Trichoplax adhaerens reveals a network of nuclear receptors sensitive to 9-cis-retinoic acid at the base of metazoan evolution
Status PubMed-not-MEDLINE Jazyk angličtina Země Spojené státy americké Médium electronic-ecollection
Typ dokumentu časopisecké články
PubMed
28975052
PubMed Central
PMC5624297
DOI
10.7717/peerj.3789
PII: 3789
Knihovny.cz E-zdroje
- Klíčová slova
- 9-cis retinoic acid, COUP, ERR, Food, HNF4, Nuclear receptor, RXR, Trichoplax adhaerens,
- Publikační typ
- časopisecké články MeSH
Trichoplax adhaerens, the only known species of Placozoa is likely to be closely related to an early metazoan that preceded branching of Cnidaria and Bilateria. This animal species is surprisingly well adapted to free life in the World Ocean inhabiting tidal costal zones of oceans and seas with warm to moderate temperatures and shallow waters. The genome of T. adhaerens (sp. Grell) includes four nuclear receptors, namely orthologue of RXR (NR2B), HNF4 (NR2A), COUP-TF (NR2F) and ERR (NR3B) that show a high degree of similarity with human orthologues. In the case of RXR, the sequence identity to human RXR alpha reaches 81% in the DNA binding domain and 70% in the ligand binding domain. We show that T. adhaerens RXR (TaRXR) binds 9-cis retinoic acid (9-cis-RA) with high affinity, as well as high specificity and that exposure of T. adhaerens to 9-cis-RA regulates the expression of the putative T. adhaerens orthologue of vertebrate L-malate-NADP+ oxidoreductase (EC 1.1.1.40) which in vertebrates is regulated by a heterodimer of RXR and thyroid hormone receptor. Treatment by 9-cis-RA alters the relative expression profile of T. adhaerens nuclear receptors, suggesting the existence of natural ligands. Keeping with this, algal food composition has a profound effect on T. adhaerens growth and appearance. We show that nanomolar concentrations of 9-cis-RA interfere with T. adhaerens growth response to specific algal food and causes growth arrest. Our results uncover an endocrine-like network of nuclear receptors sensitive to 9-cis-RA in T. adhaerens and support the existence of a ligand-sensitive network of nuclear receptors at the base of metazoan evolution.
Biocev 1st Faculty of Medicine Charles University Vestec Czech Republic
Department of Ecology and Evolutionary Biology Yale University New Haven CT United States of America
Department of Medicine 5 University of Heidelberg Heidelberg Germany
Department of Pathology 3rd Faculty of Medicine Charles University Prague Czech Republic
Institute for Animal Ecology and Cell Biology University of Veterinary Medicine Hannover Germany
Zobrazit více v PubMed
Allenby G, Bocquel MT, Saunders M, Kazmer S, Speck J, Rosenberger M, Lovey A, Kastner P, Grippo JF, Chambon P, Levin AA. Retinoic acid receptors and retinoid X receptors: interactions with endogenous retinoic acids. Proceedings of the National Academy of Sciences of the United States of America. 1993;90:30–34. PubMed PMC
Bagamasbad P, Denver RJ. Mechanisms and significance of nuclear receptor auto- and cross-regulation. General and Comparative Endocrinology. 2011;170:3–17. doi: 10.1016/j.ygcen.2010.03.013. PubMed DOI PMC
Baker ME. Trichoplax, the simplest known animal, contains an estrogen-related receptor but no estrogen receptor: implications for estrogen receptor evolution. Biochemical and Biophysical Research Communications. 2008;375:623–627. doi: 10.1016/j.bbrc.2008.08.047. PubMed DOI
Bell EA, Boehnke P, Harrison TM, Mao WL. Potentially biogenic carbon preserved in a 4.1 billion-year-old zircon. Proceedings of the National Academy of Sciences of the United States of America. 2015;112:14518–14521. doi: 10.1073/pnas.1517557112. PubMed DOI PMC
Bridgham JT, Eick GN, Larroux C, Deshpande K, Harms MJ, Gauthier ME, Ortlund EA, Degnan BM, Thornton JW. Protein evolution by molecular tinkering: diversification of the nuclear receptor superfamily from a ligand-dependent ancestor. PLOS Biology. 2010;8(10):e1000497. doi: 10.1371/journal.pbio.1000497. PubMed DOI PMC
Cahnmann HJ. A fast photoisomerization method for the preparation of tritium-labeled 9-cis-retinoic acid of high specific activity. Analytical Biochemistry. 1995;227:49–53. doi: 10.1006/abio.1995.1251. PubMed DOI
Dawson MI, Xia ZB. The retinoid X receptors and their ligands. Biochimica et Biophysica Acta-Molecular and Cell Biology of Lipids. 2012;1821:21–56. doi: 10.1016/j.bbalip.2011.09.014. PubMed DOI PMC
De Lera AR, Krezel W, Ruhl R. An endogenous mammalian retinoid X receptor ligand, at last! ChemMedChem. 2016;11:1027–1037. doi: 10.1002/cmdc.201600105. PubMed DOI
De Urquiza AM, Liu S, Sjoberg M, Zetterstrom RH, Griffiths W, Sjovall J, Perlmann T. Docosahexaenoic acid, a ligand for the retinoid X receptor in mouse brain. Science. 2000;290:2140–2144. doi: 10.1126/science.290.5499.2140. PubMed DOI
Dozin B, Cahnmann HJ, Nikodem VM. Identification of thyroid hormone receptors in rat liver nuclei by photoaffinity labeling with L-thyroxine and triiodo-L-thyronine. Biochemistry. 1985;24:5197–5202. doi: 10.1021/bi00340a036. PubMed DOI
Dozin B, Magnuson MA, Nikodem VM. Tissue-specific regulation of two functional malic enzyme mRNAs by triiodothyronine. Biochemistry. 1985;24:5581–5586. doi: 10.1021/bi00341a044. PubMed DOI
Dozin B, Magnuson MA, Nikodem VM. Thyroid hormone regulation of malic enzyme synthesis. Dual tissue-specific control. Journal of Biological Chemistry. 1986;261:10290–10292. PubMed
Egea PF, Klaholz BP, Moras D. Ligand-protein interactions in nuclear receptors of hormones. FEBS Letters. 2000;476:62–67. doi: 10.1016/S0014-5793(00)01672-0. PubMed DOI
Escriva H, Bertrand S, Laudet V. The evolution of the nuclear receptor superfamily. Essays in Biochemistry. 2004;40:11–26. doi: 10.1042/bse0400011. PubMed DOI
Escriva H, Delaunay F, Laudet V. Ligand binding and nuclear receptor evolution. Bioessays. 2000;22:717–727. doi: 10.1002/1521-1878(200008)22:8<717::AID-BIES5>3.0.CO;2-I. PubMed DOI
Escriva H, Langlois MC, Mendonca RL, Pierce R, Laudet V. Evolution and diversification of the nuclear receptor superfamily. Annals of the New York Academy of Sciences. 1998;839:143–146. PubMed
Escriva H, Safi R, Hanni C, Langlois MC, Saumitou-Laprade P, Stehelin D, Capron A, Pierce R, Laudet V. Ligand binding was acquired during evolution of nuclear receptors. Proceedings of the National Academy of Sciences of the United States of America. 1997;94:6803–6808. PubMed PMC
Fang X, Hillgartner FB. Alterations in retinoid X receptor-alpha expression contribute to cell-type dependent differences in thyroid hormone regulation of malic enzyme transcription. Molecular and Cellular Endocrinology. 2000;164:41–52. PubMed
Forman BM, Samuels HH. Dimerization among nuclear hormone receptors. New Biologist. 1990a;2:587–594. PubMed
Forman BM, Samuels HH. Interactions among a subfamily of nuclear hormone receptors: the regulatory zipper model. Molecular Endocrinology. 1990b;4:1293–1301. doi: 10.1210/mend-4-9-1293. PubMed DOI
Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Systematic Biology. 2010;59:307–321. doi: 10.1093/sysbio/syq010. PubMed DOI
Gutierrez-Mazariegos J, Schubert M, Laudet V. Evolution of retinoic acid receptors and retinoic acid signaling. Subcellular Biochemistry. 2014;70:55–73. doi: 10.1007/978-94-017-9050-5_4. PubMed DOI
Hillgartner FB, Chen W, Goodridge AG. Overexpression of the alpha-thyroid hormone receptor in avian cell lines. Effects on expression of the malic enzyme gene are selective and cell-specific. Journal of Biological Chemistry. 1992;267:12299–12306. PubMed
Holzer G, Markov GV, Laudet V. Evolution of nuclear receptors and ligand signaling: toward a soft key-lock model? Current Topics in Developmental Biology. 2017;125:1–38. doi: 10.1016/bs.ctdb.2017.02.003. PubMed DOI
Issemann I, Green S. Activation of a member of the steroid hormone receptor superfamily by peroxisome proliferators. Nature. 1990;347:645–650. doi: 10.1038/347645a0. PubMed DOI
Jakob W, Sagasser S, Dellaporta S, Holland P, Kuhn K, Schierwater B. The Trox-2 Hox/ParaHox gene of Trichoplax (Placozoa) marks an epithelial boundary. Development Genes and Evolution. 2004;214:170–175. PubMed
Kana R, Kotabova E, Lukes M, Papacek S, Matonoha C, Liu LN, Prasil O, Mullineaux CW. Phycobilisome mobility and its role in the regulation of light harvesting in red algae. Plant Physiology. 2014;165:1618–1631. doi: 10.1104/pp.114.236075. PubMed DOI PMC
Kana R, Kotabova E, Sobotka R, Prasil O. Non-photochemical quenching in cryptophyte alga Rhodomonas salina is located in chlorophyll a/c antennae. PLOS ONE. 2012;7:e29700. doi: 10.1371/journal.pone.0029700. PubMed DOI PMC
Kiefer JC. Emerging developmental model systems. Developmental Dynamics. 2006;235:2895–2899. doi: 10.1002/dvdy.20900. PubMed DOI
King N, Westbrook MJ, Young SL, Kuo A, Abedin M, Chapman J, Fairclough S, Hellsten U, Isogai Y, Letunic I, Marr M, Pincus D, Putnam N, Rokas A, Wright KJ, Zuzow R, Dirks W, Good M, Goodstein D, Lemons D, Li W, Lyons JB, Morris A, Nichols S, Richter DJ, Salamov A, Sequencing JG, Bork P, Lim WA, Manning G, Miller WT, McGinnis W, Shapiro H, Tjian R, Grigoriev IV, Rokhsar D. The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans. Nature. 2008;451:783–788. doi: 10.1038/nature06617. PubMed DOI PMC
Kitareewan S, Burka LT, Tomer KB, Parker CE, Deterding LJ, Stevens RD, Forman BM, Mais DE, Heyman RA, McMorris T, Weinberger C. Phytol metabolites are circulating dietary factors that activate the nuclear receptor RXR. Molecular Biology of the Cell. 1996;7:1153–1166. PubMed PMC
Kostrouch Z, Kostrouchova M, Love W, Jannini E, Piatigorsky J, Rall JE. Retinoic acid X receptor in the diploblast, Tripedalia cystophora. Proceedings of the National Academy of Sciences of the United States of America. 1998;95:13442–13447. PubMed PMC
Kostrouch Z, Kostrouchova M, Rall JE. Steroid/thyroid hormone receptor genes in Caenorhabditis elegans. Proceedings of the National Academy of Sciences of the United States of America. 1995;92:156–159. PubMed PMC
Kostrouchova M, Kostrouch Z. Nuclear receptors in nematode development: natural experiments made by a phylum. Biochimica et Biophysica Acta/General Subjects. 2015;1849:224–237. doi: 10.1016/j.bbagrm.2014.06.016. PubMed DOI
Kumar R, Thompson EB. The structure of the nuclear hormone receptors. Steroids. 1999;64:310–319. doi: 10.1016/S0039-128X(99)00014-8. PubMed DOI
Laudet V. Evolution of the nuclear receptor superfamily: early diversification from an ancestral orphan receptor. Journal of Molecular Endocrinology. 1997;19:207–226. PubMed
Le Guevel R, Oger F, Martinez-Jimenez CP, Bizot M, Gheeraert C, Firmin F, Ploton M, Kretova M, Palierne G, Staels B, Barath P, Talianidis I, Lefebvre P, Eeckhoute J, Salbert G. Inactivation of the nuclear orphan receptor COUP-TFII by small chemicals. ACS Chemical Biology. 2017 doi: 10.1021/acschembio.6b00593. PubMed DOI
Le Maire A, Grimaldi M, Roecklin D, Dagnino S, Vivat-Hannah V, Balaguer P, Bourguet W. Activation of RXR-PPAR heterodimers by organotin environmental endocrine disruptors. EMBO Reports. 2009;10:367–373. doi: 10.1038/embor.2009.8. PubMed DOI PMC
Lengqvist J, Mata De Urquiza A, Bergman AC, Willson TM, Sjovall J, Perlmann T, Griffiths WJ. Polyunsaturated fatty acids including docosahexaenoic and arachidonic acid bind to the retinoid X receptor alpha ligand-binding domain. Molecular & Cellular Proteomics. 2004;3:692–703. doi: 10.1074/mcp.M400003-MCP200. PubMed DOI
Letunic I, Doerks T, Bork P. SMART: recent updates, new developments and status in 2015. Nucleic Acids Research. 2015;43:D257–D260. doi: 10.1093/nar/gku949. PubMed DOI PMC
Markov GV, Laudet V. Origin and evolution of the ligand-binding ability of nuclear receptors. Molecular and Cellular Endocrinology. 2011;334:21–30. doi: 10.1016/j.mce.2010.10.017. PubMed DOI
Naar AM, Thakur JK. Nuclear receptor-like transcription factors in fungi. Genes and Development. 2009;23:419–432. doi: 10.1101/gad.1743009. PubMed DOI
NCBI Resource Coordinators Database resources of the national center for biotechnology information. Nucleic Acids Research. 2017;45:D12–D17. doi: 10.1093/nar/gkw1071. PubMed DOI PMC
Nomura Y, Nagaya T, Hayashi Y, Kambe F, Seo H. 9-cis-retinoic acid decreases the level of its cognate receptor, retinoid X receptor, through acceleration of the turnover. Biochemical and Biophysical Research Communications. 1999;260:729–733. doi: 10.1006/bbrc.1999.0969. PubMed DOI
Nordberg H, Cantor M, Dusheyko S, Hua S, Poliakov A, Shabalov I, Smirnova T, Grigoriev IV, Dubchak I. The genome portal of the Department of Energy Joint Genome Institute: 2014 updates. Nucleic Acids Research. 2014;42:D26–D31. doi: 10.1093/nar/gkt1069. PubMed DOI PMC
Nowickyj SM, Chithalen JV, Cameron D, Tyshenko MG, Petkovich M, Wyatt GR, Jones G, Walker VK. Locust retinoid X receptors: 9-Cis-retinoic acid in embryos from a primitive insect. Proceedings of the National Academy of Sciences of the United States of America. 2008;105:9540–9545. doi: 10.1073/pnas.0712132105. PubMed DOI PMC
Paknia O, Schierwater B. Global habitat suitability and ecological niche separation in the phylum placozoa. PLOS ONE. 2015;10:e0140162. doi: 10.1371/journal.pone.0140162. PubMed DOI PMC
Paris M, Escriva H, Schubert M, Brunet F, Brtko J, Ciesielski F, Roecklin D, Vivat-Hannah V, Jamin EL, Cravedi JP, Scanlan TS, Renaud JP, Holland ND, Laudet V. Amphioxus postembryonic development reveals the homology of chordate metamorphosis. Current Biology. 2008;3;18(11):825–830. doi: 10.1016/j.cub.2008.04.078. PubMed DOI
Petty KJ, Desvergne B, Mitsuhashi T, Nikodem VM. Identification of a thyroid hormone response element in the malic enzyme gene. Journal of Biological Chemistry. 1990;265:7395–7400. PubMed
Petty KJ, Morioka H, Mitsuhashi T, Nikodem VM. Thyroid hormone regulation of transcription factors involved in malic enzyme gene expression. Journal of Biological Chemistry. 1989;264:11483–11490. PubMed
Reitzel AM, Pang K, Ryan JF, Mullikin JC, Martindale MQ, Baxevanis AD, Tarrant AM. Nuclear receptors from the ctenophore Mnemiopsis leidyi lack a zinc-finger DNA-binding domain: lineage-specific loss or ancestral condition in the emergence of the nuclear receptor superfamily? Evodevo. 2011;2 doi: 10.1186/2041-9139-2-3. Article 3. PubMed DOI PMC
Reitzel AM, Tarrant AM. Nuclear receptor complement of the cnidarian Nematostella vectensis: phylogenetic relationships and developmental expression patterns. BMC Evolutionary Biology. 2009;9 doi: 10.1186/1471-2148-9-230. Article 230. PubMed DOI PMC
Robinson-Rechavi M, Escriva Garcia H, Laudet V. The nuclear receptor superfamily. Journal of Cell Science. 2003;116:585–586. doi: 10.1242/jcs.00247. PubMed DOI
Ruhl R, Krzyzosiak A, Niewiadomska-Cimicka A, Rochel N, Szeles L, Vaz B, Wietrzych-Schindler M, Alvarez S, Szklenar M, Nagy L, De Lera AR, Krezel W. 9-cis-13,14-dihydroretinoic acid is an endogenous retinoid acting as RXR ligand in mice. PLOS Genetics. 2015;11:e1005213. doi: 10.1371/journal.pgen.1005213. PubMed DOI PMC
Schierwater, Holland PWH, Miller DJ, Stadler PF, Wiegmann BM, Wörheide G, Wray GA, DeSalle R. Never Ending Analysis of a Century Old Evolutionary Debate: “Unringing” the Urmetazoon Bell. Frontiers in Ecology and Evolution. 2016;4 doi: 10.3389/fevo.2016.00005. Article 5. DOI
Schierwater B, Kolokotronis SO, Eitel M, DeSalle R. The Diploblast-Bilateria Sister hypothesis: parallel revolution of a nervous systems may have been a simple step. Communicative & Integrative Biology. 2009;2:403–405. PubMed PMC
Schultz J, Milpetz F, Bork P, Ponting CP. SMART, a simple modular architecture research tool: identification of signaling domains. Proceedings of the National Academy of Sciences of the United States of America. 1998;95:5857–5864. PubMed PMC
Shalchian-Tabrizi K, Minge MA, Espelund M, Orr R, Ruden T, Jakobsen KS, Cavalier-Smith T. Multigene phylogeny of choanozoa and the origin of animals. PLOS ONE. 2008;3:e2098. doi: 10.1371/journal.pone.0002098. PubMed DOI PMC
Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, Li W, Lopez R, McWilliam H, Remmert M, Soding J, Thompson JD, Higgins DG. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Molecular Systems Biology. 2011;7 doi: 10.1038/msb.2011.75. Article 539. PubMed DOI PMC
Smith CL, Giordano H, Schwartz M, DeLotto R. Spatial regulation of Drosophila snake protease activity in the generation of dorsal-ventral polarity. Development. 1995;121:4127–4135. PubMed
Smith CL, Varoqueaux F, Kittelmann M, Azzam RN, Cooper B, Winters CA, Eitel M, Fasshauer D, Reese TS. Novel cell types, neurosecretory cells, and body plan of the early-diverging metazoan Trichoplax adhaerens. Current Biology. 2014;24:1565–1572. doi: 10.1016/j.cub.2014.05.046. PubMed DOI PMC
Srivastava M, Begovic E, Chapman J, Putnam NH, Hellsten U, Kawashima T, Kuo A, Mitros T, Salamov A, Carpenter ML, Signorovitch AY, Moreno MA, Kamm K, Grimwood J, Schmutz J, Shapiro H, Grigoriev IV, Buss LW, Schierwater B, Dellaporta SL, Rokhsar DS. The Trichoplax genome and the nature of placozoans. Nature. 2008;454:955–960. PubMed
Stein DS, Stevens LM. Maternal control of the Drosophila dorsal-ventral body axis. Wiley Interdisciplinary Reviews: Developmental Biology. 2014;3:301–330. doi: 10.1002/wdev.138. PubMed DOI PMC
Tata JR. Autoregulation and crossregulation of nuclear receptor genes. Trends in Endocrinology and Metabolism. 1994;5:283–290. PubMed
Thakur JK, Arthanari H, Yang F, Pan SJ, Fan X, Breger J, Frueh DP, Gulshan K, Li DK, Mylonakis E, Struhl K, Moye-Rowley WS, Cormack BP, Wagner G, Naar AM. A nuclear receptor-like pathway regulating multidrug resistance in fungi. Nature. 2008;452:604–609. doi: 10.1038/nature06836. PubMed DOI
Tran P, Zhang XK, Salbert G, Hermann T, Lehmann JM, Pfahl M. COUP orphan receptors are negative regulators of retinoic acid response pathways. Molecular and Cellular Biology. 1992;12:4666–4676. PubMed PMC
Wente W, Brenner MB, Zitzer H, Gromada J, Efanov AM. Activation of liver X receptors and retinoid X receptors induces growth arrest and apoptosis in insulin-secreting cells. Endocrinology. 2007;148:1843–1849. doi: 10.1210/en.2006-1247. PubMed DOI
Wolf G. Is 9-cis-retinoic acid the endogenous ligand for the retinoic acid-X receptor? Nutrition Reviews. 2006;64:532–538. doi: 10.1111/j.1753-4887.2006.tb00186.x. PubMed DOI
Wu W, Niles EG, LoVerde PT. Thyroid hormone receptor orthologues from invertebrate species with emphasis on Schistosoma mansoni. BMC Evolutionary Biology. 2007;7:150. doi: 10.1186/1471-2148-7-150. PubMed DOI PMC