Evolution of the nuclear receptor superfamily: Early diversification from an ancestral orphan receptor

Journal of Molecular Endocrinology

Volumn 19, Issue 3, 1997, Pages 207-226

  Laudet, V ^a,b  

^a INSTITUT PASTEUR DE LILLE   (France)

^b UNIVERSITÉ DE LYON   (France)

Author keywords

[No Author keywords available]

Indexed keywords

CELL NUCLEUS RECEPTOR; ECDYSONE; PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR; RETINOIC ACID RECEPTOR; THYROID HORMONE RECEPTOR; VITAMIN D RECEPTOR;

CELL DIFFERENTIATION; GROWTH REGULATION; HORMONE RECEPTOR INTERACTION; HUMAN; LIGAND BINDING; MOUSE; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FAMILY; REVIEW; VERTEBRATE;

ANIMALS; DATABASES; EVOLUTION, MOLECULAR; HUMANS; MULTIGENE FAMILY; MUTATION; PHYLOGENY; PROTEIN STRUCTURE, TERTIARY; RECEPTORS, CYTOPLASMIC AND NUCLEAR; VARIATION (GENETICS);

EID: 0031451570     PISSN: 09525041     EISSN: None     Source Type: Journal    
DOI: 10.1677/jme.0.0190207     Document Type: Review

References (105)

1. Adelmant G, Bègue A, Stéhelin & Laudet V 1996 A functional Rev-erbα responsive element located in the human Rev-erbα promoter mediates a repressing activity. Proceedings of the National Academy of Sciences of the USA 93 3553-3558.
2. Amero SA, Kretsinger RH, Moncrief ND, Yamamot KR & Pearson WR 1992 The origin of nuclear receptor proteins: a single precursor distinct from other transcription factors. Molecular Endocrinology 6 3-7.
3. Baes M, Gulick T, Choi H-S, Martinoli MG, Simha D & Moore DD 1994 A new orphan member of the nuclear hormone receptor superfamily that interacts with a subset of retinoic acid response elements. Molecular and Cellular Biology 14 1544-1552.
4. Barretino D, Vivanco-Ruiz MdM & Stunnenberg HG 1994 Characterization of the ligand-dependent transactivation domain of thyroid hormone receptor. EMBO Journal 13 3039-3049.
5. Beato M, Herrlich P & Schütz G 1995 Steroid hormone receptors: many actors in search of a plot. Cell 83 851-857.
6. Borg B 1994 Androgens in Teleost fishes. Comparative Biochemistry and Physiology 109C 219-245.
7. Bourguet W, Ruff M, Chambon P, Gronemeyer H & Moras D 1995 Crystal structure of the ligand-binding domain of the human nuclear receptor RXR-α. Nature 375 377-382.
8. Burbach KM, Poland A & Bradfield CA 1992 Cloning of the Ah-receptor cDNA reveals a distinctive ligand-activated transcription factor. Proceedings of the National Academy of Sciences of the USA 89 8185-8189.
9. Burke L, Downes M, Carozzi A, Giguère V & Muscat GEO 1996 Transcriptional repression by the orphan steroid receptor RVR/Rev-erbβ is dependent on the signature motif and helix 5 in the E region: functional evidence for a biological role of RVR in myogenesis. Nucleic Acids Research 24 3481-3489.
10. Butler AJ & Parker MG 1995 COUP-TF II homodimers are formed in preference to heterodimers with RXRα or Trβ in intact cells. Nucleic Acids Research 23 4143-4150.
11. Chen Z-P, Shemshedini L, Durand B, Noy N, Chamon P & Gronemeyer H 1994a Pure and functionally homogeneous recombinant retinoid X receptor. Journal of Biological Chemistry 269 25770-25776.
12. Chen F, Cooney AJ, Wan Y, Law SW & O'Malley BW 1994b Cloning of a novel orphan receptor (GCNF) expressed during germ cell development. Molecular Endocrinology 8 1434-1444.
13. Danielian PS, White R, Lees JA & Parker MG 1992 Identification of a conserved region required for hormone dependent transcriptional activation by steroid hormone receptors. EMBO Journal 11 1025-1033.
14. Degnan BM, Degnan SM, Nagamura T & Morse DE 1993 The ets multigene family is conserved throughout the metazoa. Nucleic Acids Research 21 3479-3484.
15. Detera-Wadleigh SD & Fanning TG 1994 Phylogeny of the steroid receptor superfamily. Molecular Phylogenetics and Evolution 3 192-205.
16. Devchand PR, Keller H, Peters JM, Vazquez M, Gonzalez FJ & Wahli W 1996 The PPARa-leukotriene B4 pathway to inflammation control. Nature 384 39-43.
17. Downes M, Burke LJ & Muscat GEO 1996 Transcriptional repression by Rev-erbAα is dependent on the signature motif and helix 5 in the ligand binding domain: silencing does not involve an interaction with N-CoR. Nucleic Acids Research 24 3490-3498.
18. Dumas B, Harding HP, Cho, H-S, Lehmann KA, Chung M, Lazar MA & Moore DA 1994 A new orphan member of the nuclear hormone receptor superfamily closely related to Rev-Erb. Molecular Endocrinology 8 996-1005.
19. Durand B, Saunders M, Gaudon C, Roy B, Losson R & Chambon P. 1994 Activation function 2 (AF-2) of RAR and RXR: presence of a conserved autonomous constitutive activating domain and influence of the nature of the response element on AF-2 activity. EMBO Journal 13 5370-5385.
20. Enmark E & Gustafsson J-A 1996 Orphan nuclear receptors: the first eight years. Molecular Endocrinology 10 1293-1307.
21. Felsenstein J 1985 Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 783-791.
22. Forman BM, Goode F, Chen J, Oro AE, Bradley DJ, Perlmann T, Noonan DJ, Burka LT, McMorris T, Lamph WW, Evans RM & Weinberger C 1995a Identification of a nuclear receptor that is activated by farnesol metabolites. Cell 81 687-693.
23. 12,14-prostaglandin J2 is a ligand for the adipocyte determination factor PPARγ. Cell 83 803-812.
24. Giguère V, Tini M, Flock G, Ong E, Evans RM & Otulakowski G 1994 Isoform-specific amino-terminal domains dictate DNA-binding properties of RORα, a novel family of orphan hormone nuclear receptors. Genes and Development 8 538-553.
25. Giguère V, McBroom LDB & Flock G 1995 Determinants of target gene specificity for RORα1: monomeric DNA binding by an orphan nuclear receptor. Molecular and Cellular Biology 15 2517-2526.
26. Goffeau A, Barell BG, Bussey H, Davis RW, Dujon B, Feldmann H, Galibert F, Hoheisel JD, Jacq C, Johnston M, Louis FJ, Mewes HW, Murakami Y, Philippsen P, Tettelin H & Oliver SG 1996 Life with 6000 genes. Science 274 546-567.
27. Gronemeyer H 1993 Transcription actuation by nuclear receptors. Journal of Receptor Research 13 667-691.
28. Gronemeyer H & Laudet V 1995 Transcription factor 3: nuclear receptors. Protein Profile 2 1173-1308.
29. Gronemeyer H & Moras D 1995 How to finger DNA. Nature 375 190-191.
30. Guiochon Mantel A, Loosfelt H, Lescop P, Christin Maitre S, Perrot Applanat M & Milgrom E 1992 Mechanisms of nuclear localization of the progesterone receptor. Journal of Steroid Biochemistry and Molecular Biology 41 209-215.
31. Higgins DG & Sharp PM 1988 CLUSTAL: a package for performing multiple alignment on a microcomputer. Gene 73 237-244.
32. Hillis DM & Huelsenbeck JP 1992 Signal, noise, and reliability in molecular phylogenetic analyses. Journal of Heredity 83 189-195.
33. Holland PWH & Garcia-Fernandez J 1996 Hox genes and chordate evolution. Developmental Biology 173 382-395.
34. Janknecht R & Hunter T 1996 A growing coactivator network. Nature 383 22-23.
35. Janowski BA, Willy PJ, Rama Devi T, Falck JR & Mangelsdorf DJ 1996 An oxysterol signalling pathway mediated by the nuclear receptor LXRα. Nature 383 728-731.
36. Kastner P, Mark M & Chambon P 1995 Nonsteroid nuclear receptors: what are genetic studies telling us about their role in real life? Cell 83 859-869.
37. Katz R & Koenig RJ 1993 Nonbiased identification of DNA sequences that bind thyroid hormone receptor α1 with high affinity. Journal of Biological Chemistry 268 19392-19397.
38. Kime DE 1993 'Classical' and 'non-classical' reproductive steroids in fish. Reviews in Fish Biology and Fisheries 3 160-180.
39. Kliewer SA, Umesono K, Mangelsdorf AJ & Evans RM 1992a Retinoid X receptor interacts with nuclear receptors in retinoic acid, thyroid hormone and vitamin D3 signalling. Nature 355 446-449.
40. Kliewer SA, Umesono K, Heyman RA, Mangelsdorf DJ, Dyck J & Evans RM 1992b Retinoid X receptor-COUP-TF interactions modulate retinoic acid signaling. Proceedings of the National Academy of Sciences of the USA 89 1448-1452.
41. Kliewer SA, Lenhard JM, Willson TM, Patel I, Morris DC & Lehmann JM 1995 A prostaglandin J2 metabolite binds peroxisome proliferator-activated receptor γ and promotes adipocyte differentiation. Cell 83 813-819.
42. Kostrouch Z, Kostrouchova M & Rall JE 1995 Steroid/thyroid hormone receptor genes in Caenorhabditis elegans. Proceedings of the National Academy of Sciences of the USA 92 156-159.
43. Kumar S, Tamura K & Nei M 1993 MEGA: Molecular Evolutionary Genetics Analysis, version 1·01. The Pennsylvania Stage University, University Park, PA 16802.
44. Laudet V & Stéhelin D 1992 Nuclear receptors: flexible friends. Current Biology 2 293-295.
45. Laudet V & Adelmant G 1995 Nuclear receptors: lonesome orphans. Current Biology 5 124-127.
46. Laudet V, Hänni C, Coll J, Catzeflis F & Stéhelin D 1992 Evolution of the nuclear receptor gene superfamily. EMBO Journal 11 1003-1013.
47. Laudet V, Niel C, Duterque-Coquillaud M, Leprince D & Stéhelin D 1993 Evolution of the ets gene family. Biochemical and Biophysical Research Communications 190 8-14.
48. Lee MS, Kliewer SA, Provencal J, Wright PE & Evans RM 1993 Structure of the retinoid X receptor α DNA binding domain: a helix required for homodimeric DNA binding. Science 260 1117-1121.
49. Leid M, Kastner P & Chambon P 1992a Multiplicity generates diversity in the retinoic acid signalling pathways. Trends in Biochemical Sciences 17 427-433.
50. Leid M, Kastner P, Lyons R, Nakshatri H, Saunders M, Zacharewski T, Chen JY, Staub A, Garnier JM, Mader S & Chambon P 1992b Purification, cloning and RXR identity of the HeLa cell factor with which RAR or THR heterodimerizes to bind target sequences efficiently. Cell 68 377-395.
51. Mangelsdorf DJ & Evans RM 1995 The RXR heterodimers and orphan receptors. Cell 83 841-850.
52. Mangelsdorf DJ, Thummel C, Beato M, Herrlich P, Schütz G, Umesono K, Blumberg B, Kastner P, Mark M, Chambon P & Evans RM 1995a The nuclear receptor superfamily: the second decade. Cell 83 835-839.
53. Mangelsdorf DJ, Borgmeyer U, Heyman RA, Zhou JZ, Ong ES, Ou AE, Kakizuka A & Evans RM 1995b Characterization of three RXR genes that mediate the action of 9-cis-retinoic acid. Genes and Development 6 329-344.
54. Matkovits T & Christakos S 1995 Ligand occupancy is not required for vitamin D receptor and retinoid receptor-mediated transcriptional activation. Molecular Endocrinology 9 232-242.
55. Moore DD 1990 Diversity and unity in the nuclear hormone receptors: a terpenoid receptor superfamily. New Biology 2 100-105.
56. Moyle WR, Campbell RK, Myers RV, Bernard MP, Han Y & Wang X 1994 Co-evolution of ligand-receptor pairs. Nature 368 251-255.
57. Näär AM, Boutin JM, Lipkin SM, Yu CK & Rosenfed MG 1991 The orientation and spacing of core DNA-binding motifs dictate selective transcriptional responses to three nuclear receptors. Cell 65 1267-1279.
58. Nauber U, Pankratz MJ, Kienlin A & Seifert E 1988 Abdominal segmentation of the Drosophila embryo requires a hormone receptor-like protein encoded by the gap gene knirps. Nature 336 489-492.
59. Ohno S 1970 Evolution by Gene Duplication. Heidelberg: Springer-Verlag.
60. O'Malley BW & Conneely OM 1992 Orphan receptors: in search of a unifying hypothesis for activation. Molecular Endocrinology 6 1359-1361.
61. Oro AE, Ong ES, Margolis JS, Posakony JW, McKeown M & Evans RM 1988 The Drosophila gene knirps-related is a member of the steroid-receptor gene superfamily. Nature 336 493-496.
62. Ostrowski J, Hammer L, Roalsvig T, Pokornowski K & Reczek PR 1995 The N-terminal portion of domain E of retinoic acid receptors α and β is essential for the recognition of retinoic acid and various analogs. Proceeding of the National Academy of Sciences of the USA 92 1812-1816.
63. Parker MG & White R. Nuclear receptors spring into action. Nature Structural Biology 3 113-115.
64. Perlmann T & Vennström B 1945 The sound of silence. Nature 377 387-388.
65. Philippe H 1993 MUST, a computer package of management utilities for sequences and trees. Nucleic Acids Research 21 5264-5272.
66. Philippe H, Chenuil A & Adoutte A 1994 Can the Cambrian explosion be inferred through molecular phylogeny? Development Suppl 15-25.
67. Power RF, Mani SK, Codina J, Conneely OM & O'Malley BW 1991a Dopaminergic and ligand-independent activation of steroid hormone receptors. Science 254 1636-1639.
68. Power RF, Lydon JP, Conneely OM & O'Malley BW 1991b Dopamine activation of an orphan of the steroid receptor superfamily. Science 252 1546-1548.
69. Rastinejad F, Perlmann T, Evans RM & Sigler PB 1995 Structural determinants of nuclear receptor assembly on DNA direct repeats. Nature 375 203-211.
70. Renaud J-P, Rochel N, Ruff M, Vivat V, Chambon P, Gronemeyer H & Moras D 1995 Crystal structure of the RAR-γ ligand-binding domain bound to all-trans-retinoic acid. Nature 378 681-689.
71. Rothe M, Nauber U & Jäckle H 1989 Three hormone receptor-like Drosophila genes encode an identical DNA-binding finger. EMBO Journal 8 3087-3094.
72. Schulman IG, Juguilon H & Evans RM 1996 Activation and repression by nuclear hormone receptors: hormone modulates an equilibrium between active and repressive states. Molecular and Cellular Biology 16 3807-3813.
73. Schwabe JWR 1996 Transcriptional control: how nuclear receptors get turned on. Current Biology 6 372-374.
74. Sengupta P, Colbert HA & Bargmann CI 1994 The C. elegans gene odr-7 encodes an olfactory-specific member of the nuclear receptor superfamily. Cell 79 971-980.
75. Seol W, Choi H-S & Moore DD 1996 An orphan nuclear hormone receptor that lacks a DNA binding domain and heterodimerizes with other receptors. Science 272 1336-1339.
76. Serhan CN 1996 Signalling the fat controller. Nature 284 23-24.
77. Sharman AC & Holland PWH 1996 Conservation, duplication, and divergence of developmental genes during chordate evolution. Netherlands Journal of Zoology 46 47-67.
78. Shenk MA & Steele RE 1993 A molecular snapshot of the metazoan 'Eve'. Trends in Biochemical Sciences 18 459-463.
79. Shimeld SM 1996 Retinoic acid, HOX genes and the anterior-posterior axis in chordates. BioEssays 18 613-616.
80. Sidow A 1992 Diversification of the Wnt gene family on the ancestral lineage of vertebrates. Proceedings of the National Academy of Sciences of the USA 89 5098-5210.
81. Slack JMW, Holland PWH & Graham CF 1993 The zootype and the phylotypic stage. Nature 361 490-492.
82. Stassen MJ, Bailey D, Nelson S, Chinwalla V & Harte PJ 1995 The Drosophila trithorax proteins contain a novel variant of the nuclear receptor type DNA binding domain and an ancient conserved motif found in other chromosomal proteins. Mechanisms of Development 52 209-223.
83. Swain A, Zanraia E, Hacker A, Lovell-Badge R & Camerino G 1996 Mouse Dax1 expression is consistent with a role in sex determination as well as in adrenal and hypothalamus function. Nature Genetics 12 404-409.
84. Swofford DL 1991 PAUP: Phylogenetic Analysis Using Parsimony, Version 3.1 Computer program distributed by the Illinois Natural History Survey, Champaign, Illinois.
85. Swofford DL & Olsen GJ 1990 Phylogeny reconstruction. In Molecular Systematic, ch 11, pp 411-500. Eds DM Hillis & C Moritz. Sunderland, MA: Sinauer Associates.
86. Thummel CS 1995 From embryogenesis to metamorphosis: the regulation and function of Drosophila nuclear receptor superfamily members. Cell 83 871-877.
87. Ueda H, Sun G-C, Murata T & Hirose S 1992 A novel DNA-binding motif abuts the zinc finger domain of insect nuclear hormone receptor FTZ-F1 and mouse embryonal long terminal repeat-binding protein. Molecular and Cellular Biology 12 5667-5672.
88. Umesono K, Murakami KK, Thompson CC & Evans RM 1991 Direct repeats as selective response elements for the thyroid hormone, retinoic acid, and vitamin D3 receptors. Cell 65 1255-1266.
89. Vernier P, Cardinaud H, Valdenaire O, Philippe H & Vincent J-D 1945 An evolutionary view of drug-receptor interaction: the bioamine receptor family. Trends in Pharmacological Sciences 16 375-376.
90. Vlahou A, Gonzalez-Rimbau M & Flytzanis CN 1996 Maternal mRNA encoding the orphan steroid receptor SpCOUP-TF is localized in sea urchin eggs. Development 122 521-526.
91. Wagner RL, Apriletti JW, McGrath ME, West BL, Baxter JD & Fletterick RJ 1995 A structural role for hormone in the thyroid hormone receptor. Nature 378 690-697.
92. Wiley SR, Kraus RJ, Zuo F, Murray EE, Loritz K & Mertz JE 1993 SV40 early-to-late switch involves titration of cellular transcriptional repressors. Genes and Development 7 2206-2219.
93. Wilson AC, Carlson SS & White TJ 1977 Biochemical evolution. Annual Reviews in Biochemistry 46 473-639.
94. Wilson TE, Fahrner TJ, Johnston M & Milbrandt J 1991 Identification of the DNA binding site for NGFI-B by genetic selection in yeast. Science 252 1296-1300.
95. Wilson TE, Paulsen RE, Padett KA & Milbrandt J 1992 Participation of non-zinc finger residues in DNA binding by two nuclear orphan receptors. Science 256 107-110.
96. Wilson TE, Fahrner TJ & Milbrandt J 1993 The orphan receptors NGFI-B and steroidogenic factor 1 establish monomer binding as a third paradigm of nuclear receptor-DNA interaction. Molecular and Cellular Biology 12 5794-5804.
97. Wurtz J-M, Bourguet W, Renaud J-P, Vivat V, Chambon P, Moras D & Gronemeyer H 1996 A canonical structure for the ligand-binding domain of nuclear receptors. Nature Structural Biology 3 87-94.
98. Yang N, Shigeta H, Shi H & Teng CT 1996 Estrogen-related receptor, hERR1, modulates estrogen receptor-mediated response of human lactoferrin gene promoter. Journal of Biological Chemistry 271 5795-5804.
99. Yates RA, Tuan RS, Shepley KJ & Runnasch TR 1995 Characterization of genes encoding members of the nuclear hormone receptor superfamily from Onchocerca volvulus. Molecular Biochemistry and Parasitology 70 19-31.
100. Yu VC, Delsert C, Andersen B, Holoway JM, Devary OV, Näär AM, Kim S, Boutin JM, Glass CK & Rosenfeld MG 1991 A coregulator that enhances binding of retinoid acid, thyroid hormone, and vitamin D receptors to their cognate response elements. Cell 67 1251-1256.
101. Zanaria E, Muscatelli F, Bardoni B, Strom TM, Guioli S, Guo W, Lalli E, Moser C, Walker AP, McCabe ERB, Meitinger T & Monaco AP 1994 An unusual member of the nuclear hormone receptor superfamily responsible for X-linked adrenal hypoplasia congenita. Nature 372 635-641.
102. Zechel C, Shen XQ, Chambon P & Gronemeyer H 1994a Dimerization interfaces formed between the DNA binding domains determine the cooperative binding of RXR/RAR and RXR/TR heterodimers to DR5 and DR4 elements. EMBO Journal 13 1414-1424.
103. Zechel C, Shen XQ, Chen JY, Chen ZP, Chambon P & Gronemeyer H 1994b The dimerization interfaces formed between the DNA binding domains of RXR, RAR and TR determine the binding specificity and polarity of the full-length receptors to direct repeats. EMBO Journal 13 1425-1433.
104. Zelhof AC, Yao T-P, Chen DJ, Evans RM & McKeown M 1995 Seven-up inhibits ultraspiracle-based signaling pathways in vitro and in vivo. Molecular and Cellular Biology 15 3736-6745.
105. Zhang XK, Hoffmann B, Tran PBV, Graupner G & Pfahl 1992 Retinoid X receptor is an auxiliary protein for thyroid hormone and retinoic acid receptors. Nature 355 441-446.