN A gram of nearly anhydrous fat stores more than six times as much energy as a gram of hydrated glycogen, which is likely the reason that triacylglycerols rather than glycogen were selected in evolution as the major energy reservoir. The glycogen and glucose stores provide enough energy to sustain biological function for about 24 hours, whereas the Triacylglycerol stores allow survival for several weeks. 5 PROVISION OF DIETARY FATTY ACIDS Most lipids are ingested in the form of triacylglycerols, that must be degraded to fatty acids for absorption across the intestinal epithelium. -
Identification of the Cytochrome P450 Enzymes Responsible for the X
FEBS Letters 580 (2006) 3794–3798 Identification of the cytochrome P450 enzymes responsible for the x-hydroxylation of phytanic acid J.C. Komen, R.J.A. Wanders* Departments of Clinical Chemistry and Pediatrics, Emma Children’s Hospital, Academic Medical Center, University of Amsterdam, Meibergdreef 9, 1105 AZ Amsterdam, The Netherlands Received 27 March 2006; revised 26 May 2006; accepted 30 May 2006 Available online 9 June 2006 Edited by Sandro Sonnino tanic acid occurs effectively by bacteria present in the rumen Abstract Patients suffering from Refsum disease have a defect in the a-oxidation pathway which results in the accumulation of of ruminants. phytanic acid in plasma and tissues. Our previous studies have Phytanic acid accumulates in patients with adult Refsum dis- shown that phytanic acid is also a substrate for the x-oxidation ease (ARD, MIM 266500) which is due to a defect in the a-oxi- pathway. With the use of specific inhibitors we now show that dation pathway caused by mutations in one of two genes members of the cytochrome P450 (CYP450) family 4 class are including the PAHX gene which codes for phytanoyl-CoA responsible for phytanic acid x-hydroxylation. Incubations with hydroxylase [2,3], and the PEX7 gene which codes for the microsomes containing human recombinant CYP450s (Super- PTS2 receptor [4]. The majority of ARD patients have muta- TM somes ) revealed that multiple CYP450 enzymes of the family tions in the PAHX gene. The increased levels of phytanic acid 4 class are able to x-hydroxylate phytanic acid with the follow- in plasma and tissues are thought to be the direct cause for the ing order of efficiency: CYP4F3A > CYP4F3B > CYP4F2 > pathology of the disease. -
Characterization of the Novel Defective Cyp2c9*24
DMD Fast Forward. Published on March 1, 2007 as DOI: 10.1124/dmd.106.013722 DMD FastThis article Forward. has not been Published copyedited onand Marchformatted. 1, The 2007 final versionas doi:10.1124/dmd.106.013722 may differ from this version. DMD#13722 CHARACTERIZATION OF THE NOVEL DEFECTIVE CYP2C9*24 ALLELE Downloaded from Author’s names: Darja Herman, Vita Dolzan, Magnus Ingelman-Sundberg dmd.aspetjournals.org Institutions: Institute of Biochemistry, Faculty of Medicine, Ljubljana, Slovenia (D.H., V.D.) Section of Pharmacogenetics, Department of Physiology and Pharmacology, Karolinska at ASPET Journals on September 27, 2021 Institute, Stockholm, Sweden (D.H., M.I.-S.) 1 Copyright 2007 by the American Society for Pharmacology and Experimental Therapeutics. DMD Fast Forward. Published on March 1, 2007 as DOI: 10.1124/dmd.106.013722 This article has not been copyedited and formatted. The final version may differ from this version. DMD#13722 Running title: CHARACTERIZATION OF CYP2C9*24 ALLELE Corresponding author: Vita Dolzan, Institute of Biochemistry, Faculty of Medicine, Vrazov trg 2, SI-1000 Ljubljana, Slovenia; phone: +386 1 543 76 69; fax: + 386 1 543 76 41; e-mail: [email protected] Downloaded from No. of text pages: 8 (excluding Title page, Abstract and References) No. of Figures: 3 dmd.aspetjournals.org No. of references: 15 No. of words in the - Abstract: 242 - Introduction: 351 at ASPET Journals on September 27, 2021 - Results and Discussion: 755 Abbreviations: CYP – cytochrome P450, HEK293 – human embryonic kidney cell line 2 DMD Fast Forward. Published on March 1, 2007 as DOI: 10.1124/dmd.106.013722 This article has not been copyedited and formatted. -
Quantification and Potential Functions of Endogenous Agonists Of
Gastroenterology 2015;149:433–444 Quantification and Potential Functions of Endogenous Agonists of Transient Receptor Potential Channels in Patients With Irritable Bowel Syndrome Nicolas Cenac,1,2,3 Tereza Bautzova,1,2,3 Pauline Le Faouder,1,2,3,4,5 Nicholas A. Veldhuis,6 Daniel P. Poole,6,7 Corinne Rolland,1,2,3 Jessica Bertrand,1,2,3 Wolfgang Liedtke,8 Marc Dubourdeau,9 Justine Bertrand-Michel,4,5 Lisa Zecchi,10 Vincenzo Stanghellini,10 Nigel W. Bunnett,6,11 Giovanni Barbara,10 and Nathalie Vergnolle1,2,3,12 1Inserm, U1043, Toulouse, France; 2CNRS, U5282, Toulouse, France; 3Université de Toulouse, Université Paul Sabatier, Centre de Physiopathologie de Toulouse Purpan (CPTP), Toulouse, France; 4Inserm U1048, Toulouse, France; 5Lipidomic Core Facility, Metatoul Platform, Université de Toulouse, Université Paul Sabatier, Toulouse, France; 6Monash Institute of Pharmaceutical Sciences, Parkville, Victoria, Australia; 7Department of Anatomy and Neuroscience, The University of Melbourne, Parkville, Victoria, Australia; 8Division of Neurology, Department of Medicine, Duke University Medical Center, Durham, North Carolina; 9Ambiotis SAS, Toulouse, France; 10Departments of Internal Medicine and Gastroenterology, University of Bologna, Bologna, Italy; 11Department of Pharmacology, The University of Melbourne, Parkville, Victoria, Australia; and 12University of Calgary, Department of Pharmacology and Physiology, Calgary, Alberta, Canada supernatants from IBS biopsies. Levels of 5,6-EET and 15-HETE See editorial on page 287. were increased in colons of mice with, but not without, visceral hypersensitivity. PUFA metabolites extracted from IBS biopsies or colons of mice with visceral hypersensitivity activated mouse BACKGROUND & AIMS: In mice, activation of the transient sensory neurons in vitro, by activating TRPV4.