PXR: More Than Just a Master Xenobiotic Receptor
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Comprehensive Study of Nuclear Receptor DNA Binding Provides a Revised Framework for Understanding Receptor Specificity
ARTICLE https://doi.org/10.1038/s41467-019-10264-3 OPEN Comprehensive study of nuclear receptor DNA binding provides a revised framework for understanding receptor specificity Ashley Penvose 1,2,4, Jessica L. Keenan 2,3,4, David Bray2,3, Vijendra Ramlall 1,2 & Trevor Siggers 1,2,3 The type II nuclear receptors (NRs) function as heterodimeric transcription factors with the retinoid X receptor (RXR) to regulate diverse biological processes in response to endogenous 1234567890():,; ligands and therapeutic drugs. DNA-binding specificity has been proposed as a primary mechanism for NR gene regulatory specificity. Here we use protein-binding microarrays (PBMs) to comprehensively analyze the DNA binding of 12 NR:RXRα dimers. We find more promiscuous NR-DNA binding than has been reported, challenging the view that NR binding specificity is defined by half-site spacing. We show that NRs bind DNA using two distinct modes, explaining widespread NR binding to half-sites in vivo. Finally, we show that the current models of NR specificity better reflect binding-site activity rather than binding-site affinity. Our rich dataset and revised NR binding models provide a framework for under- standing NR regulatory specificity and will facilitate more accurate analyses of genomic datasets. 1 Department of Biology, Boston University, Boston, MA 02215, USA. 2 Biological Design Center, Boston University, Boston, MA 02215, USA. 3 Bioinformatics Program, Boston University, Boston, MA 02215, USA. 4These authors contributed equally: Ashley Penvose, Jessica L. Keenan. Correspondence -
Multi-Omic Understanding of the Evolution of Xenobiotic Tolerance in Bacterial Isolates and Communities
Washington University in St. Louis Washington University Open Scholarship Arts & Sciences Electronic Theses and Dissertations Arts & Sciences Summer 8-15-2019 Multi-omic Understanding of the Evolution of Xenobiotic Tolerance in Bacterial Isolates and Communities Tayte Paul Campbell Washington University in St. Louis Follow this and additional works at: https://openscholarship.wustl.edu/art_sci_etds Part of the Bioinformatics Commons, Biology Commons, and the Microbiology Commons Recommended Citation Campbell, Tayte Paul, "Multi-omic Understanding of the Evolution of Xenobiotic Tolerance in Bacterial Isolates and Communities" (2019). Arts & Sciences Electronic Theses and Dissertations. 1888. https://openscholarship.wustl.edu/art_sci_etds/1888 This Dissertation is brought to you for free and open access by the Arts & Sciences at Washington University Open Scholarship. It has been accepted for inclusion in Arts & Sciences Electronic Theses and Dissertations by an authorized administrator of Washington University Open Scholarship. For more information, please contact [email protected]. WASHINGTON UNIVERSITY IN ST. LOUIS Division of Biology and Biomedical Sciences Plant and Microbial Biosciences Dissertation Examination Committee: Gautam Dantas, Chair Arpita Bose Andrew Kau Audrey Odom-John Himadri Pakrasi Fuzhong Zhang Multi-omic Understanding of the Evolution of Xenobiotic Tolerance in Bacterial Isolates and Communities by Tayte P. Campbell A dissertation presented to The Graduate School of Washington University in partial fulfillment -
Polychlorinated Biphenyls in Pigments
doi: 10.1111/cote.12167 Polychlorinated biphenyls in pigments: inadvertent production and environmental Coloration significance Technology Lisa Rodenburg,a Jia Guoa and Robert Christieb,* aDepartment of Environmental Science, Rutgers, The State University of New Jersey, New Brunswick, NJ, 08901, USA bSchool of Textiles and Design, Heriot-Watt University, Scottish Borders Campus, Netherdale, Galashiels, TD1 3HF, UK Feature article Email: [email protected] Society of Dyers and Colourists Received: 18 December 2014; Accepted: 26 June 2015 Polychlorobiphenyls are toxic, bioaccumulative, and persistent chemicals whose intentional manufacture has been banned throughout the developed world. Polychlorobiphenyls may be generated inadvertently during the production of certain pigments, including diarylides. This inadvertent production is allowed under various regulatory schemes, such as the Toxic Substances Control Act in the United States and the Stockholm Convention on Persistent Organic Pollutants. Generally, these regulations require polychlorobiphenyl levels in batches of pigment to be less than certain regulatory limits, usually 50 ppm. A growing body of evidence suggests that the use of pigments is dispersing polychlorobiphenyls throughout the environment. Polychlorobiphenyl congeners associated with pigments have been found throughout the United States in sediments and in surface waters at levels exceeding the prevailing water quality standards. A recent Japanese government study reported measured polychlorobiphenyl concentrations well -
Xenobiotic-Sensing Nuclear Receptors Involved in Drug Metabolism: a Structural Perspective
HHS Public Access Author manuscript Author ManuscriptAuthor Manuscript Author Drug Metab Manuscript Author Rev. Author Manuscript Author manuscript; available in PMC 2016 May 24. Published in final edited form as: Drug Metab Rev. 2013 February ; 45(1): 79–100. doi:10.3109/03602532.2012.740049. Xenobiotic-sensing nuclear receptors involved in drug metabolism: a structural perspective Bret D. Wallace and Matthew R. Redinbo Departments of Chemistry, Biochemistry, and Microbiology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA Abstract Xenobiotic compounds undergo a critical range of biotransformations performed by the phase I, II, and III drug-metabolizing enzymes. The oxidation, conjugation, and transportation of potentially harmful xenobiotic and endobiotic compounds achieved by these catalytic systems are significantly regulated, at the gene expression level, by members of the nuclear receptor (NR) family of ligand-modulated transcription factors. Activation of NRs by a variety of endo- and exogenous chemicals are elemental to induction and repression of drug-metabolism pathways. The master xenobiotic sensing NRs, the promiscuous pregnane X receptor and less-promiscuous constitutive androstane receptor are crucial to initial ligand recognition, jump-starting the metabolic process. Other receptors, including farnesoid X receptor, vitamin D receptor, hepatocyte nuclear factor 4 alpha, peroxisome proliferator activated receptor, glucocorticoid receptor, liver X receptor, and RAR-related orphan receptor, are not directly linked to promiscuous xenobiotic binding, but clearly play important roles in the modulation of metabolic gene expression. Crystallographic studies of the ligand-binding domains of nine NRs involved in drug metabolism provide key insights into ligand-based and constitutive activity, coregulator recruitment, and gene regulation. -
Development of a Transplantable Liver Graft from a Tiny Partial Liver( Dissertation 全文 )
Auxiliary xenotransplantation as an in vivo bioreactor - Title Development of a transplantable liver graft from a tiny partial liver( Dissertation_全文 ) Author(s) Masano, Yuki Citation 京都大学 Issue Date 2020-03-23 URL https://doi.org/10.14989/doctor.r13329 Right https://onlinelibrary.wiley.com/journal/13993089 Type Thesis or Dissertation Textversion ETD Kyoto University Received: 27 November 2018 | Revised: 25 May 2019 | Accepted: 27 June 2019 DOI: 10.1111/xen.12545 ORIGINAL ARTICLE Auxiliary xenotransplantation as an in vivo bioreactor— Development of a transplantable liver graft from a tiny partial liver Yuki Masano1 | Shintaro Yagi1 | Yosuke Miyachi1 | Shinya Okumura1 | Toshimi Kaido1 | Hironori Haga2 | Eiji Kobayashi3 | Shinji Uemoto1 1Division of Hepato‐Biliary‐Pancreatic and Transplant Surgery, Department of Surgery, Abstract Graduate School of Medicine, Kyoto Background: We established a completely novel method of auxiliary xenogeneic University, Kyoto, Japan partial liver transplantation and examined whether liver grafts procured from Syrian 2Department of Diagnostic Pathology, Kyoto University Hospital, Kyoto, Japan hamsters regenerated in nude rats, which were used as in vivo bioreactors. 3Department of Organ Fabrication, Keio Methods: The hamsters and the rats were all males (n = 10). Partial liver grafts from University School of Medicine, Tokyo, Japan hamsters were transplanted into nude rats in an auxiliary manner. We evaluated liver Correspondence graft injury, rejection, and regeneration during 7 days after auxiliary xenogeneic par- Shintaro Yagi, 54 Kawahara‐cho, Shogoin, Sakyo‐ku, Kyoto, 606‐8507, Japan. tial liver transplantation. Email: [email protected]‐u.ac.jp Results: All rats survived until sacrifice on post‐operative day (POD) 1, 3, and 7. HE‐ Funding information staining showed normal at POD1, mild periportal edema, and slight bile duct and Japan Society for the Promotion of Science, venous endothelial inflammation at POD3, and moderate acute cellular rejection at Grant/Award Number: 17H06814 POD7 without parenchymal necrosis. -
Transplantation of Engineered Chimeric Liver with Autologous
ORIGINAL ARTICLE Transplantation of Engineered Chimeric Liver With Autologous Hepatocytes and Xenobiotic Scaffold Toshiyuki Hata, MD,∗† Shinji Uemoto, MD, PhD,∗ Yasuhiro Fujimoto, MD, PhD,∗ Takashi Murakami, MD, PhD,‡ Chise Tateno, PhD,§ Katsutoshi Yoshizato, PhD,§ and Eiji Kobayashi, MD, PhD|| iver transplantation is currently regarded as the most effective Objective: Generation of human livers in pigs might improve the serious treatment for end-stage liver diseases. Because the worldwide shortage of grafts for human liver transplantation, and enable liver trans- L graft shortage remains unresolved,1,2 engineered organs are antici- plantation without the need for deceased or living donors. We developed a pated as alternative grafts to fill the scarcity and ultimately replace chimeric liver (CL) by repopulation of rat hepatocytes in a mouse and suc- those from deceased and living donors. Although regenerative tech- cessfully transplanted it into a rat recipient with vessel reconstruction. This nology has already developed various kinds of regenerative cells and study was designed to investigate the feasibility of CL for supporting the tissues,3,4 they are still insufficient to cure patients with end-stage recipient after auxiliary liver grafting. liver diseases because of the absence of complicated functions and Methods: Hepatocytes from luciferase transgenic or luciferase/LacZ double- limited volume. Therefore, a regenerative liver graft for use as an “or- transgenic rats were transplanted into 20- to 30-day-old urokinase-type gan” is required. To achieve an appropriate 3-dimensional structure plasminogen activator/severe-combined immunodeficiency (uPA/SCID) mice and differentiation to specific tissues in a single organ, application of (n = 40) to create CLs with rat-origin hepatocytes. -
Development of Fluorescent Substrates for Microsomal Epoxide Hydrolase
Analytical Biochemistry 414 (2011) 154–162 Contents lists available at ScienceDirect Analytical Biochemistry journal homepage: www.elsevier.com/locate/yabio Development of fluorescent substrates for microsomal epoxide hydrolase and application to inhibition studies ⇑ Christophe Morisseau a, , Maud Bernay a, Aurélie Escaich a, James R. Sanborn a, Jozsef Lango b, Bruce D. Hammock a a Department of Entomology and Cancer Center, University of California – Davis, Davis, CA 95616, USA b Department of Molecular Biosciences, University of California – Davis, Davis, CA 95616, USA article info abstract Article history: The microsomal epoxide hydrolase (mEH) plays a significant role in the metabolism of numerous Received 18 January 2011 xenobiotics. In addition, it has a potential role in sexual development and bile acid transport, and it is Received in revised form 23 February 2011 associated with a number of diseases such as emphysema, spontaneous abortion, eclampsia, and several Accepted 25 February 2011 forms of cancer. Toward developing chemical tools to study the biological role of mEH, we designed and Available online 1 March 2011 synthesized a series of absorbent and fluorescent substrates. The highest activity for both rat and human mEH was obtained with the fluorescent substrate cyano(6-methoxy-naphthalen-2-yl)methyl glycidyl Keywords: carbonate (11). An in vitro inhibition assay using this substrate ranked a series of known inhibitors sim- Microsomal epoxide hydrolase ilarly to the assay that used radioactive cis-stilbene oxide but with a greater discrimination between Fluorescent substrate a-Cyanocarbonate inhibitors. These results demonstrate that the new fluorescence-based assay is a useful tool for the dis- Xenobiotic metabolism covery of structure–activity relationships among mEH inhibitors. -
BMAL1 and Modulates Tissue-Specific Circadian Networks
Nuclear receptor HNF4A transrepresses CLOCK: BMAL1 and modulates tissue-specific circadian networks Meng Qua, Tomas Duffyb, Tsuyoshi Hirotac, and Steve A. Kaya,1 aKeck School of Medicine, University of Southern California, Los Angeles, CA 90089; bDepartment of Molecular Medicine, The Scripps Research Institute, La Jolla, CA 92037; and cInstitute of Transformative Bio-Molecules, Nagoya University, 464-8602 Nagoya, Japan Contributed by Steve A. Kay, November 6, 2018 (sent for review September 24, 2018; reviewed by Carla B. Green and John B. Hogenesch) Either expression level or transcriptional activity of various nuclear NRs canonically function as ligand-activated transcription receptors (NRs) have been demonstrated to be under circadian factors that regulate the expression of their target genes to control. With a few exceptions, little is known about the roles of affect physiological pathways (19). The importance of NRs in NRs as direct regulators of the circadian circuitry. Here we show maintaining optimal physiological homeostasis is illustrated in that the nuclear receptor HNF4A strongly transrepresses the their identification as potential targets for therapeutic drug transcriptional activity of the CLOCK:BMAL1 heterodimer. We development to combat a diverse array of diseases, including define a central role for HNF4A in maintaining cell-autonomous reproductive disorders, inflammation, cancer, diabetes, car- circadian oscillations in a tissue-specific manner in liver and colon diovascular disease, and obesity (20). Various NRs have been cells. Not only transcript level but also genome-wide chromosome implicated as targets of the circadian clock, which may con- binding of HNF4A is rhythmically regulated in the mouse liver. tribute to the circadian regulation of nutrient and energy me- ChIP-seq analyses revealed cooccupancy of HNF4A and CLOCK: tabolism. -
Pregnane X Receptor (PXR)-Mediated Gene Repression and Cross-Talk of PXR with Other Nuclear Receptors Via Coactivator Interactions
fphar-07-00456 November 23, 2016 Time: 17:3 # 1 REVIEW published: 25 November 2016 doi: 10.3389/fphar.2016.00456 Pregnane X Receptor (PXR)-Mediated Gene Repression and Cross-Talk of PXR with Other Nuclear Receptors via Coactivator Interactions Petr Pavek* Department of Pharmacology and Toxicology and Centre for Drug Development, Faculty of Pharmacy in Hradec Kralove, Charles University in Prague, Hradec Kralove, Czechia Pregnane X receptor is a ligand-activated nuclear receptor (NR) that mainly controls inducible expression of xenobiotics handling genes including biotransformation enzymes and drug transporters. Nowadays it is clear that PXR is also involved in regulation of intermediate metabolism through trans-activation and trans-repression of genes controlling glucose, lipid, cholesterol, bile acid, and bilirubin homeostasis. In these processes PXR cross-talks with other NRs. Accumulating evidence suggests that the cross-talk is often mediated by competing for common coactivators or by disruption Edited by: of coactivation and activity of other transcription factors by the ligand-activated PXR. Ulrich M. Zanger, In this respect mainly PXR-CAR and PXR-HNF4a interference have been reported Dr. Margarete Fischer-Bosch-Institute and several cytochrome P450 enzymes (such as CYP7A1 and CYP8B1), phase II of Clinical Pharmacology, Germany enzymes (SULT1E1, Gsta2, Ugt1a1), drug and endobiotic transporters (OCT1, Mrp2, Reviewed by: Ramiro Jover, Mrp3, Oatp1a, and Oatp4) as well as intermediate metabolism enzymes (PEPCK1 and University of Valencia, Spain G6Pase) have been shown as down-regulated genes after PXR activation. In this review, Yuji Ishii, Kyushu University, Japan I summarize our current knowledge of PXR-mediated repression and coactivation *Correspondence: interference in PXR-controlled gene expression regulation. -
Expression of C-Terminal Modified Serine Palmitoyltransferase-1 Alters Chemosensitivity of Inflammation-Associated Human Cancer Cell Lines
Journal of Cancer Therapy, 2014, 5, 902-919 Published Online September 2014 in SciRes. http://www.scirp.org/journal/jct http://dx.doi.org/10.4236/jct.2014.510097 Expression of C-Terminal Modified Serine Palmitoyltransferase-1 Alters Chemosensitivity of Inflammation-Associated Human Cancer Cell Lines Tokunbo Yerokun Department of Biology, Spelman College, Atlanta, Georgia, USA Email: [email protected] Received 21 June 2014; revised 20 July 2014; accepted 15 August 2014 Copyright © 2014 by author and Scientific Research Publishing Inc. This work is licensed under the Creative Commons Attribution International License (CC BY). http://creativecommons.org/licenses/by/4.0/ Abstract Background: The human serine palmitoyltransferase-1, SPTLC1, subunit is emerging as a stress responsive protein with putative role in modulating cellular stress response behavior. When compared to the parental cell line, recombinant Glioma cells expressing C-terminal modified SPTLC1 are found to show resistance to the cytotoxic effect of polycyclic hydrocarbons, PHs, in- cluding the environmental contaminant 3-methylcholanthrene. This novel functional association of SPTLC1 expression with proliferative capacity is thought to be due, in part, to its ability for crosstalk with protein regulators of different biological processes. Whether the effect of SPTLC1 on sensitivity to PHs extends to therapeutic drugs and the progression of the malignant phenotype is of research interest. Methods: In the current study, sub-cellular localization was by immunos- taining for SPTLC1 in untreated and chemical treated cells and detection with confocal microscopy. The effect expressing C-terminal modified SPTLC1, in cancer cell lines of the inflammation-asso- ciated type, has on chemosensitivity and gene expression was also assessed. -
Animal Plant Warfare and Secondary Metabolite Evolution
Review Nat. Prod. Bioprospect. 2013, 3, 1–7 DOI 10.1007/s13659-013-0004-0 Animal plant warfare and secondary metabolite evolution a a b a, Steffen WÖLL, Sun Hee KIM, Henry Johannes GRETEN, and Thomas EFFERTH * aDepartment of Pharmaceutical Biology, Institute of Pharmacy and Biochemistry, Johannes Gutenberg-University, Mainz, Germany bInstitute of Biomedical Sciences (ICBAS), University of Porto, Portugal Received 10 January 2013; Accepted 16 February 2013 © The Author(s) 2013. This article is published with open access at Springerlink.com Abstract: The enduring discussion, why plants produce secondary metabolites with pharmacologically and toxicologically active towards mammals traces back to the eminent role of medicinal plants in the millennia-old history of manhood. In recent years, the concept of an animal plant warfare emerged, which focused on the co-evolution between plants and herbivores. As a reaction to herbivory, plants developed mechanical defenses such as thorns and hard shells, which paved the way for adapted animal physiques. Plants evolved further defense systems by producing chemicals that exert toxic effects on the animals that ingest them. As a result of this selective pressure, animals developed special enzymes, e.g. cytochrome P450 monooxigenases (CYP450) that metabolize xenobiotic phytochemicals. As a next step in the evolutionary competition between plants and animals, plants evolved to produce non-toxic pro-drugs, which become toxic only after ingestion by animals through metabolization by enzymes such as CYP450. Because these sequestered evolutionary developments call to mind an arms race, the term animal plant warfare has been coined. The evolutionary competition between plants and animals may help to better understand the modes of action of medicinal plants and to foster the efficient and safe use of phytotherapy nowadays. -
Estrogen Modulates Transactivations of SXR-Mediated Liver X Receptor Response Element and CAR-Mediated Phenobarbital Response Element in Hepg2 Cells
EXPERIMENTAL and MOLECULAR MEDICINE, Vol. 42, No. 11, 731-738, November 2010 Estrogen modulates transactivations of SXR-mediated liver X receptor response element and CAR-mediated phenobarbital response element in HepG2 cells Gyesik Min1 by moxestrol in the presence of ER. Thus, ER may play both stimulatory and inhibitory roles in modulating Department of Pharmaceutical Engineering CAR-mediated transactivation of PBRU depending on Jinju National University the presence of their ligands. In summary, this study Jinju 660-758, Korea demonstrates that estrogen modulates transcriptional 1Correspondence: Tel, 82-55-751-3396; activity of SXR and CAR in mediating transactivation Fax, 82-55-751-3399; E-mail, [email protected] of LXRE and PBRU, respectively, of the nuclear re- DOI 10.3858/emm.2010.42.11.074 ceptor target genes through functional cross-talk be- tween ER and the corresponding nuclear receptors. Accepted 14 September 2010 Available Online 27 September 2010 Keywords: constitutive androstane receptor; estro- gen; liver X receptor; phenobarbital; pregnane X re- Abbreviations: CAR, constitutive androstane receptor; CYP, cyto- ceptor; transcriptional activation chrome P450 gene; E2, 17-β estradiol; ER, estrogen receptor; ERE, estrogen response element; GRIP, glucocorticoid receptor interacting protein; LRH, liver receptor homolog; LXR, liver X receptor; LXREs, LXR response elements; MoxE2, moxestrol; PB, Introduction phenobarbital; PBRU, phenobarbital-responsive enhancer; PPAR, Estrogen plays important biological functions not peroxisome proliferator activated receptor; RXR, retinoid X receptor; only in the development of female reproduction SRC, steroid hormone receptor coactivator; SXR, steroid and and cellular proliferation but also in lipid meta- xenobiotic receptor; TCPOBOP, 1,4-bis-(2-(3,5-dichloropyridoxyl)) bolism and biological homeostasis in different tis- benzene sues of body (Archer et al., 1986; Croston et al., 1997; Blum and Cannon, 2001; Deroo and Korach, 2006; Glass, 2006).