|
 |
|
|||||||
|
|||||||||
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Journal of Lipid Research, Vol. 43, 1773-1808, November 2002
Copyright © 2002 by Lipid Research, Inc.
Review |
Gene expression regulation by retinoic acid
Institute for Nutrition Research, School of Medicine, University of Oslo, Oslo, Norway
1 To whom correspondence should be addressed. e-mail: rune.blomhoff{at}basalmed.uio.no
Over the last quarter century, more than 532 genes have been put forward as regulatory targets of retinoic acid. In some cases this control is direct, driven by a liganded heterodimer of retinoid receptors bound to a DNA response element; in others, it is indirect, reflecting the actions of intermediate transcription factors, non-classical associations of receptors with other proteins, or even more distant mechanisms. Given the broad range of scientific questions continually under investigation, researchers do not always have occasion to classify target genes along these lines. However, our understanding of the genetic role of retinoids will be enhanced if such a distinction can be made for each regulated gene. We have therefore evaluated published data from 1,191 papers covering 532 genes and have classified these genes into four categories according to the degree to which an hypothesis of direct versus indirect control is supported overall.
We found 27 genes that are unquestionably direct targets of the classical pathway in permissive cellular contexts (Category 3 genes), plus 105 genes that appear to be candidates, pending the results of specific additional experiments (Category 2). Data on another 267 targets are not evocative of direct or indirect regulation either way, although control by retinoic acid through some mechanism is clear (Category 1). Most of the remaining 133 targets seem to be regulated indirectly, usually through a transcriptional intermediary, in the contexts studied so far (Category 0).
Supplementary key words gene regulation • transcription • retinoic acid receptors • tretinoin • RAR • RXR
CiteULike 
Complore 
Connotea 
Del.icio.us 
Digg 
Reddit 
Technorati What's this?
This article has been cited by other articles:
|
|
 |
|
  Y. Mezaki, N. Yamaguchi, K. Yoshikawa, M. Miura, K. Imai, H. Itoh, and H. Senoo Insoluble, Speckled Cytosolic Distribution of Retinoic Acid Receptor Alpha Protein as a Marker of Hepatic Stellate Cell Activation In Vitro J. Histochem. Cytochem., July 1, 2009; 57(7): 687 - 699. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 K. Strom, T. E. Gundersen, O. Hansson, S. Lucas, C. Fernandez, R. Blomhoff, and C. Holm Hormone-sensitive lipase (HSL) is also a retinyl ester hydrolase: evidence from mice lacking HSL FASEB J, July 1, 2009; 23(7): 2307 - 2316. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Y. S. Shih, M. A. Kane, P. Zhou, C. L. E. Yen, R. S. Streeper, J. L. Napoli, and R. V. Farese Jr. Retinol Esterification by DGAT1 Is Essential for Retinoid Homeostasis in Murine Skin J. Biol. Chem., February 13, 2009; 284(7): 4292 - 4299. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Gianni', A. Boldetti, V. Guarnaccia, A. Rambaldi, E. Parrella, I. Raska Jr., C. Rochette-Egly, G. Del Sal, A. Rustighi, M. Terao, et al. Inhibition of the Peptidyl-Prolyl-Isomerase Pin1 Enhances the Responses of Acute Myeloid Leukemia Cells to Retinoic Acid via Stabilization of RAR{alpha} and PML-RAR{alpha} Cancer Res., February 1, 2009; 69(3): 1016 - 1026. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Terao, M. Kurosaki, M. M. Barzago, M. Fratelli, R. Bagnati, A. Bastone, C. Giudice, E. Scanziani, A. Mancuso, C. Tiveron, et al. Role of the Molybdoflavoenzyme Aldehyde Oxidase Homolog 2 in the Biosynthesis of Retinoic Acid: Generation and Characterization of a Knockout Mouse Mol. Cell. Biol., January 15, 2009; 29(2): 357 - 377. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 K. Van Beneden, L. A. van Grunsven, C. Geers, M. Pauwels, A. Desmouliere, D. Verbeelen, A. Geerts, and C. Van den Branden CRBP-I in the renal tubulointerstitial compartment of healthy rats and rats with renal fibrosis Nephrol. Dial. Transplant., November 1, 2008; 23(11): 3464 - 3471. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. Levi, B. Levavi-Sivan, and E. Lubzens Expression of Genes Associated with Retinoid Metabolism in the Trout Ovarian Follicle Biol Reprod, September 1, 2008; 79(3): 570 - 577. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Nakanishi, Y. Tomaru, H. Miura, Y. Hayashizaki, and M. Suzuki Identification of transcriptional regulatory cascades in retinoic acid-induced growth arrest of HepG2 cells Nucleic Acids Res., June 1, 2008; 36(10): 3443 - 3454. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Zaitseva, B. J. Vollenhoven, and P. A.W. Rogers Retinoids regulate genes involved in retinoic acid synthesis and transport in human myometrial and fibroid smooth muscle cells Hum. Reprod., May 1, 2008; 23(5): 1076 - 1086. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. D. Clugston, W. Zhang, and J. J. Greer Gene expression in the developing diaphragm: significance for congenital diaphragmatic hernia Am J Physiol Lung Cell Mol Physiol, April 1, 2008; 294(4): L665 - L675. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y.-K. Kim, L. Wassef, L. Hamberger, R. Piantedosi, K. Palczewski, W. S. Blaner, and L. Quadro Retinyl Ester Formation by Lecithin:Retinol Acyltransferase Is a Key Regulator of Retinoid Homeostasis in Mouse Embryogenesis J. Biol. Chem., February 29, 2008; 283(9): 5611 - 5621. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. Glasow, A. Barrett, K. Petrie, R. Gupta, M. Boix-Chornet, D.-C. Zhou, D. Grimwade, R. Gallagher, M. von Lindern, S. Waxman, et al. DNA methylation-independent loss of RARA gene expression in acute myeloid leukemia Blood, February 15, 2008; 111(4): 2374 - 2377. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. Mazurais, M. J. Darias, M. F. Gouillou-Coustans, M. M. Le Gall, C. Huelvan, E. Desbruyeres, P. Quazuguel, C. Cahu, and J. L. Zambonino-Infante Dietary vitamin mix levels influence the ossification process in European sea bass (Dicentrarchus labrax) larvae Am J Physiol Regulatory Integrative Comp Physiol, February 1, 2008; 294(2): R520 - R527. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 W. S. Blaner and C. L. Mendelsohn Retinoid Inactivation: Survival Factor for Male Germ Cells Endocrinology, October 1, 2007; 148(10): 4557 - 4559. [Full Text] [PDF]
|
|
|
|
|
|
B. R. Noble, R. P. Babiuk, R. D. Clugston, T. M. Underhill, H. Sun, R. Kawaguchi, P. G. Walfish, R. Blomhoff, T. E. Gundersen, and J. J. Greer Mechanisms of action of the congenital diaphragmatic hernia-inducing teratogen nitrofen Am J Physiol Lung Cell Mol Physiol, October 1, 2007; 293(4): L1079 - L1087. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. Goold, M. Hubank, A. Hunt, J. Holton, R. P. Menon, T. Revesz, M. Pandolfo, and A. Matilla-Duenas Down-regulation of the dopamine receptor D2 in mice lacking ataxin 1 Hum. Mol. Genet., September 1, 2007; 16(17): 2122 - 2134. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 P. Ocaya, A. C. Gidlof, P. S. Olofsson, H. Torma, and A. Sirsjo CYP26 Inhibitor R115866 Increases Retinoid Signaling in Intimal Smooth Muscle Cells Arterioscler. Thromb. Vasc. Biol., July 1, 2007; 27(7): 1542 - 1548. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Ertesvag, H.-C. Aasheim, S. Naderi, and H. K. Blomhoff Vitamin A potentiates CpG-mediated memory B-cell proliferation and differentiation: involvement of early activation of p38MAPK Blood, May 1, 2007; 109(9): 3865 - 3872. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. Zolfaghari, C. J. Cifelli, S. O. Lieu, Q. Chen, N.-q. Li, and A. C. Ross Lipopolysaccharide opposes the induction of CYP26A1 and CYP26B1 gene expression by retinoic acid in the rat liver in vivo Am J Physiol Gastrointest Liver Physiol, April 1, 2007; 292(4): G1029 - G1036. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Bistulfi, S. Pozzi, M. Ren, S. Rossetti, and N. Sacchi A Repressive Epigenetic Domino Effect Confers Susceptibility to Breast Epithelial Cell Transformation: Implications for Predicting Breast Cancer Risk Cancer Res., November 1, 2006; 66(21): 10308 - 10314. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. E. Ali-Khan and B. F. Hales Novel Retinoid Targets in the Mouse Limb during Organogenesis Toxicol. Sci., November 1, 2006; 94(1): 139 - 152. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. C. Ross, N.-q. Li, and L. Wu The Components of VARA, a Nutrient-Metabolite Combination of Vitamin A and Retinoic Acid, Act Efficiently Together and Separately to Increase Retinyl Esters in the Lungs of Neonatal Rats J. Nutr., November 1, 2006; 136(11): 2803 - 2807. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. E Balmer and R. Blomhoff Anecdotes, data and regulatory modules Biol Lett, September 22, 2006; 2(3): 431 - 434. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Chen, M. Dokmanovic, W. D. Stein, R. J. Ardecky, and I. B. Roninson Agonist and Antagonist of Retinoic Acid Receptors Cause Similar Changes in Gene Expression and Induce Senescence-like Growth Arrest in MCF-7 Breast Carcinoma Cells. Cancer Res., September 1, 2006; 66(17): 8749 - 8761. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. Engedal, T. Gjevik, R. Blomhoff, and H. K. Blomhoff All-trans Retinoic Acid Stimulates IL-2-Mediated Proliferation of Human T Lymphocytes: Early Induction of Cyclin D3. J. Immunol., September 1, 2006; 177(5): 2851 - 2861. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. C. Ross, N. Ambalavanan, R. Zolfaghari, and N.-q. Li Vitamin A combined with retinoic acid increases retinol uptake and lung retinyl ester formation in a synergistic manner in neonatal rats J. Lipid Res., August 1, 2006; 47(8): 1844 - 1851. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. N. Shelton, I. T. Sandoval, A. Eisinger, S. Chidester, A. Ratnayake, C. M. Ireland, and D. A. Jones Up-regulation of CYP26A1 in Adenomatous Polyposis Coli-Deficient Vertebrates via a WNT-Dependent Mechanism: Implications for Intestinal Cell Differentiation and Colon Tumor Development. Cancer Res., August 1, 2006; 66(15): 7571 - 7577. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. Troilo, D. L. Nickla, J. R. Mertz, and J. A. S. Rada Change in the Synthesis Rates of Ocular Retinoic Acid and Scleral Glycosaminoglycan during Experimentally Altered Eye Growth in Marmosets Invest. Ophthalmol. Vis. Sci., May 1, 2006; 47(5): 1768 - 1777. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. P. Simmons, M. L. Peach, J. R. Friedman, M. M.B. Green, M. C. Nicklaus, and L. M. De Luca Evidence that sequence homologous region in LRAT-like proteins possesses anti-proliferative activity and DNA binding properties: translational implications and mechanism of action Carcinogenesis, April 1, 2006; 27(4): 693 - 707. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Hori, S. J. Spurr-Michaud, C. L. Russo, P. Argueso, and I. K. Gipson Effect of Retinoic Acid on Gene Expression in Human Conjunctival Epithelium: Secretory Phospholipase A2 Mediates Retinoic Acid Induction of MUC16 Invest. Ophthalmol. Vis. Sci., November 1, 2005; 46(11): 4050 - 4061. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. M. O'Byrne, N. Wongsiriroj, J. Libien, S. Vogel, I. J. Goldberg, W. Baehr, K. Palczewski, and W. S. Blaner Retinoid Absorption and Storage Is Impaired in Mice Lacking Lecithin:Retinol Acyltransferase (LRAT) J. Biol. Chem., October 21, 2005; 280(42): 35647 - 35657. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. Fletcher, N. Giese, C. Schmidt, N. Stern, P. M. Lind, M. Viluksela, J. T. Tuomisto, J. Tuomisto, H. Nau, and H. Hakansson Altered Retinoid Metabolism in Female Long-Evans and Han/Wistar Rats following Long-Term 2,3,7,8-Tetrachlorodibenzo-p-Dioxin (TCDD)-Treatment Toxicol. Sci., August 1, 2005; 86(2): 264 - 272. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 I A Zervos, M P Tsantarliotou, G Vatzias, P Goulas, N A Kokolis, and I A Taitzoglou Effects of dietary vitamin A intake on acrosin- and plasminogen-activator activity of ram spermatozoa Reproduction, June 1, 2005; 129(6): 707 - 715. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. W. Ross, L. M. Bell, P. A. Littlewood, J. G. Mercer, P. Barrett, and P. J. Morgan Temporal Changes in Gene Expression in the Arcuate Nucleus Precede Seasonal Responses in Adiposity and Reproduction Endocrinology, April 1, 2005; 146(4): 1940 - 1947. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J.-C. Zhong, D.-Y. Huang, G.-F. Liu, H.-Y. Jin, Y.-M. Yang, Y.-F. Li, X.-H. Song, and K. Du Effects of all-trans retinoic acid on orphan receptor APJ signaling in spontaneously hypertensive rats Cardiovasc Res, February 15, 2005; 65(3): 743 - 750. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Schubert, J.-K. Yu, N. D. Holland, H. Escriva, V. Laudet, and L. Z. Holland Retinoic acid signaling acts via Hox1 to establish the posterior limit of the pharynx in the chordate amphioxus Development, January 1, 2005; 132(1): 61 - 73. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 Z. Jia, M. D. Person, J. Dong, J. Shen, S. C. Hensley, J. L. Stevens, T. J. Monks, and S. S. Lau Grp78 is essential for 11-deoxy-16,16-dimethyl PGE2-mediated cytoprotection in renal epithelial cells Am J Physiol Renal Physiol, December 1, 2004; 287(6): F1113 - F1122. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J.-C. Zhong, D.-Y. Huang, Y.-M. Yang, Y.-F. Li, G.-F. Liu, X.-H. Song, and K. Du Upregulation of Angiotensin-Converting Enzyme 2 by All-trans Retinoic Acid in Spontaneously Hypertensive Rats Hypertension, December 1, 2004; 44(6): 907 - 912. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. S. Williams, J. P. Mear, H.-C. Liang, S. S. Potter, B. J. Aronow, and M. C. Colbert Large-scale reprogramming of cranial neural crest gene expression by retinoic acid exposure Physiol Genomics, October 4, 2004; 19(2): 184 - 197. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. C. Yost, M. M. Denis, S. Lindemann, F. J. Rubner, G. K. Marathe, M. Buerke, T. M. McIntyre, A. S. Weyrich, and G. A. Zimmerman Activated Polymorphonuclear Leukocytes Rapidly Synthesize Retinoic Acid Receptor-{alpha}: A Mechanism for Translational Control of Transcriptional Events J. Exp. Med., September 7, 2004; 200(5): 671 - 680. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Schubert, N. D. Holland, H. Escriva, L. Z. Holland, and V. Laudet Retinoic acid influences anteroposterior positioning of epidermal sensory neurons and their gene expression in a developing chordate (amphioxus) PNAS, July 13, 2004; 101(28): 10320 - 10325. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. H. Zile Vitamin A Requirement for Early Cardiovascular Morphogenesis Specification in the Vertebrate Embryo: Insights from the Avian Embryo Experimental Biology and Medicine, July 1, 2004; 229(7): 598 - 606. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Abe, H. K. Poucher, M. Hiraoka, and J. A. Shayman Induction of lysosomal phospholipase A2 through the retinoid X receptor in THP-1 cells J. Lipid Res., April 1, 2004; 45(4): 667 - 673. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. Mollersen, J. E. Paulsen, H. B. Olstorn, H. K. Knutsen, and J. Alexander Dietary retinoic acid supplementation stimulates intestinal tumour formation and growth in multiple intestinal neoplasia (Min)/+ mice Carcinogenesis, January 1, 2004; 25(1): 149 - 153. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. P. Printz, M. Jirout, R. Jaworski, A. Alemayehu, and V. Kren Genetic Models in Applied Physiology: Invited Review: HXB/BXH rat recombinant inbred strain platform: a newly enhanced tool for cardiovascular, behavioral, and developmental genetics and genomics J Appl Physiol, June 1, 2003; 94(6): 2510 - 2522. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. S. Kiss, D. C. McManus, V. Franklin, W. L. Tan, A. McKenzie, G. Chimini, and Y. L. Marcel The Lipidation by Hepatocytes of Human Apolipoprotein A-I Occurs by Both ABCA1-dependent and -independent Pathways J. Biol. Chem., March 14, 2003; 278(12): 10119 - 10127. [Abstract] [Full Text] [PDF]
|
|
| HOME | HELP | FEEDBACK | SUBSCRIPTIONS | ARCHIVE | SEARCH | TABLE OF CONTENTS |
| All ASBMB Journals | Journal of Biological Chemistry |
| Molecular and Cellular Proteomics | ASBMB Today |