Manipulation of the local density of photonic states to elucidate fluorescent protein emission rates

2009 ◽  
Vol 11 (14) ◽  
pp. 2525 ◽  
Author(s):  
Yanina Cesa ◽  
Christian Blum ◽  
Johanna M. van den Broek ◽  
Allard P. Mosk ◽  
Willem L. Vos ◽  
...  
Keyword(s):  
Fluorescent Protein ◽  
Local Density ◽  
Emission Rates ◽  
Photonic States

A Unified Model for Photophysical and Electro-Optical Properties of Green Fluorescent Proteins

2019 ◽  
Author(s):  
Chi-Yun Lin ◽  
Matthew Romei ◽  
Luke Oltrogge ◽  
Irimpan Mathews ◽  
Steven Boxer
Keyword(s):  
Driving Force ◽  
Fluorescent Protein ◽  
Charge Transfer Band ◽  
Photophysical Properties ◽  
Polymethine Dyes ◽  
Emission Rates ◽  
Unified Framework ◽  
Underlying Factor ◽  
Green Fluorescent ◽  
Protein Environment

Green fluorescent protein (GFPs) have become indispensable imaging and optogenetic tools. Their absorption and emission properties can be optimized for specific applications. Currently, no unified framework exists to comprehensively describe these photophysical properties, namely the absorption maxima, emission maxima, Stokes shifts, vibronic progressions, extinction coefficients, Stark tuning rates, and spontaneous emission rates, especially one that includes the effects of the protein environment. In this work, we study the correlations among these properties from systematically tuned GFP environmental mutants and chromophore variants. Correlation plots reveal monotonic trends, suggesting all these properties are governed by one underlying factor dependent on the chromophore's environment. By treating the anionic GFP chromophore as a mixed-valence compound existing as a superposition of two resonance forms, we argue that this underlying factor is defined as the difference in energy between the two forms, or the driving force, which is tuned by the environment. We then introduce a Marcus-Hush model with the bond length alternation vibrational mode, treating the GFP absorption band as an intervalence charge transfer band. This model explains all the observed strong correlations among photophysical properties; related subtopics are extensively discussed in Supporting Information. Finally, we demonstrate the model's predictive power by utilizing the additivity of the driving force. The model described here elucidates the role of the protein environment in modulating photophysical properties of the chromophore, providing insights and limitations for designing new GFPs with desired phenotypes. We argue this model should also be generally applicable to both biological and non-biological polymethine dyes.<br>

Analysis of the Limits of the Local Density of Photonic States near Nanostructures

ACS Photonics ◽  
2018 ◽  
Vol 5 (6) ◽  
pp. 2437-2445 ◽  
Author(s):  
Stephen Sanders ◽  
Alejandro Manjavacas
Keyword(s):  
Local Density ◽  
Photonic States

scholarly journals Scanning Single Quantum Emitter Fluorescence Lifetime Imaging: Quantitative Analysis of the Local Density of Photonic States

Nano Letters ◽  
2014 ◽  
Vol 14 (5) ◽  
pp. 2623-2627 ◽  
Author(s):  
Andreas W. Schell ◽  
Philip Engel ◽  
Julia F. M. Werra ◽  
Christian Wolff ◽  
Kurt Busch ◽  
...  
Keyword(s):  
Quantitative Analysis ◽  
Fluorescence Lifetime ◽  
Local Density ◽  
Fluorescence Lifetime Imaging ◽  
Single Quantum ◽  
Lifetime Imaging ◽  
Quantum Emitter ◽  
Photonic States

Controlling fluorescent proteins by manipulating the local density of photonic states

2009 ◽  
Author(s):  
Christian Bluma ◽  
Yanina Cesa ◽  
Johanna M. van den Broek ◽  
Allard P. Mosk ◽  
Willem L. Vos ◽  
...  
Keyword(s):  
Fluorescent Proteins ◽  
Local Density ◽  
Photonic States

A Unified Model for Photophysical and Electro-Optical Properties of Green Fluorescent Proteins

2019 ◽  
Author(s):  
Chi-Yun Lin ◽  
Matthew Romei ◽  
Luke Oltrogge ◽  
Irimpan Mathews ◽  
Steven Boxer
Keyword(s):  
Driving Force ◽  
Fluorescent Protein ◽  
Charge Transfer Band ◽  
Photophysical Properties ◽  
Polymethine Dyes ◽  
Emission Rates ◽  
Unified Framework ◽  
Underlying Factor ◽  
Green Fluorescent ◽  
Protein Environment

Green fluorescent protein (GFPs) have become indispensable imaging and optogenetic tools. Their absorption and emission properties can be optimized for specific applications. Currently, no unified framework exists to comprehensively describe these photophysical properties, namely the absorption maxima, emission maxima, Stokes shifts, vibronic progressions, extinction coefficients, Stark tuning rates, and spontaneous emission rates, especially one that includes the effects of the protein environment. In this work, we study the correlations among these properties from systematically tuned GFP environmental mutants and chromophore variants. Correlation plots reveal monotonic trends, suggesting all these properties are governed by one underlying factor dependent on the chromophore's environment. By treating the anionic GFP chromophore as a mixed-valence compound existing as a superposition of two resonance forms, we argue that this underlying factor is defined as the difference in energy between the two forms, or the driving force, which is tuned by the environment. We then introduce a Marcus-Hush model with the bond length alternation vibrational mode, treating the GFP absorption band as an intervalence charge transfer band. This model explains all the observed strong correlations among photophysical properties; related subtopics are extensively discussed in Supporting Information. Finally, we demonstrate the model's predictive power by utilizing the additivity of the driving force. The model described here elucidates the role of the protein environment in modulating photophysical properties of the chromophore, providing insights and limitations for designing new GFPs with desired phenotypes. We argue this model should also be generally applicable to both biological and non-biological polymethine dyes.<br>

Controlling fluorescent proteins by manipulating the local density of photonic states

2009 ◽  
Author(s):  
Christian Blum ◽  
Yanina Cesa ◽  
Johanna M. van den Broek ◽  
Allard P. Mosk ◽  
Willem L. Vos ◽  
...  
Keyword(s):  
Fluorescent Proteins ◽  
Local Density ◽  
Photonic States

Relationship between scanning near-field optical images and local density of photonic states

2001 ◽  
Vol 345 (5-6) ◽  
pp. 512-516 ◽  
Author(s):  
Gérard Colas des Francs ◽  
Christian Girard ◽  
Jean-Claude Weeber ◽  
Alain Dereux
Keyword(s):  
Local Density ◽  
Near Field ◽  
Optical Images ◽  
Photonic States

MODE TUNING IN PHOTONIC CRYSTAL CAVITIES USING GEOMETRY OF FIRST NEIGHBORING LAYER

2012 ◽  
Vol 21 (04) ◽  
pp. 1250048 ◽  
Author(s):  
AZARDOKHT MAZAHERI ◽  
HAMID REZA FALLAH ◽  
JAVAD ZARBAKHSH
Keyword(s):  
Photonic Crystal ◽  
Strong Influence ◽  
Local Density ◽  
Optical Source ◽  
Photonic Crystal Cavities ◽  
Frequency Distributions ◽  
Neighboring Layer ◽  
Cavity Modes ◽  
Spectral Distributions ◽  
Photonic States

The relation between position of optical source and excitation of photonic crystal cavity modes are investigated. For multimode cavities, the source position considerably affects the modes' excitation. The frequency distributions of local density of photonic states in a multimode cavity differ for source positions at structural symmetric locations and nonsymmetrical ones. It was also found that the geometry of cavity's neighboring layers has strong influence on the spatial and spectral distributions of modes. The results also show that the shifts of various cavity modes in frequency domain have different sensitivity with respect to geometrical tolerance. This can be used in various applications which need mode tuning.

Ab initio band theory approach to electron energy loss near edge structures

1988 ◽  
Vol 46 ◽  
pp. 506-507
Author(s):  
Xudong Weng ◽  
O.F. Sankey ◽  
Peter Rez
Keyword(s):  
Ab Initio ◽  
Local Density ◽  
Interpolation Method ◽  
Atomic Orbital ◽  
Plane Waves ◽  
Large Set ◽  
Theory Approach ◽  
Band Theory ◽  
Atomic Orbitals ◽  
Pseudopotential Calculations

Single electron band structure techniques have been applied successfully to the interpretation of the near edge structures of metals and other materials. Among various band theories, the linear combination of atomic orbital (LCAO) method is especially simple and interpretable. The commonly used empirical LCAO method is mainly an interpolation method, where the energies and wave functions of atomic orbitals are adjusted in order to fit experimental or more accurately determined electron states. To achieve better accuracy, the size of calculation has to be expanded, for example, to include excited states and more-distant-neighboring atoms. This tends to sacrifice the simplicity and interpretability of the method.In this paper. we adopt an ab initio scheme which incorporates the conceptual advantage of the LCAO method with the accuracy of ab initio pseudopotential calculations. The so called pscudo-atomic-orbitals (PAO's), computed from a free atom within the local-density approximation and the pseudopotential approximation, are used as the basis of expansion, replacing the usually very large set of plane waves in the conventional pseudopotential method. These PAO's however, do not consist of a rigorously complete set of orthonormal states.

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