Singlet Oxygen in Plants: Generation, Detection, and Signaling Roles
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Transparent Photochemistry: Infrared Photosensitizers and Singlet Oxygen Microscopy
Transparent Photochemistry: Infrared photosensitizers and singlet oxygen microscopy Elsa Fernanda Freitas da Silva Tese orientada por: Luís Guilherme da Silva Arnaut Moreira e Peter Remsen Ogilby Universidade de Coimbra Tese de Doutoramento em Química, especialidade Fotoquímica apresentada ao Departamento de Química da Faculdade de Ciências e tecnologia da Universidade de Coimbra. Coimbra, Julho de 2013 Acknowledgements This dissertation is the result of joint efforts, collaborations and help by many people. I want to express my appreciation to my supervisor, Professor Luis G. Arnaut, for his guidance, support and availability. His enthusiasm with science and motivation are an example to me. It has been a great pleasure to work in his group. To my group of colleagues in Coimbra: Rui Nunes, Gonçalo Sá, Ligia Silva, Hélder Tão, I want to thank you all for the support and fellowship. Specially, I want to thank Carlos Serpa for his availability to help and assistance me with the laser systems and, Fábio Schaberle for his assistance with photoacoustic calorimetry experiments and for been actively interested on my work providing me with great comments that were valued greatly. My special thanks to Professor Peter R. Ogilby for accepting to be my co-supervisor and give me the opportunity to work with different techniques in his laboratory in the University of Aarhus in Denmark. Peter valuable suggestions have greatly improved my scientific work. I have had a great time working in COMIs group. I want to thank all COMI group members whom I have encountered during my stay, for their great support and welcoming. Brian Wett for walking me through the laboratory on my first times. -
States of Oxygen Liquid and Singlet Oxygen Photodynamic Therapy
Oxygen States of Oxygen As far as allotropes go, oxygen as an element is fairly uninteresting, with ozone (O3, closed-shell and C2v symmetric like SO2) and O2 being the stable molecular forms. Most of our attention today will be devoted to the O2 molecule that is so critically connected with life on Earth. 2 2 2 4 2 O2 has the following valence electron configuration: (1σg) (1σu) (2σg) (1πu) (1πg) . It is be- cause of the presence of only two electrons in the two π* orbitals labelled 1πg that oxygen is paramagnetic with a triplet (the spin multiplicity \triplet" is given by 2S+1; here S, the total spin quantum number, is 0.5 + 0.5 = 1). There are six possible ways to arrange the two electrons in the two degenerate π* orbitals. These different ways of arranging the electrons in the open shell are called \microstates". Further, because there are six microstates, we can say that the total degeneracy of the electronic states 2 3 − arising from (1πg) configuration must be equal to six. The ground state of O2 is labeled Σg , the left superscript 3 indicating that this is a triplet state. It is singly degenerate orbitally and triply degenerate in terms of spin multiplicity; the total degeneracy (three for the ground state) is given by the spin times the orbital degeneracy. 1 The first excited state of O2 is labeled ∆g, and this has a spin degeneracy of one and an orbital degeneracy of two for a total degeneracy of two. This state corresponds to spin pairing of the electrons in the same π* orbital. -
Comparing the Reaction Mechanism of Dark-Operative Protochlorophyllide
With or without light: comparing the reaction mechanism of dark-operative protochlorophyllide oxidoreductase with the energetic requirements of the light-dependent protochlorophyllide oxidoreductase Pedro J. Silva REQUIMTE, Faculdade de Cienciasˆ da Saude,´ Universidade Fernando Pessoa, Rua Carlos da Maia, Porto, Portugal ABSTRACT The addition of two electrons and two protons to the C17DC18 bond in protochloro- phyllide is catalyzed by a light-dependent enzyme relying on NADPH as electron donor, and by a light-independent enzyme bearing a .Cys/3Asp-ligated [4Fe–4S] cluster which is reduced by cytoplasmic electron donors in an ATP-dependent manner and then functions as electron donor to protochlorophyllide. The precise sequence of events occurring at the C17DC18 bond has not, however, been determined experimentally in the dark-operating enzyme. In this paper, we present the computational investigation of the reaction mechanism of this enzyme at the B3LYP/6-311CG(d,p)//B3LYP/6-31G(d) level of theory. The reaction mechanism begins with single-electron reduction of the substrate by the .Cys/3Asp-ligated [4Fe–4S], yielding a negatively-charged intermediate. Depending on the rate of Fe–S cluster re-reduction, the reaction either proceeds through double protonation of the single-electron-reduced substrate, or by alternating proton/electron transfer. The computed reaction barriers suggest that Fe–S cluster re-reduction should be Submitted 24 March 2014 the rate-limiting stage of the process. Poisson–Boltzmann computations on the Accepted 9 August 2014 full enzyme–substrate complex, followed by Monte Carlo simulations of redox Published 2 September 2014 and protonation titrations revealed a hitherto unsuspected pH-dependence of the Corresponding author reaction potential of the Fe–S cluster. -
The Photochemistry of Tetramethyl-3-Thio-1,3-Cyclobutanedione
South Dakota State University Open PRAIRIE: Open Public Research Access Institutional Repository and Information Exchange Electronic Theses and Dissertations 1972 The Photochemistry of tetramethyl-3-thio-1,3-cyclobutanedione Mason Ming-Sun Shen Follow this and additional works at: https://openprairie.sdstate.edu/etd Recommended Citation Shen, Mason Ming-Sun, "The Photochemistry of tetramethyl-3-thio-1,3-cyclobutanedione" (1972). Electronic Theses and Dissertations. 4833. https://openprairie.sdstate.edu/etd/4833 This Thesis - Open Access is brought to you for free and open access by Open PRAIRIE: Open Public Research Access Institutional Repository and Information Exchange. It has been accepted for inclusion in Electronic Theses and Dissertations by an authorized administrator of Open PRAIRIE: Open Public Research Access Institutional Repository and Information Exchange. For more information, please contact [email protected]. THE PHarOCHEMISTRY OF TETRAMETHYL-3-THIO-l,J-CYCLOBUTANEDIONE BY MASON MING-SUN SHEN A thesis submitted in partial fulfillment of the requirements for tne degree Master of Science, Major - in Chemistry, South Dakota State University 1972 SOUTH DAKOTA STATE UNIVERSITY LIBRAR fer -th:Ls -7 - - -- -07 - D;;;/:...; TO MY PARENTS PHOTOCHEMISTRY OF THE TETRAMETHYL-)-THI0-1,)-CYCLOBUTANEDIONE Abstract MASON MING-SUN SHEN Under the supervision of Professor James J. Worman photochemical reaction of tetramethyl-3-thio-i.l,3-cyclo The butanedione in the presence of oxygen and light yields tetramethyl-1, )-cyclobutanedione and sulfur dioxide. kinetics and mechanism of the reaction have been studied The thoroughly in different solvents and at different concentrations. Results this study indicate that the mechanism probably involves· of singlet oxygen and state thione although triplet thione and ground triplet xygen are not completely eliminated. -
Oxygen - Wikipedia
5/20/2020 Oxygen - Wikipedia Oxygen Oxygen is the chemical element with the symbol O and atomic number 8. It is a member of the chalcogen group in Oxygen, 8O the periodic table, a highly reactive nonmetal, and an oxidizing agent that readily forms oxides with most elements as well as with other compounds. After hydrogen and helium, oxygen is the third-most abundant element in the universe by mass. At standard temperature and pressure, two atoms of the element bind to form dioxygen, a colorless and odorless diatomic gas with the formula O2. Diatomic oxygen gas constitutes 20.95% of the Earth's atmosphere. As compounds including oxides, the element makes up almost half of the Earth's crust.[2] Liquid oxygen boiling Dioxygen provides the energy released in combustion[3] and Oxygen aerobic cellular respiration,[4] and many major classes of Allotropes O2, O3 (ozone) organic molecules in living organisms contain oxygen atoms, such as proteins, nucleic acids, carbohydrates, and fats, as do Appearance gas: colorless the major constituent inorganic compounds of animal shells, liquid and solid: pale teeth, and bone. Most of the mass of living organisms is blue oxygen as a component of water, the major constituent of Standard atomic [15.999 03, 15.999 77] lifeforms. Oxygen is continuously replenished in Earth's weight A (O) conventional: 15.999 atmosphere by photosynthesis, which uses the energy of r, std sunlight to produce oxygen from water and carbon dioxide. Oxygen in the periodic table Oxygen is too chemically reactive to remain a free element in H H – air without being continuously replenished by the LB BCNOFN ↑ SM ASPSCA photosynthetic action of living organisms. -
Inorganic Chemistry/Chemical Bonding/MO Diagram 1
Inorganic Chemistry/Chemical Bonding/MO Diagram 1 Inorganic Chemistry/Chemical Bonding/MO Diagram A molecular orbital diagram or MO diagram for short is a qualitative descriptive tool explaining chemical bonding in molecules in terms of molecular orbital theory in general and the Linear combination of atomic orbitals molecular orbital method (LCAO method) in particular [1] [2] [3] . This tool is very well suited for simple diatomic molecules such as dihydrogen, dioxygen and carbon monoxide but becomes more complex when discussing polynuclear molecules such as methane. It explains why some molecules exist and not others, how strong bonds are, and what electronic transitions take place. Dihydrogen MO diagram The smallest molecule, hydrogen gas exists as dihydrogen (H-H) with a single covalent bond between two hydrogen atoms. As each hydrogen atom has a single 1s atomic orbital for its electron, the bond forms by overlap of these two atomic orbitals. In figure 1 the two atomic orbitals are depicted on the left and on the right. The vertical axis always represents the orbital energies. The atomic orbital energy correlates with electronegativity as a more electronegative atom holds an electron more tightly thus lowering its energy. MO treatment is only valid when the atomic orbitals have comparable energy; when they differ greatly the mode of bonding becomes ionic. Each orbital is singly occupied with the up and down arrows representing an electron. The two AO's can overlap in two ways depending on their phase relationship. The phase of an orbital is a direct consequence of the oscillating, wave-like properties of electrons. -
Surprising Roles for Bilins in a Green Alga Jean-David Rochaix1 Departments of Molecular Biology and Plant Biology, University of Geneva,1211 Geneva, Switzerland
COMMENTARY COMMENTARY Surprising roles for bilins in a green alga Jean-David Rochaix1 Departments of Molecular Biology and Plant Biology, University of Geneva,1211 Geneva, Switzerland It is well established that the origin of plastids which serves as chromophore of phyto- can be traced to an endosymbiotic event in chromes (Fig. 1). An intriguing feature of which a free-living photosynthetic prokaryote all sequenced chlorophyte genomes is that, invaded a eukaryotic cell more than 1 billion although they lack phytochromes, their years ago. Most genes from the intruder genomes encode two HMOXs, HMOX1 were gradually transferred to the host nu- andHMOX2,andPCYA.InPNAS,Duanmu cleus whereas a small number of these genes et al. (6) investigate the role of these genes in were maintained in the plastid and gave the green alga Chlamydomonas reinhardtii rise to the plastid genome with its associated and made unexpected findings. protein synthesizing system. The products of Duanmu et al. first show that HMOX1, many of the genes transferred to the nucleus HMOX2, and PCYA are catalytically active were then retargeted to the plastid to keep it and produce bilins in vitro (6). They also functional. Altogether, approximately 3,000 demonstrate in a very elegant way that these nuclear genes in plants and algae encode proteins are functional in vivo by expressing plastid proteins, whereas chloroplast ge- a cyanobacteriochrome in the chloroplast Fig. 1. Tetrapyrrole biosynthetic pathways. The heme nomes contain between 100 and 120 genes of C. reinhardtii, where, remarkably, the and chlorophyll biosynthetic pathways diverge at pro- (1). A major challenge for eukaryotic pho- photoreceptor is assembled with bound toporphyrin IX (ProtoIX). -
Supramolecular Control of Singlet Oxygen Generation
molecules Review Supramolecular Control of Singlet Oxygen Generation Akshay Kashyap 1, Elamparuthi Ramasamy 2, Vijayakumar Ramalingam 3 and Mahesh Pattabiraman 1,* 1 Department of Chemistry, University of Nebraska Kearney, Kearney, NE 68849, USA; [email protected] 2 Department of Chemistry and Biochemistry, The University of Texas at Arlington, Arlington, TX 76019, USA; [email protected] 3 Department of Biology and Chemistry, SUNY Polytechnic Institute, Utica, NY 13502, USA; [email protected] * Correspondence: [email protected] 1 Abstract: Singlet oxygen ( O2) is the excited state electronic isomer and a reactive form of molecu- lar oxygen, which is most efficiently produced through the photosensitized excitation of ambient triplet oxygen. Photochemical singlet oxygen generation (SOG) has received tremendous attention historically, both for its practical application as well as for the fundamental aspects of its reactivity. Applications of singlet oxygen in medicine, wastewater treatment, microbial disinfection, and syn- thetic chemistry are the direct results of active past research into this reaction. Such advancements were achieved through design factors focused predominantly on the photosensitizer (PS), whose photoactivity is relegated to self-regulated structure and energetics in ground and excited states. However, the relatively new supramolecular approach of dictating molecular structure through non-bonding interactions has allowed photochemists to render otherwise inactive or less effective 1 PSs as efficient O2 generators. This concise and first of its kind review aims to compile progress in SOG research achieved through supramolecular photochemistry in an effort to serve as a refer- ence for future research in this direction. The aim of this review is to highlight the value in the Citation: Kashyap, A.; Ramasamy, E.; supramolecular photochemistry approach to tapping the unexploited technological potential within Ramalingam, V.; Pattabiraman, M. -
Chromophores in Photomorphogenesis W
Encyclopedia of Plant Physiolo New Series Volume 16 A Editors A.Pirson, Göttingen M.H.Zimmermann, Harvard Photo- morphogenesis Edited by W. Shropshire, Jr. and H. Möhr Contributors K. Apel M. Black A.E. Canham J.A. De Greef M.J. Dring H. Egnéus B. Frankland H. Frédéricq L. Fukshansky M. Furuya V. Gaba A.W. Galston J. Gressel W. Haupt S.B. Hendricks M.G. Holmes M. Jabben H. Kasemir C. J.Lamb M.A. Lawton K. Lüning A.L. Mancinelli H. Möhr D.C.Morgan L.H.Pratt P.H.Quail R.H.Racusen W. Rau W. Rüdiger E. Schäfer H. Scheer J.A. Schiff P. Schopfer S. D. Schwartzbach W. Shropshire, Jr. H. Smith W.O. Smith R. Taylorson W.J. VanDerWoude D. Vince-Prue H.I. Virgin E. Wellmann With 173 Figures Springer-Verlag Berlin Heidelberg New York Tokyo 1983 Univers;:^.'::- Bibüw i-,L* München W. SHROPSHIRE, JR. Smithsonian Institution Radiation Biology Laboratory 12441 Parklawn Drive Rockville, MD 20852/USA H. MOHR Biologisches Institut II der Universität Lehrstuhl für Botanik Schänzlestr. 1 D-7800 Freiburg/FRG ISBN 3-540-12143-9 (in 2 Bänden) Springer-Verlag Berlin Heidelberg New York Tokyo ISBN 0-387-12143-9 (in 2 Volumes) Springer-Verlag New York Heidelberg Berlin Tokyo Library of Congress Cataloging in Publication Data. Main entry under title: Pholomorphogcncsis. (Encyclo• pedia of plant physiology; new ser., v. 16) Includes indexes. 1. Plants Photomorphogenesis Addresses, essays, lectures. I. Shropshire, Walter. II. Mohr, Hans, 1930. III. Apel, K. IV. Scries. QK711.2.E5 vol. 16 581.1s [581.L9153] 83-10615 [QK757] ISBN 0-387-12143-9 (U.S.). -
Mechanochemical Generation of Singlet Oxygen†
RSC Advances View Article Online PAPER View Journal | View Issue Mechanochemical generation of singlet oxygen† a a a a Cite this: RSC Adv., 2020, 10,9182 Abdurrahman Turksoy,‡ Deniz Yildiz, ‡ Simay Aydonat, ‡ Tutku Beduk, Merve Canyurt,a Bilge Baytekin*a and Engin U. Akkaya *b Controlled generation of singlet oxygen is very important due to its involvement in scheduled cellular maintenance processes and therapeutic potential. As a consequence, precise manipulation of singlet oxygen release rates under mild conditions, is crucial. In this work, a cross-linked polyacrylate, and a polydimethylsiloxane elastomer incorporating anthracene-endoperoxide modules with chain extensions at the 9,10-positions were synthesized. We now report that on mechanical agitation in Received 28th January 2020 cryogenic ball mill, fluorescence emission due to anthracene units in the PMA (polymethacrylate) Accepted 21st February 2020 polymer is enhanced, with a concomitant generation of singlet oxygen as proved by detection with DOI: 10.1039/d0ra00831a a selective probe. The PDMS (polydimethylsiloxane) elastomer with the anthracene endoperoxide rsc.li/rsc-advances mechanophore, is also similarly sensitive to mechanical force. Creative Commons Attribution-NonCommercial 3.0 Unported Licence. Introduction The stability of the endoperoxides differ widely, and in a large number of 2-pyridone, naphthalene and anthracene Singlet oxygen refers to the lowest energy excited state of the endoperoxides, high yield release of singlet oxygen without side 8 molecular oxygen. Since the direct excitation of the ground state reactions was documented. As a matter of fact, the diversity in oxygen is forbidden by spin, symmetry and parity rules, it is the rates of cycloreversion reactions may eventually prove to be most commonly generated by photosensitization, making use very useful for ne tuning a biologically relevant singlet oxygen of the intermediacy of photosensitizer organic compounds with release. -
Cubic C8: an Observable Allotrope of Carbon?
1 This is the peer reviewed version of the following article: Sharapa, D., Hirsch, A., Meyer, B. and Clark, T. (2015), Cubic C8: An Observable Allotrope of Carbon?. ChemPhysChem. doi: 10.1002/cphc.201500230, which has been published in final form at http://onlinelibrary.wiley.com/doi/10.1002/cphc.201500230/abstract?userIsAuthentica ted=false&deniedAccessCustomisedMessage=. This article may be used for non- commercial purposes in accordance With Wiley-VCH Terms and Conditions for self- archiving Cubic C8: An observable allotrope of carbon? Dmitry Sharapa[a], Andreas Hirsch[b], Bernd Meyer[a],[c] and Timothy Clark*[a],[d] Abstract: Ab initio and density-functional theory calculations have been used to investigate the structure, electronic properties, spectra and reactivity of cubic C8, which is predicted to be aromatic by Hirsch’s rule. Although highly strained and with a small amount of diradical character, the carbon cube represents a surprisingly deep minimum and should therefore be observable as an isolated molecule. It is, however, very reactive, both with itself and triplet oxygen. Calculated infrared, Raman and UV/vis spectra are provided to aid identification of cubic C8 should it be synthesised. [a] Prof. T. Clark, Prof. B. Meyer, D. Sharapa Computer-Chemie-Centrum, Department Chemie und Pharmazie Friedrich-Alexander-Universität Erlangen-Nürnberg Nägelsbachstraße 25, 91052 Erlangen, Germany. E-mail: [email protected] [b] Prof. A. Hirsch Lehrstuhl für Organische Chemie II, Department Chemie und Pharmazie Friedrich-Alexander-Universität Erlangen-Nürnberg Henkestrasse 42, 91054 Erlangen, Germany. [c] Prof. B. Meyer Interdisciplinary Center for Molecular Materials Friedrich-Alexander-Universität Erlangen-Nürnberg Nägelsbachstraße 25, 91052 Erlangen, Germany. -
Photoactivity and Optical Applications of Organic Materials Containing Selenium and Tellurium Cite This: Chem
Chemical Science View Article Online MINIREVIEW View Journal | View Issue Photoactivity and optical applications of organic materials containing selenium and tellurium Cite this: Chem. Sci.,2019,10,9182 a ab All publication charges for this article Gabrielle C. Hoover and Dwight S. Seferos * have been paid for by the Royal Society of Chemistry Sulfur-containing compounds, particularly derivatives of thiophene, are well studied for organic optoelectronic applications. Incorporating selenium or tellurium in place of sulfur imparts different physical properties due to the fundamental differences of these atoms relative to their lighter analogues. This has a profound influence on the properties of molecules and materials that incorporate chalcogens Received 23rd August 2019 that may ultimately lead to new opportunities and applications. This mini-review will focus on the Accepted 18th September 2019 quantitative and qualitative photophysical characteristics of organic materials containing selenium and DOI: 10.1039/c9sc04279b tellurium as well as their emerging applications as molecular photoactive species, including light- rsc.li/chemical-science emitting sensors, triplet sensitizers, and beyond. Creative Commons Attribution 3.0 Unported Licence. 1. Introduction has focused on semiconductor lms or nanocrystals such as CdSe or PbSe quantum dots or CdTe.6–12 In between lie classes of The chalcogens (O, S, Se, and Te) have attracted considerable organochalcogens, where selenium and tellurium have been attention for materials applications in the last few decades. In judiciously placed into otherwise organic materials. Such 13 14 the polymer electronics communities substantial attention has materials have been used as photovoltaics, transistors, 15 16 focused on the synthesis and properties of polythiophenes and thermoelectric generators, light emitting devices, and 17 their derivatives.1–5 In the inorganic materials space, much work sensors.