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Garcia-Iriepa C, Marazzi M, Navizet I. The role of CO 2 detachment in fungal bioluminescence: thermally vs. excited state induced pathways. Phys Chem Chem Phys 2020; 22:26787-26795. [PMID: 33211036 DOI: 10.1039/d0cp05037g] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Different fungi lineages are known to emit light on Earth, mainly in tropical climates. Although the preparation of bioluminescent cell-free extracts allowed one to characterize the enzymatic requirements, the molecular mechanism underlying luminescence is still largely unknown and is based on the experimental putative assumption that a high-energy intermediate should be formed by reaction with O2 and formation of an endoperoxide. Here, we aim at determining, through state-of-the-art multiconfigurational quantum chemistry, the full mechanistic landscape leading from the endoperoxide to the emitting species, envisaging different possible pathways and proposing their viability. Especially, thermal CO2 detachment followed by excited-state peroxide opening (thermal-chemiluminescence) can compete with a parallel pathway, i.e., first excited-state endoperoxide opening, followed by CO2 detachment on the same excited-state (excited state-chemiluminescence). Clear differences in the energy supplies, as well as the possibility to directly populate the emitting species from the intersection seam between ground and excited states, land credence to a kinetically efficient thermal-chemiluminescent pathway, establishing for the first time a detailed description of fungal bioluminescence.
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Affiliation(s)
- Cristina Garcia-Iriepa
- Laboratoire Modélisation et Simulation Multi Échelle (MSME) UMR 8208, CNRS, UPEC, UPEM, Université Paris-Est, F-77454 Marne-la-Vallée, France
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Fajardo C, De Donato M, Rodulfo H, Martinez-Rodriguez G, Costas B, Mancera JM, Fernandez-Acero FJ. New Perspectives Related to the Bioluminescent System in Dinoflagellates: Pyrocystis lunula, a Case Study. Int J Mol Sci 2020; 21:E1784. [PMID: 32150894 PMCID: PMC7084563 DOI: 10.3390/ijms21051784] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2020] [Revised: 02/19/2020] [Accepted: 03/03/2020] [Indexed: 11/22/2022] Open
Abstract
Pyrocystis lunula is considered a model organism due to its bioluminescence capacity linked to circadian rhythms. The mechanisms underlying the bioluminescent phenomenon have been well characterized in dinoflagellates; however, there are still some aspects that remain an enigma. Such is the case of the presence and diversity of the luciferin-binding protein (LBP), as well as the synthesis process of luciferin. Here we carry out a review of the literature in relation to the molecular players responsible for bioluminescence in dinoflagellates, with particular interest in P. lunula. We also carried out a phylogenetic analysis of the conservation of protein sequence, structure and evolutionary pattern of these key players. The basic structure of the luciferase (LCF) is quite conserved among the sequences reported to date for dinoflagellate species, but not in the case of the LBP, which has proven to be more variable in terms of sequence and structure. In the case of luciferin, its synthesis has been shown to be complex process with more than one metabolic pathway involved. The glutathione S-transferase (GST) and the P630 or blue compound, seem to be involved in this process. In the same way, various hypotheses regarding the role of bioluminescence in dinoflagellates are exposed.
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Affiliation(s)
- Carlos Fajardo
- Microbiology Laboratory, Institute of Viticulture and Agri-food Research (IVAGRO), Environmental and Marine Sciences Faculty. University of Cadiz (UCA), 11510 Puerto Real, Spain;
| | - Marcos De Donato
- Tecnologico de Monterrey, Escuela de Ingenieria y Ciencias, 76130 Queretaro, Mexico; (M.D.D.); (H.R.)
| | - Hectorina Rodulfo
- Tecnologico de Monterrey, Escuela de Ingenieria y Ciencias, 76130 Queretaro, Mexico; (M.D.D.); (H.R.)
| | - Gonzalo Martinez-Rodriguez
- Institute of Marine Sciences of Andalusia (ICMAN), Department of Marine Biology and Aquaculture, Spanish National Research Council (CSIC), 11519 Puerto Real, Spain;
| | - Benjamin Costas
- Interdisciplinary Centre of Marine and Environmental Research of the University of Porto (CIIMAR), 4450-208 Matosinhos, Portugal;
- Institute of Biomedical Sciences Abel Salazar (ICBAS-UP), University of Porto, 4050-313 Porto, Portugal
| | - Juan Miguel Mancera
- Faculty of Marine and Environmental Sciences, Biology Department, University of Cadiz (UCA), 11510 Puerto Real, Spain;
| | - Francisco Javier Fernandez-Acero
- Microbiology Laboratory, Institute of Viticulture and Agri-food Research (IVAGRO), Environmental and Marine Sciences Faculty. University of Cadiz (UCA), 11510 Puerto Real, Spain;
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Vacher M, Fdez Galván I, Ding BW, Schramm S, Berraud-Pache R, Naumov P, Ferré N, Liu YJ, Navizet I, Roca-Sanjuán D, Baader WJ, Lindh R. Chemi- and Bioluminescence of Cyclic Peroxides. Chem Rev 2018; 118:6927-6974. [PMID: 29493234 DOI: 10.1021/acs.chemrev.7b00649] [Citation(s) in RCA: 226] [Impact Index Per Article: 37.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Bioluminescence is a phenomenon that has fascinated mankind for centuries. Today the phenomenon and its sibling, chemiluminescence, have impacted society with a number of useful applications in fields like analytical chemistry and medicine, just to mention two. In this review, a molecular-orbital perspective is adopted to explain the chemistry behind chemiexcitation in both chemi- and bioluminescence. First, the uncatalyzed thermal dissociation of 1,2-dioxetane is presented and analyzed to explain, for example, the preference for triplet excited product states and increased yield with larger nonreactive substituents. The catalyzed fragmentation reaction and related details are then exemplified with substituted 1,2-dioxetanone species. In particular, the preference for singlet excited product states in that case is explained. The review also examines the diversity of specific solutions both in Nature and in artificial systems and the difficulties in identifying the emitting species and unraveling the color modulation process. The related subject of excited-state chemistry without light absorption is finally discussed. The content of this review should be an inspiration to human design of new molecular systems expressing unique light-emitting properties. An appendix describing the state-of-the-art experimental and theoretical methods used to study the phenomena serves as a complement.
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Affiliation(s)
- Morgane Vacher
- Department of Chemistry-Ångström , Uppsala University , P.O. Box 538, SE-751 21 Uppsala , Sweden
| | - Ignacio Fdez Galván
- Department of Chemistry-Ångström , Uppsala University , P.O. Box 538, SE-751 21 Uppsala , Sweden
| | - Bo-Wen Ding
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry , Beijing Normal University , Beijing 100875 , China
| | - Stefan Schramm
- New York University Abu Dhabi , P.O. Box 129188, Abu Dhabi , United Arab Emirates
| | - Romain Berraud-Pache
- Université Paris-Est , Laboratoire Modélisation et Simulation Multi Échelle, MSME, UMR 8208 CNRS, UPEM , 5 bd Descartes , 77454 Marne-la-Vallée , France
| | - Panče Naumov
- New York University Abu Dhabi , P.O. Box 129188, Abu Dhabi , United Arab Emirates
| | | | - Ya-Jun Liu
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry , Beijing Normal University , Beijing 100875 , China
| | - Isabelle Navizet
- Université Paris-Est , Laboratoire Modélisation et Simulation Multi Échelle, MSME, UMR 8208 CNRS, UPEM , 5 bd Descartes , 77454 Marne-la-Vallée , France
| | - Daniel Roca-Sanjuán
- Institut de Ciència Molecular , Universitat de València , P.O. Box 22085 , Valencia , Spain
| | - Wilhelm J Baader
- Departamento de Química Fundamental, Instituto de Química , Universidade de São Paulo , Av. Prof. Lineu Prestes, 748 , 05508-000 São Paulo , SP , Brazil
| | - Roland Lindh
- Department of Chemistry-Ångström , Uppsala University , P.O. Box 538, SE-751 21 Uppsala , Sweden.,Department of Chemistry and Chemical Biology , Harvard University , 12 Oxford Street , Cambridge , Massachusetts 02138 , United States
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Donnan PH, Ngo PD, Mansoorabadi SO. Constant pH Accelerated Molecular Dynamics Investigation of the pH Regulation Mechanism of Dinoflagellate Luciferase. Biochemistry 2017; 57:295-299. [PMID: 29131583 DOI: 10.1021/acs.biochem.7b00873] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The bioluminescence reaction in dinoflagellates involves the oxidation of an open-chain tetrapyrrole by the enzyme dinoflagellate luciferase (LCF). The activity of LCF is tightly regulated by pH, where the enzyme is essentially inactive at pH ∼8 and optimally active at pH ∼6. Little is known about the mechanism of LCF or the structure of the active form of the enzyme, although it has been proposed that several intramolecularly conserved histidine residues in the N-terminal region are important for the pH regulation mechanism. Here, constant pH accelerated molecular dynamics was employed to gain insight into the conformational activation of LCF induced by acidification.
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Affiliation(s)
- Patrick H Donnan
- Department of Chemistry and Biochemistry, Auburn University , 179 Chemistry Building, Auburn, Alabama 36849, United States
| | - Phong D Ngo
- Department of Chemistry and Biochemistry, Auburn University , 179 Chemistry Building, Auburn, Alabama 36849, United States
| | - Steven O Mansoorabadi
- Department of Chemistry and Biochemistry, Auburn University , 179 Chemistry Building, Auburn, Alabama 36849, United States
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