1
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Margetts BM, Stuart‐Fox D, Franklin AM. Red vision in animals is broadly associated with lighting environment but not types of visual task. Ecol Evol 2024; 14:e10899. [PMID: 38304263 PMCID: PMC10828735 DOI: 10.1002/ece3.10899] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Revised: 12/19/2023] [Accepted: 01/03/2024] [Indexed: 02/03/2024] Open
Abstract
Red sensitivity is the exception rather than the norm in most animal groups. Among species with red sensitivity, there is substantial variation in the peak wavelength sensitivity (λmax) of the long wavelength sensitive (LWS) photoreceptor. It is unclear whether this variation can be explained by visual tuning to the light environment or to visual tasks such as signalling or foraging. Here, we examine long wavelength sensitivity across a broad range of taxa showing diversity in LWS photoreceptor λmax: insects, crustaceans, arachnids, amphibians, reptiles, fish, sharks and rays. We collated a list of 161 species with physiological evidence for a photoreceptor sensitive to red wavelengths (i.e. λmax ≥ 550 nm) and for each species documented abiotic and biotic factors that may be associated with peak sensitivity of the LWS photoreceptor. We found evidence supporting visual tuning to the light environment: terrestrial species had longer λmax than aquatic species, and of these, species from turbid shallow waters had longer λmax than those from clear or deep waters. Of the terrestrial species, diurnal species had longer λmax than nocturnal species, but we did not detect any differences across terrestrial habitats (closed, intermediate or open). We found no association with proxies for visual tasks such as having red morphological features or utilising flowers or coral reefs. These results support the emerging consensus that, in general, visual systems are broadly adapted to the lighting environment and diverse visual tasks. Links between visual systems and specific visual tasks are commonly reported, but these likely vary among species and do not lead to general patterns across species.
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Affiliation(s)
- Bryony M. Margetts
- School of BioSciencesThe University of MelbourneParkvilleVictoriaAustralia
| | - Devi Stuart‐Fox
- School of BioSciencesThe University of MelbourneParkvilleVictoriaAustralia
| | - Amanda M. Franklin
- School of BioSciencesThe University of MelbourneParkvilleVictoriaAustralia
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2
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Mat A, Vu HH, Wolf E, Tessmar-Raible K. All Light, Everywhere? Photoreceptors at Nonconventional Sites. Physiology (Bethesda) 2024; 39:0. [PMID: 37905983 DOI: 10.1152/physiol.00017.2023] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2023] [Revised: 10/29/2023] [Accepted: 10/29/2023] [Indexed: 11/02/2023] Open
Abstract
One of the biggest environmental alterations we have made to our species is the change in the exposure to light. During the day, we typically sit behind glass windows illuminated by artificial light that is >400 times dimmer and has a very different spectrum than natural daylight. On the opposite end are the nights that are now lit up by several orders of magnitude. This review aims to provide food for thought as to why this matters for humans and other animals. Evidence from behavioral neuroscience, physiology, chronobiology, and molecular biology is increasingly converging on the conclusions that the biological nonvisual functions of light and photosensory molecules are highly complex. The initial work of von Frisch on extraocular photoreceptors in fish, the identification of rhodopsins as the molecular light receptors in animal eyes and eye-like structures and cryptochromes as light sensors in nonmammalian chronobiology, still allowed for the impression that light reception would be a relatively restricted, localized sense in most animals. However, light-sensitive processes and/or sensory proteins have now been localized to many different cell types and tissues. It might be necessary to consider nonlight-responding cells as the exception, rather than the rule.
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Affiliation(s)
- Audrey Mat
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- VIPS2, Vienna BioCenter, Vienna, Austria
| | - Hong Ha Vu
- Institute of Molecular Physiology, Johannes Gutenberg-University, Mainz, Germany
| | - Eva Wolf
- Institute of Molecular Physiology, Johannes Gutenberg-University, Mainz, Germany
- Institute of Molecular Biology, Mainz, Germany
| | - Kristin Tessmar-Raible
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research, Bremerhaven, Germany
- Carl-von-Ossietzky University, Oldenburg, Germany
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3
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Gastineau R, Otis C, Boyle B, Lemieux C, Turmel M, St-Cyr J, Koken M. The mitochondrial genome of the bioluminescent fish Malacosteus niger Ayres, 1848 (Stomiidae, Actinopterygii) is large and complex, and contains an inverted-repeat structure. Zookeys 2023; 1157:177-191. [DOI: 10.3897/zookeys.1157.97921] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2022] [Accepted: 01/17/2023] [Indexed: 04/08/2023] Open
Abstract
We determined the complete mitogenome sequence of the bioluminescent fish Malacosteus niger using long-read sequencing technologies. The 21,263 bp mitogenome features a complex structure with two copies of a 1198-bp inverted-repeat and a region of 2616-bp containing alternating copies of 16 and 26 bp repeat elements. Whole mitogenome phylogenies inferred from both nucleotide and amino-acid datasets place M. niger among Melanostomiinae. The need for additional complete mitogenome sequences from the subfamily Malacosteinae is discussed.
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4
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Zapata F, Nucci M, Castaño O, Marazzi M, Frutos LM. Thermal and Mechanochemical Tuning of the Porphyrin Singlet-Triplet Gap for Selective Energy Transfer Processes: A Molecular Dynamics Approach. J Chem Theory Comput 2021; 17:5429-5439. [PMID: 34351751 PMCID: PMC8919258 DOI: 10.1021/acs.jctc.1c00291] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Molecular dynamics simulations provide fundamental knowledge on the reaction mechanism of a given simulated molecular process. Nevertheless, other methodologies based on the "static" exploration of potential energy surfaces are usually employed to firmly provide the reaction coordinate directly related to the reaction mechanism, as is the case in intrinsic reaction coordinates for thermally activated reactions. Photoinduced processes in molecular systems can also be studied with these two strategies, as is the case in the triplet energy transfer process. Triplet energy transfer is a fundamental photophysical process in photochemistry and photobiology, being for instance involved in photodynamic therapy, when generating the highly reactive singlet oxygen species. Here, we study the triplet energy transfer process between porphyrin, a prototypical energy transfer donor, and different biologically relevant acceptors, including molecular oxygen, carotenoids, and rhodopsin. The results obtained by means of nanosecond time-scale molecular dynamics simulations are compared to the "static" determination of the reaction coordinate for such a thermal process, leading to the distortions determining an effective energy transfer. This knowledge was finally applied to propose porphyrin derivatives for producing the required structural modifications in order to tune their singlet-triplet energy gap, thus introducing a mechanochemical description of the mechanism.
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Affiliation(s)
- Felipe Zapata
- Departamento de Química Analítica, Química Física e Ingeniería Química, Universidad de Alcalá, Ctra. Madrid-Barcelona, Km 33.600, Alcalá de Henares, Madrid E28805, Spain
| | - Martina Nucci
- Departamento de Química Analítica, Química Física e Ingeniería Química, Universidad de Alcalá, Ctra. Madrid-Barcelona, Km 33.600, Alcalá de Henares, Madrid E28805, Spain
| | - Obis Castaño
- Departamento de Química Analítica, Química Física e Ingeniería Química, Universidad de Alcalá, Ctra. Madrid-Barcelona, Km 33.600, Alcalá de Henares, Madrid E28805, Spain
| | - Marco Marazzi
- Departamento de Química Analítica, Química Física e Ingeniería Química, Universidad de Alcalá, Ctra. Madrid-Barcelona, Km 33.600, Alcalá de Henares, Madrid E28805, Spain.,Instituto de Investigación Química "Andrés M. del Rio" (IQAR), Universidad de Alcalá, Ctra. Madrid-Barcelona, Km 33.600, Alcalá de Henares, Madrid E-28805, Spain
| | - Luis Manuel Frutos
- Departamento de Química Analítica, Química Física e Ingeniería Química, Universidad de Alcalá, Ctra. Madrid-Barcelona, Km 33.600, Alcalá de Henares, Madrid E28805, Spain.,Instituto de Investigación Química "Andrés M. del Rio" (IQAR), Universidad de Alcalá, Ctra. Madrid-Barcelona, Km 33.600, Alcalá de Henares, Madrid E-28805, Spain
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5
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Pucci C, Martinelli C, Degl'Innocenti A, Desii A, De Pasquale D, Ciofani G. Light-Activated Biomedical Applications of Chlorophyll Derivatives. Macromol Biosci 2021; 21:e2100181. [PMID: 34212510 DOI: 10.1002/mabi.202100181] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Revised: 06/06/2021] [Indexed: 02/01/2023]
Abstract
Tetrapyrroles are the basis of essential physiological functions in most living organisms. These compounds represent the basic scaffold of porphyrins, chlorophylls, and bacteriochlorophylls, among others. Chlorophyll derivatives, obtained by the natural or artificial degradation of chlorophylls, present unique properties, holding great potential in the scientific and medical fields. Indeed, they can act as cancer-preventing agents, antimutagens, apoptosis inducers, efficient antioxidants, as well as antimicrobial and immunomodulatory molecules. Moreover, thanks to their peculiar optical properties, they can be exploited as photosensitizers for photodynamic therapy and as vision enhancers. Most of these molecules, however, are highly hydrophobic and poorly soluble in biological fluids, and may display undesired toxicity due to accumulation in healthy tissues. The advent of nanomedicine has prompted the development of nanoparticles acting as carriers for chlorophyll derivatives, facilitating their targeted administration with demonstrated applicability in diagnosis and therapy. In this review, the chemical and physical properties of chlorophyll derivatives that justify their usage in the biomedical field, with particular regard to light-activated dynamics are described. Their role as antioxidants and photoactive agents are discussed, introducing the most recent nanomedical applications and focusing on inorganic and organic nanocarriers exploited in vitro and in vivo.
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Affiliation(s)
- Carlotta Pucci
- Istituto Italiano di Tecnologia, Smart Bio-Interfaces, Viale Rinaldo Piaggio 34, Pontedera, Pisa, 56025, Italy
| | - Chiara Martinelli
- Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Politecnico di Milano, Piazza Leonardo da Vinci 32, Milan, 20133, Italy
| | - Andrea Degl'Innocenti
- Istituto Italiano di Tecnologia, Smart Bio-Interfaces, Viale Rinaldo Piaggio 34, Pontedera, Pisa, 56025, Italy
| | - Andrea Desii
- Istituto Italiano di Tecnologia, Smart Bio-Interfaces, Viale Rinaldo Piaggio 34, Pontedera, Pisa, 56025, Italy
| | - Daniele De Pasquale
- Istituto Italiano di Tecnologia, Smart Bio-Interfaces, Viale Rinaldo Piaggio 34, Pontedera, Pisa, 56025, Italy
| | - Gianni Ciofani
- Istituto Italiano di Tecnologia, Smart Bio-Interfaces, Viale Rinaldo Piaggio 34, Pontedera, Pisa, 56025, Italy
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6
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Corbo JC. Vitamin A 1/A 2 chromophore exchange: Its role in spectral tuning and visual plasticity. Dev Biol 2021; 475:145-155. [PMID: 33684435 DOI: 10.1016/j.ydbio.2021.03.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2021] [Accepted: 03/01/2021] [Indexed: 01/20/2023]
Abstract
Vertebrate rod and cone photoreceptors detect light via a specialized organelle called the outer segment. This structure is packed with light-sensitive molecules known as visual pigments that consist of a G-protein-coupled, seven-transmembrane protein known as opsin, and a chromophore prosthetic group, either 11-cis retinal ('A1') or 11-cis 3,4-didehydroretinal ('A2'). The enzyme cyp27c1 converts A1 into A2 in the retinal pigment epithelium. Replacing A1 with A2 in a visual pigment red-shifts its spectral sensitivity and broadens its bandwidth of absorption at the expense of decreased photosensitivity and increased thermal noise. The use of vitamin A2-based visual pigments is strongly associated with the occupation of aquatic habitats in which the ambient light is red-shifted. By modulating the A1/A2 ratio in the retina, an organism can dynamically tune the spectral sensitivity of the visual system to better match the predominant wavelengths of light in its environment. As many as a quarter of all vertebrate species utilize A2, at least during a part of their life cycle or under certain environmental conditions. A2 utilization therefore represents an important and widespread mechanism of sensory plasticity. This review provides an up-to-date account of the A1/A2 chromophore exchange system.
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Affiliation(s)
- Joseph C Corbo
- Department of Pathology and Immunology, Washington University School of Medicine, St. Louis, 63110, United States.
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7
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Zweifel NO, Hartmann MJZ. Defining "active sensing" through an analysis of sensing energetics: homeoactive and alloactive sensing. J Neurophysiol 2020; 124:40-48. [PMID: 32432502 DOI: 10.1152/jn.00608.2019] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
The term "active sensing" has been defined in multiple ways. Most strictly, the term refers to sensing that uses self-generated energy to sample the environment (e.g., echolocation). More broadly, the definition includes all sensing that occurs when the sensor is moving (e.g., tactile stimuli obtained by an immobile versus moving fingertip) and, broader still, includes all sensing guided by attention or intent (e.g., purposeful eye movements). The present work offers a framework to help disambiguate aspects of the "active sensing" terminology and reveals properties of tactile sensing unique among all modalities. The framework begins with the well-described "sensorimotor loop," which expresses the perceptual process as a cycle involving four subsystems: environment, sensor, nervous system, and actuator. Using system dynamics, we examine how information flows through the loop. This "sensory-energetic loop" reveals two distinct sensing mechanisms that subdivide active sensing into homeoactive and alloactive sensing. In homeoactive sensing, the animal can change the state of the environment, while in alloactive sensing the animal can alter only the sensor's configurational parameters and thus the mapping between input and output. Given these new definitions, examination of the sensory-energetic loop helps identify two unique characteristics of tactile sensing: 1) in tactile systems, alloactive and homeoactive sensing merge to a mutually controlled sensing mechanism, and 2) tactile sensing may require fundamentally different predictions to anticipate reafferent input. We expect this framework may help resolve ambiguities in the active sensing community and form a basis for future theoretical and experimental work regarding alloactive and homeoactive sensing.
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Affiliation(s)
- Nadina O Zweifel
- Department of Biomedical Engineering, Northwestern University, Evanston, Illinois
| | - Mitra J Z Hartmann
- Department of Biomedical Engineering, Northwestern University, Evanston, Illinois.,Department of Mechanical Engineering, Northwestern University, Evanston, Illinois
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8
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de Busserolles F, Fogg L, Cortesi F, Marshall J. The exceptional diversity of visual adaptations in deep-sea teleost fishes. Semin Cell Dev Biol 2020; 106:20-30. [PMID: 32536437 DOI: 10.1016/j.semcdb.2020.05.027] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Revised: 05/28/2020] [Accepted: 05/28/2020] [Indexed: 10/24/2022]
Abstract
The deep-sea is the largest and one of the dimmest habitats on earth. In this extreme environment, every photon counts and may make the difference between life and death for its inhabitants. Two sources of light are present in the deep-sea; downwelling light, that becomes dimmer and spectrally narrower with increasing depth until completely disappearing at around 1000 m, and bioluminescence, the light emitted by animals themselves. Despite these relatively dark and inhospitable conditions, many teleost fish have made the deep-sea their home, relying heavily on vision to survive. Their visual systems have had to adapt, sometimes in astonishing and bizarre ways. This review examines some aspects of the visual system of deep-sea teleosts and highlights the exceptional diversity in both optical and retinal specialisations. We also reveal how widespread several of these adaptations are across the deep-sea teleost phylogeny. Finally, the significance of some recent findings as well as the surprising diversity in visual adaptations is discussed.
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Affiliation(s)
- Fanny de Busserolles
- Queensland Brain Institute, The University of Queensland, St Lucia, Queensland 4072, Australia.
| | - Lily Fogg
- Queensland Brain Institute, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Fabio Cortesi
- Queensland Brain Institute, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Justin Marshall
- Queensland Brain Institute, The University of Queensland, St Lucia, Queensland 4072, Australia
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9
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Lamb JY, Davis MP. Salamanders and other amphibians are aglow with biofluorescence. Sci Rep 2020; 10:2821. [PMID: 32108141 PMCID: PMC7046780 DOI: 10.1038/s41598-020-59528-9] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2019] [Accepted: 01/30/2020] [Indexed: 02/04/2023] Open
Abstract
Biofluorescence is the absorption of electromagnetic radiation (light) at one wavelength followed by its reemission at a lower energy and longer wavelength by a living organism. Previous studies have documented the widespread presence of biofluorescence in some animals, including cnidarians, arthropods, and cartilaginous and ray-finned fishes. Many studies on biofluorescence have focused on marine animals (cnidarians, cartilaginous and ray-finned fishes) but we know comparatively little about the presence of biofluorescence in tetrapods. We show for the first time that biofluorescence is widespread across Amphibia, with a focus on salamanders (Caudata), which are a diverse group with a primarily Holarctic distribution. We find that biofluorescence is not restricted to any particular family of salamanders, there is striking variation in their fluorescent patterning, and the primary wavelengths emitted in response to blue excitation light are within the spectrum of green light. Widespread biofluorescence across the amphibian radiation is a previously undocumented phenomenon that could have significant ramifications for the ecology and evolution of these diverse and declining vertebrates. Our results provide a roadmap for future studies on the characterization of molecular mechanisms of biofluorescence in amphibians, as well as directions for investigations into the potential impact of biofluorescence on the visual ecology and behavior of biofluorescent amphibians.
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Affiliation(s)
- Jennifer Y Lamb
- St. Cloud State University, Department of Biology, St. Cloud, Minnesota, 56301, USA.
| | - Matthew P Davis
- St. Cloud State University, Department of Biology, St. Cloud, Minnesota, 56301, USA.
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10
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Marazzi M, Gattuso H, Giussani A, Zhang H, Navarrete-Miguel M, Chipot C, Cai W, Roca-Sanjuán D, Dehez F, Monari A. Induced Night Vision by Singlet-Oxygen-Mediated Activation of Rhodopsin. J Phys Chem Lett 2019; 10:7133-7140. [PMID: 31652065 DOI: 10.1021/acs.jpclett.9b02911] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
In humans, vision is limited to a small fraction of the whole electromagnetic spectrum. One possible strategy for enhancing vision in deep-red or poor-light conditions consists of recruiting chlorophyll derivatives in the rod photoreceptor cells of the eye, as suggested in the case of some deep-sea fish. Here, we employ all-atom molecular simulations and high-level quantum chemistry calculations to rationalize how chlorin e6 (Ce6), widely used in photodynamic therapy although accompanied by enhanced visual sensitivity, mediates vision in the dark, shining light on a fascinating but largely unknown molecular mechanism. First, we identify persistent interaction sites between Ce6 and the extracellular loops of rhodopsin, the transmembrane photoreceptor protein responsible for the first steps in vision. Triggered by Ce6 deep-red light absorption, the retinal within rhodopsin can be isomerized thus starting the visual phototransduction cascade. Our data largely exclude previously hypothesized energy-transfer mechanisms while clearly lending credence to a retinal isomerization indirectly triggered by singlet oxygen, proposing an alternative mechanism to rationalize photosensitizer-mediated night vision.
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Affiliation(s)
- Marco Marazzi
- LPCT , UMR 7019, Université de Lorraine and CNRS, F-54000 Vandoeuvre-lès-Nancy , France
- Department of Analytical Chemistry, Physical Chemistry and Chemical Engineering , Universidad de Alcalá, Ctra , Madrid-Barcelona Km. 33,600 , E-28805 Alcalá de Henares ( Madrid ), Spain
- Chemical Research Institute "Andrés M. del Río" (IQAR) , Universidad de Alcalá , E-28871 Alcalá de Henares ( Madrid ), Spain
| | - Hugo Gattuso
- LPCT , UMR 7019, Université de Lorraine and CNRS, F-54000 Vandoeuvre-lès-Nancy , France
| | - Angelo Giussani
- Institut de Ciència Molecular , Universitat de València , P.O. Box 22085 València , Spain
| | - Hong Zhang
- LPCT , UMR 7019, Université de Lorraine and CNRS, F-54000 Vandoeuvre-lès-Nancy , France
- Research Center for Analytical Sciences, College of Chemistry, Tianjin Key Laboratory of Biosensing and Molecular Recognition , Nankai University , Tianjin 300071 , China
| | | | - Christophe Chipot
- LPCT , UMR 7019, Université de Lorraine and CNRS, F-54000 Vandoeuvre-lès-Nancy , France
- Laboratoire International Associé CNRS and University of Illinois at Urbana-Champaign , F-54000 Vandoeuvre-lès-Nancy , France
- Department of Physics , University of Illinois at Urbana-Champaign , 1110 West Green Street , Urbana , Illinois 61801 , United States
| | - Wensheng Cai
- Research Center for Analytical Sciences, College of Chemistry, Tianjin Key Laboratory of Biosensing and Molecular Recognition , Nankai University , Tianjin 300071 , China
| | - Daniel Roca-Sanjuán
- Institut de Ciència Molecular , Universitat de València , P.O. Box 22085 València , Spain
| | - François Dehez
- LPCT , UMR 7019, Université de Lorraine and CNRS, F-54000 Vandoeuvre-lès-Nancy , France
- Laboratoire International Associé CNRS and University of Illinois at Urbana-Champaign , F-54000 Vandoeuvre-lès-Nancy , France
| | - Antonio Monari
- LPCT , UMR 7019, Université de Lorraine and CNRS, F-54000 Vandoeuvre-lès-Nancy , France
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11
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Valentini A, Nucci M, Frutos LM, Marazzi M. Photosensitized Retinal Isomerization in Rhodopsin Mediated by a Triplet State. CHEMPHOTOCHEM 2019. [DOI: 10.1002/cptc.201900067] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Alessio Valentini
- Departamento de Química Analítica, Química Física e Ingeniería Química, Unidad de Química FísicaUniversidad de Alcalá Ctra. Madrid-Barcelona Km. 33,600 E-28871 Alcalá de Henares, Madrid Spain
- Department of Biotechnology, Chemistry and PharmacyUniversity of Siena via A. Moro 2 53100 Siena Italy
- Theoretical Physical Chemistry, Research Unit MolSysUniversité de Liège Allée du 6 Aôut, 11 4000 Liège Belgium
| | - Martina Nucci
- Departamento de Química Analítica, Química Física e Ingeniería Química, Unidad de Química FísicaUniversidad de Alcalá Ctra. Madrid-Barcelona Km. 33,600 E-28871 Alcalá de Henares, Madrid Spain
| | - Luis Manuel Frutos
- Departamento de Química Analítica, Química Física e Ingeniería Química, Unidad de Química FísicaUniversidad de Alcalá Ctra. Madrid-Barcelona Km. 33,600 E-28871 Alcalá de Henares, Madrid Spain
- Instituto de Investigación Química “Andrés M. del Río” (IQAR)Universidad de Alcalá E-28871 Alcalá de Henares, Madrid Spain
| | - Marco Marazzi
- Departamento de Química Analítica, Química Física e Ingeniería Química, Unidad de Química FísicaUniversidad de Alcalá Ctra. Madrid-Barcelona Km. 33,600 E-28871 Alcalá de Henares, Madrid Spain
- Instituto de Investigación Química “Andrés M. del Río” (IQAR)Universidad de Alcalá E-28871 Alcalá de Henares, Madrid Spain
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12
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Mitchell J, Yanamala N, Tan YL, Gardner EE, Tirupula KC, Balem F, Sheves M, Nietlispach D, Klein‐Seetharaman J. Structural and Functional Consequences of the Weak Binding of Chlorin e6 to Bovine Rhodopsin. Photochem Photobiol 2019; 95:787-802. [DOI: 10.1111/php.13074] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2018] [Accepted: 12/07/2018] [Indexed: 12/14/2022]
Affiliation(s)
- James Mitchell
- Biomedical Sciences Division Warwick Medical School University of Warwick Coventry UK
| | - Naveena Yanamala
- Department of Structural Biology School of Medicine University of Pittsburgh Pittsburgh PA
| | - Yi Lei Tan
- Department of Biochemistry University of Cambridge Cambridge UK
| | - Eric E. Gardner
- Department of Structural Biology School of Medicine University of Pittsburgh Pittsburgh PA
| | - Kalyan C. Tirupula
- Department of Structural Biology School of Medicine University of Pittsburgh Pittsburgh PA
| | - Fernanda Balem
- Department of Structural Biology School of Medicine University of Pittsburgh Pittsburgh PA
| | - Mordechai Sheves
- Organic Chemistry Department Weizmann Institute of Science Rehovot Israel
| | | | - Judith Klein‐Seetharaman
- Biomedical Sciences Division Warwick Medical School University of Warwick Coventry UK
- Department of Structural Biology School of Medicine University of Pittsburgh Pittsburgh PA
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13
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Affiliation(s)
- Kai‐Xiong Ye
- Department of Development Technology of Marine ResourcesCollege of Life SciencesZhejiang Sci-Tech University Hangzhou 310018 People's Republic of China
| | - Ting‐Ting Fan
- Department of Development Technology of Marine ResourcesCollege of Life SciencesZhejiang Sci-Tech University Hangzhou 310018 People's Republic of China
| | - Lawrence Jordan Keen
- Department of Development Technology of Marine ResourcesCollege of Life SciencesZhejiang Sci-Tech University Hangzhou 310018 People's Republic of China
| | - Bing‐Nan Han
- Department of Development Technology of Marine ResourcesCollege of Life SciencesZhejiang Sci-Tech University Hangzhou 310018 People's Republic of China
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14
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Michiels NK, Seeburger VC, Kalb N, Meadows MG, Anthes N, Mailli AA, Jack CB. Controlled iris radiance in a diurnal fish looking at prey. ROYAL SOCIETY OPEN SCIENCE 2018; 5:170838. [PMID: 29515824 PMCID: PMC5830713 DOI: 10.1098/rsos.170838] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2017] [Accepted: 01/17/2018] [Indexed: 06/12/2023]
Abstract
Active sensing using light, or active photolocation, is only known from deep sea and nocturnal fish with chemiluminescent 'search' lights. Bright irides in diurnal fish species have recently been proposed as a potential analogue. Here, we contribute to this discussion by testing whether iris radiance is actively modulated. The focus is on behaviourally controlled iris reflections, called 'ocular sparks'. The triplefin Tripterygion delaisi can alternate between red and blue ocular sparks, allowing us to test the prediction that spark frequency and hue depend on background hue and prey presence. In a first experiment, we found that blue ocular sparks were significantly more often 'on' against red backgrounds, and red ocular sparks against blue backgrounds, particularly when copepods were present. A second experiment tested whether hungry fish showed more ocular sparks, which was not the case. However, background hue once more resulted in a significant differential use of ocular sparks. We conclude that iris radiance through ocular sparks in T. delaisi is not a side effect of eye movement, but adaptively modulated in response to the context under which prey are detected. We discuss the possible alternative functions of ocular sparks, including an as yet speculative role in active photolocation.
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Affiliation(s)
- Nico K. Michiels
- Animal Evolutionary Ecology, Institute for Evolution and Ecology, Department of Biology, Faculty of Science, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany
| | - Victoria C. Seeburger
- Animal Evolutionary Ecology, Institute for Evolution and Ecology, Department of Biology, Faculty of Science, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany
- Universität Hohenheim, Landesanstalt für Bienenkunde (730), August-von-Hartmann-Straße 13, 70599 Hohenheim, Germany
| | - Nadine Kalb
- Animal Evolutionary Ecology, Institute for Evolution and Ecology, Department of Biology, Faculty of Science, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany
- Didaktik der Biologie, Faculty of Science, University of Tübingen, Auf der Morgenstelle 24, 72076 Tübingen, Germany
| | - Melissa G. Meadows
- Animal Evolutionary Ecology, Institute for Evolution and Ecology, Department of Biology, Faculty of Science, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany
- Science Center 109, Biology Department, St Francis University, 117 Evergreen Drive, Loretto, PA 15940, USA
| | - Nils Anthes
- Animal Evolutionary Ecology, Institute for Evolution and Ecology, Department of Biology, Faculty of Science, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany
| | - Amalia A. Mailli
- Animal Evolutionary Ecology, Institute for Evolution and Ecology, Department of Biology, Faculty of Science, University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany
- Marine Genomics Group, Faculty of Biosciences and Aquaculture, Nord University, Universitetsaléen 11, 8049 Bodø, Norway
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15
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Gouveneaux A, Gielen MC, Mallefet J. Behavioural responses of the yellow emitting annelidTomopteris helgolandicato photic stimuli. LUMINESCENCE 2018; 33:511-520. [DOI: 10.1002/bio.3440] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2017] [Revised: 10/28/2017] [Accepted: 11/10/2017] [Indexed: 11/08/2022]
Affiliation(s)
- Anaïd Gouveneaux
- Marine Biology Laboratory, Earth Life Institute; Université catholique de Louvain; Louvain-la-Neuve Belgium
| | - Marie-Charlotte Gielen
- Marine Biology Laboratory, Earth Life Institute; Université catholique de Louvain; Louvain-la-Neuve Belgium
| | - Jérôme Mallefet
- Marine Biology Laboratory, Earth Life Institute; Université catholique de Louvain; Louvain-la-Neuve Belgium
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16
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Woods KN, Pfeffer J, Klein-Seetharaman J. Chlorophyll-Derivative Modulation of Rhodopsin Signaling Properties through Evolutionarily Conserved Interaction Pathways. Front Mol Biosci 2017; 4:85. [PMID: 29312953 PMCID: PMC5733091 DOI: 10.3389/fmolb.2017.00085] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2017] [Accepted: 11/28/2017] [Indexed: 01/04/2023] Open
Abstract
Retinal is the light-absorbing chromophore that is responsible for the activation of visual pigments and light-driven ion pumps. Evolutionary changes in the intermolecular interactions of the retinal with specific amino acids allow for adaptation of the spectral characteristics, referred to as spectral tuning. However, it has been proposed that a specific species of dragon fish has bypassed the adaptive evolutionary process of spectral tuning and replaced it with a single evolutionary event: photosensitization of rhodopsin by chlorophyll derivatives. Here, by using a combination of experimental measurements and computational modeling to probe retinal-receptor interactions in rhodopsin, we show how the binding of the chlorophyll derivative, chlorin-e6 (Ce6) in the intracellular domain (ICD) of the receptor allosterically excites G-protein coupled receptor class A (GPCR-A) conserved long-range correlated fluctuations that connect distant parts of the receptor. These long-range correlated motions are associated with regulating the dynamics and intermolecular interactions of specific amino acids in the retinal ligand-binding pocket that have been associated with shifts in the absorbance peak maximum (λmax) and hence, spectral sensitivity of the visual system. Moreover, the binding of Ce6 affects the overall global properties of the receptor. Specifically, we find that Ce6-induced dynamics alter the thermal stability of rhodopsin by adjusting hydrogen-bonding interactions near the receptor active-site that consequently also influences the intrinsic conformational equilibrium of the receptor. Due to the conservation of the ICD residues amongst different receptors in this class and the fact that all GPCR-A receptors share a common mechanism of activation, it is possible that the allosteric associations excited in rhodopsin with Ce6 binding are a common feature in all class A GPCRs.
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Affiliation(s)
- Kristina N. Woods
- Lehrstuhl für BioMolekulare Optik, Ludwig-Maximilians-Universität, München, Germany
- *Correspondence: Kristina N. Woods
| | - Jürgen Pfeffer
- Bavarian School of Public Policy, Technical University of Munich, München, Germany
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17
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Sharifian S, Homaei A, Hemmati R, Khajeh K. Light emission miracle in the sea and preeminent applications of bioluminescence in recent new biotechnology. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2017; 172:115-128. [DOI: 10.1016/j.jphotobiol.2017.05.021] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2017] [Accepted: 05/16/2017] [Indexed: 02/08/2023]
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18
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Chlorophyll derivatives enhance invertebrate red-light and ultraviolet phototaxis. Sci Rep 2017; 7:3374. [PMID: 28611460 PMCID: PMC5469770 DOI: 10.1038/s41598-017-03247-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2017] [Accepted: 04/25/2017] [Indexed: 12/04/2022] Open
Abstract
Chlorophyll derivatives are known to enhance vision in vertebrates. They are thought to bind visual pigments (i.e., opsins apoproteins bound to retinal chromophores) directly within the retina. Consistent with previous findings in vertebrates, here we show that chlorin e6 — a chlorophyll derivative — enhances photophobicity in a flatworm (Dugesia japonica), specifically when exposed to UV radiation (λ = 405 nm) or red light (λ = 660 nm). This is the first report of chlorophyll derivatives acting as modulators of invertebrate phototaxis, and in general the first account demonstrating that they can artificially alter animal response to light at a behavioral level. Our findings show that the interaction between chlorophyll derivatives and opsins virtually concerns the vast majority of bilaterian animals, and also occurs in visual systems based on rhabdomeric (rather than ciliary) opsins.
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19
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Localisation and origin of the bacteriochlorophyll-derived photosensitizer in the retina of the deep-sea dragon fish Malacosteus niger. Sci Rep 2016; 6:39395. [PMID: 27996027 PMCID: PMC5171636 DOI: 10.1038/srep39395] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2016] [Accepted: 11/22/2016] [Indexed: 11/08/2022] Open
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20
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Sakata R, Kabutomori R, Okano K, Mitsui H, Takemura A, Miwa T, Yamamoto H, Okano T. Rhodopsin in the Dark Hot Sea: Molecular Analysis of Rhodopsin in a Snailfish, Careproctus rhodomelas, Living near the Deep-Sea Hydrothermal Vent. PLoS One 2015; 10:e0135888. [PMID: 26275172 PMCID: PMC4537116 DOI: 10.1371/journal.pone.0135888] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2015] [Accepted: 07/27/2015] [Indexed: 11/19/2022] Open
Abstract
Visual systems in deep-sea fishes have been previously studied from a photobiological aspect; however, those of deep-sea fish inhabiting the hydrothermal vents are far less understood due to sampling difficulties. In this study, we analyzed the visual pigment of a deep-sea snailfish, Careproctus rhodomelas, discovered and collected only near the hydrothermal vents of oceans around Japan. Proteins were solubilized from the C. rhodomelas eyeball and subjected to spectroscopic analysis, which revealed the presence of a pigment characterized by an absorption maximum (λmax) at 480 nm. Immunoblot analysis of the ocular protein showed a rhodopsin-like immunoreactivity. We also isolated a retinal cDNA encoding the entire coding sequence of putative C. rhodomelas rhodopsin (CrRh). HEK293EBNA cells were transfected with the CrRh cDNA and the proteins extracted from the cells were subjected to spectroscopic analysis. The recombinant CrRh showed the absorption maximum at 480 nm in the presence of 11-cis retinal. Comparison of the results from the eyeball extract and the recombinant CrRh strongly suggests that CrRh has an A1-based 11-cis-retinal chromophore and works as a photoreceptor in the C. rhodomelas retina, and hence that C. rhodomelas responds to dim blue light much the same as other deep-sea fishes. Because hydrothermal vent is a huge supply of viable food, C. rhodomelas likely do not need to participate diel vertical migration and may recognize the bioluminescence produced by aquatic animals living near the hydrothermal vents.
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Affiliation(s)
- Rie Sakata
- Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University (TWIns), Tokyo, Japan
| | - Ryo Kabutomori
- Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University (TWIns), Tokyo, Japan
| | - Keiko Okano
- Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University (TWIns), Tokyo, Japan
| | - Hiromasa Mitsui
- Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University (TWIns), Tokyo, Japan
| | - Akihiro Takemura
- Department of Chemistry, Biology, and Marine Science, Faculty of Science, University of the Ryukyus, Okinawa, Japan
| | - Tetsuya Miwa
- Marine Technology Development Department, Marine Technology and Engineering Center, Japan Agency for Marine Earth Science and Technology (JAMSTEC), Yokosuka, Japan
| | - Hiroyuki Yamamoto
- Environmental Impact Assessment Research Group, Research and Development Centre for Submarine Resources, Japan Agency for Marine Earth Science and Technology (JAMSTEC), Yokosuka, Japan
| | - Toshiyuki Okano
- Department of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University (TWIns), Tokyo, Japan
- * E-mail:
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21
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Oba Y, Schultz DT. Eco-evo bioluminescence on land and in the sea. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2014; 144:3-36. [PMID: 25084993 DOI: 10.1007/978-3-662-43385-0_1] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
Abstract
This review discusses the evolution of bioluminescence organisms that inhabit various environments based on the current understanding of their unique ecologies and biochemistries. As shown here, however, there are still many unanswered questions regarding the functions and mechanisms of bioluminescence, which should be investigated in further studies. To facilitate future research in this field, we introduce our recent attempt, the bioluminescent organism DNA barcode initiative. This genetic reference library will provide resources for other scientists to efficiently identify unstudied bioluminescent organisms, focus their biochemical and genetic research goals, and will generally promote bioluminescence as a field of scientific study.
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Affiliation(s)
- Yuichi Oba
- Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, Japan,
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22
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Cnossen A, Hou L, Pollard MM, Wesenhagen PV, Browne WR, Feringa BL. Driving Unidirectional Molecular Rotary Motors with Visible Light by Intra- And Intermolecular Energy Transfer from Palladium Porphyrin. J Am Chem Soc 2012; 134:17613-9. [DOI: 10.1021/ja306986g] [Citation(s) in RCA: 83] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Arjen Cnossen
- Centre for Systems Chemistry, Stratingh Institute for Chemistry and Zernike Institute for Advanced Materials, Faculty of Mathematics and Natural Sciences, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Lili Hou
- Centre for Systems Chemistry, Stratingh Institute for Chemistry and Zernike Institute for Advanced Materials, Faculty of Mathematics and Natural Sciences, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Michael M. Pollard
- Centre for Systems Chemistry, Stratingh Institute for Chemistry and Zernike Institute for Advanced Materials, Faculty of Mathematics and Natural Sciences, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Philana V. Wesenhagen
- Centre for Systems Chemistry, Stratingh Institute for Chemistry and Zernike Institute for Advanced Materials, Faculty of Mathematics and Natural Sciences, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Wesley R. Browne
- Centre for Systems Chemistry, Stratingh Institute for Chemistry and Zernike Institute for Advanced Materials, Faculty of Mathematics and Natural Sciences, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Ben L. Feringa
- Centre for Systems Chemistry, Stratingh Institute for Chemistry and Zernike Institute for Advanced Materials, Faculty of Mathematics and Natural Sciences, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
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23
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KENALEY CHRISTOPHERP. Exploring feeding behaviour in deep-sea dragonfishes (Teleostei: Stomiidae): jaw biomechanics and functional significance of a loosejaw. Biol J Linn Soc Lond 2012. [DOI: 10.1111/j.1095-8312.2012.01854.x] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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24
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Hogg C, Neveu M, Stokkan KA, Folkow L, Cottrill P, Douglas R, Hunt DM, Jeffery G. Arctic reindeer extend their visual range into the ultraviolet. J Exp Biol 2011; 214:2014-9. [DOI: 10.1242/jeb.053553] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
SUMMARY
The Arctic has extreme seasonal changes in light levels and is proportionally UV-rich because of scattering of the shorter wavelengths and their reflection from snow and ice. Here we show that the cornea and lens in Arctic reindeer do not block all UV and that the retina responds electrophysiologically to these wavelengths. Both rod and cone photoreceptors respond to UV at low-intensity stimulation. Retinal RNA extraction and in vitro opsin expression show that the response to UV is not mediated by a specific UV photoreceptor mechanism. Reindeer thus extend their visual range into the short wavelengths characteristic of the winter environment and periods of extended twilight present in spring and autumn. A specific advantage of this short-wavelength vision is the use of potential information caused by differential UV reflections known to occur in both Arctic vegetation and different types of snow. UV is normally highly damaging to the retina, resulting in photoreceptor degeneration. Because such damage appears not to occur in these animals, they may have evolved retinal mechanisms protecting against extreme UV exposure present in the daylight found in the snow-covered late winter environment.
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Affiliation(s)
| | - Magella Neveu
- Moorfields Eye Hospital, 162 City Road, London EC1V 2PD, UK
| | - Karl-Arne Stokkan
- Department of Arctic and Marine Biology, University of Tromsø, 9037 Tromsø, Norway
| | - Lars Folkow
- Department of Arctic and Marine Biology, University of Tromsø, 9037 Tromsø, Norway
| | - Phillippa Cottrill
- Department of Optometry and Visual Science, City University London, Northampton Square, London EC1V 0HB, UK
| | - Ronald Douglas
- Department of Optometry and Visual Science, City University London, Northampton Square, London EC1V 0HB, UK
| | - David M. Hunt
- Institute of Ophthalmology University College London, 11-43 Bath Street, London EC1V 9EL, UK
- School of Animal Biology and Oceans Institute, University of Western Australia, Crawley, Perth, Western Australia 6009, Australia
| | - Glen Jeffery
- Moorfields Eye Hospital, 162 City Road, London EC1V 2PD, UK
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25
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Yanamala N, Klein-Seetharaman J. Allosteric Modulation of G Protein Coupled Receptors by Cytoplasmic, Transmembrane and Extracellular Ligands. Pharmaceuticals (Basel) 2010; 3:3324-3342. [PMID: 24009470 PMCID: PMC3760430 DOI: 10.3390/ph3103324] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2022] Open
Abstract
G protein coupled receptors (GPCRs) bind diverse classes of ligands, and depending on the receptor, these may bind in their transmembrane or the extracellular domains, demonstrating the principal ability of GPCRs to bind ligand in either domains. Most recently, it was also observed that small molecule ligands can bind in the cytoplasmic domain, and modulate binding and response to extracellular or transmembrane ligands. Thus, all three domains in GPCRs are potential sites for allosteric ligands, and whether a ligand is allosteric or orthosteric depends on the receptor. Here, we will review the evidence supporting the presence of putative binding pockets in all three domains of GPCRs and discuss possible pathways of communication between these pockets.
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Affiliation(s)
| | - Judith Klein-Seetharaman
- To whom correspondence should be addressed; E-Mail: ; Tel.: +1 412 383 7325; Fax: +1 412 648 8998
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26
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Abstract
Bioluminescence spans all oceanic dimensions and has evolved many times--from bacteria to fish--to powerfully influence behavioral and ecosystem dynamics. New methods and technology have brought great advances in understanding of the molecular basis of bioluminescence, its physiological control, and its significance in marine communities. Novel tools derived from understanding the chemistry of natural light-producing molecules have led to countless valuable applications, culminating recently in a related Nobel Prize. Marine organisms utilize bioluminescence for vital functions ranging from defense to reproduction. To understand these interactions and the distributions of luminous organisms, new instruments and platforms allow observations on individual to oceanographic scales. This review explores recent advances, including the chemical and molecular, phylogenetic and functional, community and oceanographic aspects of bioluminescence.
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Affiliation(s)
- Steven H D Haddock
- Monterey Bay Aquarium Research Institute, Moss Landing, California 95039, USA.
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27
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Balem F, Yanamala N, Klein-Seetharaman J. Additive Effects of Chlorin E6 and Metal Ion Binding on the Thermal Stability of RhodopsinIn Vitro. Photochem Photobiol 2009; 85:471-8. [DOI: 10.1111/j.1751-1097.2009.00539.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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28
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Björn LO, Papageorgiou GC, Blankenship RE. A viewpoint: why chlorophyll a? PHOTOSYNTHESIS RESEARCH 2009; 99:85-98. [PMID: 19125349 DOI: 10.1007/s11120-008-9395-x] [Citation(s) in RCA: 119] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2008] [Accepted: 12/09/2008] [Indexed: 05/21/2023]
Abstract
Chlorophyll a (Chl a) serves a dual role in oxygenic photosynthesis: in light harvesting as well as in converting energy of absorbed photons to chemical energy. No other Chl is as omnipresent in oxygenic photosynthesis as is Chl a, and this is particularly true if we include Chl a(2), (=[8-vinyl]-Chl a), which occurs in Prochlorococcus, as a type of Chl a. One exception to this near universal pattern is Chl d, which is found in some cyanobacteria that live in filtered light that is enriched in wavelengths >700 nm. They trap the long wavelength electronic excitation, and convert it into chemical energy. In this Viewpoint, we have traced the possible reasons for the near ubiquity of Chl a for its use in the primary photochemistry of Photosystem II (PS II) that leads to water oxidation and of Photosystem I (PS I) that leads to ferredoxin reduction. Chl a appears to be unique and irreplaceable, particularly if global scale oxygenic photosynthesis is considered. Its uniqueness is determined by its physicochemical properties, but there is more. Other contributing factors include specially tailored protein environments, and functional compatibility with neighboring electron transporting cofactors. Thus, the same molecule, Chl a in vivo, is capable of generating a radical cation at +1 V or higher (in PS II), a radical anion at -1 V or lower (in PS I), or of being completely redox silent (in antenna holochromes).
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Affiliation(s)
- Lars Olof Björn
- Department of Cell and Organism Biology, Lund University, Lund, Sweden.
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29
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Lanyi JK, Balashov SP. Xanthorhodopsin: a bacteriorhodopsin-like proton pump with a carotenoid antenna. BIOCHIMICA ET BIOPHYSICA ACTA 2008; 1777:684-8. [PMID: 18515067 PMCID: PMC2532838 DOI: 10.1016/j.bbabio.2008.05.005] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2007] [Revised: 04/30/2008] [Accepted: 05/08/2008] [Indexed: 11/25/2022]
Abstract
Xanthorhodopsin is a light-driven proton pump like bacteriorhodopsin, but made more effective for collecting light by its second chromophore, salinixanthin, a carotenoid. Action spectra for transport and fluorescence of the retinal upon excitation of the carotenoid indicate that the carotenoid functions as an antenna to the retinal. The calculated center-to-center distance and angle of the transition moments of the two chromophores are 11 A and 56 degrees , respectively. As expected from their proximity, the carotenoid and the retinal closely interact: tight binding of the carotenoid, as indicated by its sharpened vibration bands and intense induced circular dichroism in the visible, is removed by hydrolysis of the retinal Schiff base, and restored upon reconstitution with retinal. This antenna system, simpler than photosynthetic complexes, is well-suited to study features of excited-state energy migration.
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Affiliation(s)
- Janos K Lanyi
- Department of Physiology and Biophysics, University of California, Irvine, CA 92697, USA.
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30
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Kenaley CP. Revision of the Stoplight Loosejaw Genus Malacosteus (Teleostei: Stomiidae: Malacosteinae), with Description of a New Species from the Temperate Southern Hemisphere and Indian Ocean. COPEIA 2007. [DOI: 10.1643/0045-8511(2007)7[886:rotslg]2.0.co;2] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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31
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Isayama T, Alexeev D, Makino CL, Washington I, Nakanishi K, Turro NJ. An accessory chromophore in red vision. Nature 2006; 443:649. [PMID: 17035994 DOI: 10.1038/443649a] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2006] [Accepted: 08/25/2006] [Indexed: 11/09/2022]
Abstract
In the absence of a red-sensitive visual pigment, some deep-sea fish use a chlorophyll derivative in their green-sensitive rod cells in order to see deep-red light. Here we show that living rods extracted from a salamander can also accumulate an exogenous chlorophyll derivative, chlorin e6, that renders them as sensitive to red light as they are to green. This vision enhancement by an unbleachable chlorophyll derivative might therefore be a general phenomenon in vertebrate photoreception.
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Affiliation(s)
- T Isayama
- Department of Ophthalmology, Massachusetts Eye & Ear Infirmary, Boston, Massachusetts 02114, USA
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32
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33
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Washington I, Brooks C, Turro NJ, Nakanishi K. Porphyrins As Photosensitizers To Enhance Night Vision. J Am Chem Soc 2004; 126:9892-3. [PMID: 15303842 DOI: 10.1021/ja0486317] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Relative bleaching rates of bovine rhodopsin (rod outer segments) in the presence and absence of seven porphyrins and methylene blue were measured under exposure to lambdamax = 675 nm light, using UV-vis spectroscopy. Rate enhancements on the order of up to three times compared to the bleaching of rhodopsin alone where observed. Fluorescence measurements and other data suggests that the porphyrins act as photosensitizers and excite the visual pigment via electron or triplet state energy transfer. These mechanisms suggest that rhodopsin possesses a pocket, proximal to the Schiff base so that porphyrins act as photosensitizers.
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Affiliation(s)
- Ilyas Washington
- Department of Chemistry, Columbia University, New York, New York 10027, USA
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34
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Nyman ES, Hynninen PH. Research advances in the use of tetrapyrrolic photosensitizers for photodynamic therapy. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2004; 73:1-28. [PMID: 14732247 DOI: 10.1016/j.jphotobiol.2003.10.002] [Citation(s) in RCA: 555] [Impact Index Per Article: 27.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Photodynamic therapy (PDT) is a promising new treatment modality for several diseases, most notably cancer. In PDT, light, O2, and a photosensitizing drug are combined to produce a selective therapeutic effect. Lately, there has been active research on new photosensitizer candidates, because the most commonly used porphyrin photosensitizers are far from ideal with respect to PDT. Finding a suitable photosensitizer is crucial in improving the efficacy of PDT. Recent synthetic activity has created such a great number of potential photosensitizers for PDT that it is difficult to decide which ones are suitable for which pathological conditions, such as various cancer species. To facilitate the choice of photosensitizer, this review presents a thorough survey of the photophysical and chemical properties of the developed tetrapyrrolic photosensitizers. Special attention is paid to the singlet-oxygen yield (PhiDelta) of each photosensitizer, because it is one of the most important photodynamic parameters in PDT. Also, in the survey, emphasis is placed on those photosensitizers that can easily be prepared by partial syntheses starting from the abundant natural precursors, protoheme and the chlorophylls. Such emphasis is justified by economical and environmental reasons. Several of the most promising photosensitizer candidates are chlorins or bacteriochlorins. Consequently, chlorophyll-related chlorins, whose PhiDelta have been determined, are discussed in detail as potential photosensitizers for PDT. Finally, PDT is briefly discussed as a treatment modality, including its clinical aspects, light sources, targeting of the photosensitizer, and opportunities.
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Affiliation(s)
- Emma S Nyman
- Laboratory of Organic Chemistry, Department of Chemistry, University of Helsinki, P.O. BOX 55 (A.I. Virtasen aukio 1), Helsinki FIN-00014, Finland
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35
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Montforts FP, Glasenapp-Breiling M. Naturally occurring cyclic tetrapyrroles. FORTSCHRITTE DER CHEMIE ORGANISCHER NATURSTOFFE = PROGRESS IN THE CHEMISTRY OF ORGANIC NATURAL PRODUCTS. PROGRES DANS LA CHIMIE DES SUBSTANCES ORGANIQUES NATURELLES 2002; 84:1-51. [PMID: 12132388 DOI: 10.1007/978-3-7091-6160-9_1] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/25/2023]
Affiliation(s)
- F P Montforts
- Institut für Organische Chemie, Universität Bremen, Bremen, Germany
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Greer LF, Szalay AA. Imaging of light emission from the expression of luciferases in living cells and organisms: a review. LUMINESCENCE 2002; 17:43-74. [PMID: 11816060 DOI: 10.1002/bio.676] [Citation(s) in RCA: 297] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Luciferases are enzymes that emit light in the presence of oxygen and a substrate (luciferin) and which have been used for real-time, low-light imaging of gene expression in cell cultures, individual cells, whole organisms, and transgenic organisms. Such luciferin-luciferase systems include, among others, the bacterial lux genes of terrestrial Photorhabdus luminescens and marine Vibrio harveyi bacteria, as well as eukaryotic luciferase luc and ruc genes from firefly species (Photinus) and the sea pansy (Renilla reniformis), respectively. In various vectors and in fusion constructs with other gene products such as green fluorescence protein (GFP; from the jellyfish Aequorea), luciferases have served as reporters in a number of promoter search and targeted gene expression experiments over the last two decades. Luciferase imaging has also been used to trace bacterial and viral infection in vivo and to visualize the proliferation of tumour cells in animal models.
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Affiliation(s)
- Lee F Greer
- Department of Biochemistry, School of Medicine and Department of Natural Sciences-Biology Section, Loma Linda University, Loma Linda, CA 92354, USA
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Hunt DM, Dulai KS, Partridge JC, Cottrill P, Bowmaker JK. The molecular basis for spectral tuning of rod visual pigments in deep-sea fish. J Exp Biol 2001; 204:3333-44. [PMID: 11606607 DOI: 10.1242/jeb.204.19.3333] [Citation(s) in RCA: 123] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
SUMMARY
Most species of deep-sea fish possess of a rod-only retina with a pigment that is generally shortwave shifted in λmax towards the blue region of the spectrum. In addition, the λmax values of different species tend to cluster at particular points in the spectrum. In this study, the rod opsin gene sequences from 28 deep-sea fish species drawn from seven different Orders are compared. The λmax values of the rod pigments vary from approximately 520 nm to <470 nm, with the majority lying between 490 nm and 477 nm. The 520 nm pigment in two species of dragon fish is associated with a Phe261Tyr substitution, whereas the shortwave shifts of the pigments in the other 26 species are accountable by substitutions at a further eight sites (83, 122, 124, 132, 208, 292, 299 and 300). Clustering of λmax values does not, however, involve a common subset of these substitutions in the different species. A phylogenetic analysis predicts that the pigment in the ancestral species would have had a λmax of approximately 480 nm. A total of 27 changes is required to generate the pattern of substitutions seen in the different species, with many sites undergoing multiple changes.
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Affiliation(s)
- D M Hunt
- Department of Molecular Genetics, University College London, Bath Street, London, EC1V 9EL, UK.
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Douglas RH, Mullineaux CW, Partridge JC. Long-wave sensitivity in deep-sea stomiid dragonfish with far-red bioluminescence: evidence for a dietary origin of the chlorophyll-derived retinal photosensitizer of Malacosteus niger. Philos Trans R Soc Lond B Biol Sci 2000; 355:1269-72. [PMID: 11079412 PMCID: PMC1692851 DOI: 10.1098/rstb.2000.0681] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Both residual downwelling sunlight and bioluminescence, which are the two main sources of illumination available in the deep sea, have limited wavebands concentrated around 450-500 nm. Consequently, the wavelengths of maximum absorption (lambdamax) of the vast majority of deep-sea fish visual pigments also cluster in this part of the spectrum. Three genera of deep-sea loose-jawed dragonfish (Aristostomias, Pachystomias and Malacosteus), however, in addition to the blue bioluminescence typical of most deep-sea animals, also produce far-red light (maximum emission >700 nm) from suborbital photophores. All three genera are sensitive in this part of the spectrum, to which all other animals of the deep sea are blind, potentially affording them a private waveband for illuminating prey and for interspecific communication that is immune from detection by predators and prey. Aristostomias and Pachystomias enhance their long-wave visual sensitivity by the possession of at least three visual pigments that are long-wave shifted (lambdamax values ca. 515, 550 and 590 nm) compared with those of other deep-sea fishes. Malacosteus, on the other hand, although it does possess two of these red-shifted pigments (lambdamax values ca. 520 and 540 nm), lacks the most long-wave-sensitive pigments found in the other two genera. However, it further enhances its long-wave sensitivity with a chlorophyll-derived photosensitizer within its outer segments. The fluorescence emission and excitation spectra of this pigment are very similar to spectra obtained from mesopelagic copepods, which are an important component of diet of Malacosteus, suggesting a dietary origin for this pigment.
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Affiliation(s)
- R H Douglas
- Applied Vision Research Centre, Department of Optometry and Visual Science, City University, London, UK.
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Abstract
Dramatic improvement of our understanding of the genetic basis of vision was brought by the molecular characterization of the bovine rhodopsin gene and the human rhodopsin and color opsin genes (Nathans and Hogness, 1983; Nathans et al., 1984, 1986a,b). The availability of cDNA clones from these studies has facilitated the isolation of retinal and nonretinal opsin genes and cDNA clones from a large variety of species. Today, the number of genomic and cDNA clones of opsin genes isolated from different vertebrate species exceeds 100 and is increasing rapidly. The opsin gene sequences reveal the importance of the origin and differentiation of various opsins and visual pigments. To understand the molecular genetic basis of spectral tuning of visual pigments, it is essential to establish correlations between a series of the sequences of visual pigments and their lambda(max) values. The potentially important amino acid changes identified in this way have to be tested whether they are in fact responsible for the lambda(max)-shifts using site-directed mutagenesis and cultured cells. A major goal of molecular evolutionary genetics is to understand the molecular mechanisms involved in functional adaptations of organisms to different environments, including the mechanisms of the regulation of the spectral absorption. Therefore, both molecular evolutionary analyses of visual pigments and vision science have an important common goal.
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Affiliation(s)
- S Yokoyama
- Biological Research Laboratories, Department of Biology, Syracuse University, Syracuse, NY 13244, USA
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Hellingwerf KJ. Key issues in the photochemistry and signalling-state formation of photosensor proteins. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY. B, BIOLOGY 2000; 54:94-102. [PMID: 10836537 DOI: 10.1016/s1011-1344(00)00004-x] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
Four families of photosensors (i.e., rhodopsins, phytochromes, xanthopsins and cryptochromes) exist, which vary widely in the degree to which we understand the molecular basis of their activity. Some of their members are ideal model systems for studying the structure-function relation of proteins, and the role of dynamics therein. The photochemistry of photosensor activation is based upon the cis <--> trans isomerization of the chromophore. This configurational transition leads to the formation of a signalling state of sufficient stability to communicate the presence of photons to a downstream signal-transduction partner. In the xanthopsins it has been demonstrated that the exact nature of this signalling state is strongly dependent on the mesoscopic context of the sensor protein. The cryptochromes appear to challenge the photoisomerization rule.
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Affiliation(s)
- K J Hellingwerf
- Laboratory for Microbiology, E.C. Slater Institute, BioCentrum Amsterdam, University of Amsterdam, The Netherlands.
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