Acceptor Modes Research Articles

Tolerance and breakdown of topological protection in a disordered waveguide

We consider a disordered waveguide consisting of trivial dielectric and non-trivial magnetically anisotropic material. A topologically protected edge mode appears owing to the broken time-reversal symmetry of the non-trivial lattice. While the edge mode maintains under other position and radius disorders, the protection is immediately broken by applying a radius disorder to the non-trivial lattice. This breakdown originates from donor and acceptor modes occupying the topological bandgap. Furthermore, via the calculation of the Bott index, we show that Anderson localization occurs as a metal conducting gap changes to a topological gap along with increasing disorders.

Ten-Fold Solvent Kinetic Isotope Effect for the Nonradiative Relaxation of the Aqueous Ferrate(VI) Ion.

Hypervalent iron intermediates have been invoked in the catalytic cycles of many metalloproteins, and thus, it is crucial to understand how the coupling between such species and their environment can impact their chemical and physical properties in such contexts. In this work, we take advantage of the solvent kinetic isotope effect (SKIE) to gain insight into the nonradiative deactivation of electronic excited states of the aqueous ferrate(VI) ion. We observe an exceptionally large SKIE of 9.7 for the nanosecond-scale relaxation of the lowest energy triplet ligand field state to the ground state. Proton inventory studies demonstrate that a single solvent O-H bond is coupled to the ion during deactivation, likely due to the sparse vibrational structure of ferrate(VI). Such a mechanism is consistent with that reported for the deactivation of f-f excited states of aqueous trivalent lanthanides, which exhibit comparably large SKIE values. This phenomenon is ascribed entirely to dissipation of energy into a higher overtone of a solvent acceptor mode, as any impact on the apparent relaxation rate due to a change in solvent viscosity is negligible.

Effect of Polarity on the Interaction Energies of some Organic Solvent (OS)-Water System and Formation of Donor-acceptor Complex: Quantum Mechanical MP4 Study

Organic solvent or molecule directly interacts with water molecule then it shows a significant change in the stability of such solvent-water system. Polar organic solvent/molecule shows strong hydrogen bonding interaction in aqueous phase whereas nonpolar solvent shows very weak interaction. In organic solvent-water complexes, solvent plays very important role in the stability of such system, sometimes the solvent will interact with water molecule as proton donor or sometimes it will interact as proton acceptor mode. In gas phase, some common organic solvents may interact with water molecule through different ways and we try to investigate the relative stability and actual mode of interaction of such organic solvent(OS)-water complexes by using computational method. Solvent polarity also plays an important role in such organic solvent (OS)-water complexes; therefore, the effect of polarity on the interacting counterpart need to study by changing the dielectric constant of the solvent system and thus it is necessary to analyze the effect of solvent on such OS-water systems. The minute details of electron transfer pathway and donor-acceptor mechanism of such OS-water complexes have been studied by calculating single point energy and Natural Bond Orbital (NBO) analysis using MP4 methods.

An Efficient Switching-Off of Coherent Anti-Stokes Raman Scattering via Double Stimulated Raman Scattering Processes of Heteromolecular Vibrational Modes.

Recently, we introduced a new switching-off technique applicable to subdiffraction-limited coherent Raman imaging, where a coherent anti-Stokes Raman scattering (CARS) signal can be selectively suppressed via competitive stimulated Raman scattering (SRS) processes between vibrational modes of a single molecular species. Here, we show that such a three-beam CARS suppression can be made via double SRS processes between vibrational modes of heteromolecular species, a mixture of paraffin oil and benzene. We achieve more than 80% suppression of the pump-Stokes-beam CARS signal for the ring-breathing mode (target mode) of benzene when the C-H stretching mode (acceptor mode) of paraffin oil is used to deplete the pump photons via the pump-depletion-beam SRS process. The freedom in the choice of acceptor mode for depletion, which could be a critical advantage of the present switching-off scheme, can be of use for overcoming current challenges of depletion-based super-resolution coherent Raman imaging of biomolecules.

Hydrogen Bonding Interaction and Structural Change in Some Aliphatic Alcohol-Water Complexes: A Quantum Mechanical MP4 Study

Hydrogen bonding interaction in low molecular weight alcohols or lower alcohol (viz. methanol and ethanol) with water molecule is quite common. But, due to the presence of bulky groups in higher alcohols (viz. propanol, butanol and pentanol and their isomers) the hydrogen bonding interaction between alcohol and water molecule is significantly different. In alcohol-water heterodimer complexes, water plays an important role in the stability of such system, alcohol will be interacting with water molecule either as proton donor or proton acceptor mode. Quantum mechanical method, fourth degree Møller-Plesset (MP4) perturbation theory is an important tool for computing the interaction energy between the alcohol-water complexes. The interaction energy (IE) and natural bond orbital (NBO) calculations for some common aliphatic alcohol-water complexes (e.g. methanol, ethanol, propanol, butanol and pentanol) and their isomers were computed by using MP4 method.

Control words of string rewriting P systems

P systems with controlled computations have been introduced and investigated in the recent past, by assigning labels to the rules in the regions of the P system and guiding the computations by control words. Here we consider string rewriting cell-like transition P system with label assigned rules working in acceptor mode and compare the obtained family of languages of control words over the rule labels with certain well-known language families. An application to chain code picture generation is also pointed out.

Halogen-Bonded Co-Crystals of Aromatic N-oxides: Polydentate Acceptors for Halogen and Hydrogen Bonds

Seventeen new halogen-bonded co-crystals characterized by single crystal X-ray analysis are presented from 8 × 4 combinations using methyl-substituted pyridine N-oxides and 1,ω-diiodoperfluoroalkanes. The N−O group in six of 17 co-crystals is monodentate and 11 have μ-O,O bidentate halogen bond acceptor modes. Remarkably, the N−O group in co-crystals of 3-methyl-, 4-methyl- and 3,4-dimethylpyridineN-oxides with octafluoro-1,4-diiodobutane acted as a μ-O,O,O,O halogen and hydrogen bond acceptor, while acting as a μ-O,O,O acceptor in the co-crystal of 2,5-dimethylpyridineN-oxide and tetrafluoro-1,2-diiodoethane. The C−H···O−N hydrogen bonds demonstrated the polydentate cooperativity of the N−O group as a mixed halogen-hydrogen bond acceptor. The co-crystal of 2,4,6-trimethylpyridineN-oxide and dodecafluoro-1,6-diiodohexane exhibited C−I···O−−N+ halogen bonds with RXB value 0.76, the shortest of its kind compared to previously reported structures. The RXB values between 0.76 and 0.83 suggested that the C−I···O−−N halogen bonds are moderately strong compared to our previously studied N−−I···O−−N system, with RXB in the order 0.66.

The properties of two-dimensional fractal plasma photonic crystals with Thue-Morse sequence

In this paper, the properties of the acceptor modes and photonic band gaps (PBGs) of two-dimensional (2D) fractal plasma photonic crystals (PPCs) under a transverse-magnetic wave are theoretically studied by a modified plane wave expansion method. The density of states is calculated to elaborate the characteristics of the proposed 2D PPCs in which the dielectric cylinders are inserted in the plasma background according to the iteration rule of the Thue-Morse sequence with square lattices. The band structures of the proposed PPCs and 2D PPCs with a conventional square lattice are numerically determined to analyse the properties of PBGs and acceptor modes. The results illustrate that the performance is improved in the proposed PPCs compared to the 2D conventional PPCs with similar lattices. The larger PBGs and higher cutoff frequency are obtained when the Thue-Morse structure is introduced. The lowest edges of PBGs are flat, and they are originated from the Mie resonances. The acceptor modes can be considered as the quasi-localized states since the Thue-Morse sequence has the self-similarity and non-periodicity at the same time. The influences of configurational parameters on the properties of the proposed PPCs are studied in detail as well. The results demonstrate that the PBGs and acceptor modes can be easily tuned by changing those configurational parameters.

Effect of sudden addition of PCE and bioreactor coupling to ZVI filters on performance of fluidized bed bioreactors operated in simultaneous electron acceptor modes.

The present work evaluated the effects of (i) feeding a water contaminated with 80mg/L PCE to bioreactors seeded with inoculum not acclimated to PCE, (ii) coupling ZVI side filters to bioreactors, and (iii) working in different biological regimes, i.e., simultaneous methanogenic aeration and simultaneous methanogenic-denitrifying regimes, on fluidized bed bioreactor performance. Simultaneous electron acceptors refer to the simultaneous presence of two compounds operating as final electron acceptors in the biological respiratory chain (e.g., use of either O2 or NO3- in combination with a methanogenic environment) in a bioreactor or environmental niche. Four lab-scale, mesophilic, fluidized bed bioreactors (bioreactors) were implemented. Two bioreactors were operated as simultaneous methanogenic-denitrifying (MD) units, whereas the other two were operated in partially aerated methanogenic (PAM) mode. In the first period, all bioreactors received a wastewater with 1g chemical oxygen demand of methanol per liter (COD-methanol/L). In a second period, all the bioreactors received the wastewater plus 80mg perchloroethylene (PCE)/L; at the start of period 2, one MD and one PAM were coupled to side sand-zero valent iron filters (ZVI). All bioreactors were inoculated with a microbial consortium not acclimated to PCE. In this work, the performance of the full period 1 and the first 60days of period 2 is reported and discussed. The COD removal efficiency and the nitrate removal efficiency of the bioreactors essentially did not change between period 1 and period 2, i.e., upon PCE addition. On the contrary, specific methanogenic activity in PAM bioreactors (both with and without coupled ZVI filter) significantly decreased. This was consistent with a sharp fall of methane productivity in those bioreactors in period 2. During period 2, PCE removals in the range 86 to 97% were generally observed; the highest removal corresponded to PAM bioreactors along with the highest dehalogenation efficiency (94%). Principal component analysis as well as cluster analysis confirmed the trends mentioned above, i.e., the better performance of PAM over MD, and the unexpected no effect of the ZVI side filters on PCE removal and dehalogenation efficiencies. To the best of our knowledge, this is the first report on the combined treatment ZVI-biological of a water polluted with PCE, where the biological operation relied on simultaneous electron acceptors.

Kinetically-constrained ring-polymer molecular dynamics for non-adiabatic chemistries involving solvent and donor-acceptor dynamical effects.

We investigate the performance of the recently developed kinetically-constrained ring polymer molecular dynamics (KC-RPMD) method for the description of model condensed-phase electron transfer (ET) reactions in which solvent and donor-acceptor dynamics play an important role. Comparison of KC-RPMD with results from Golden-Rule rate theories and numerically exact quantum dynamics calculations demonstrates that KC-RPMD accurately captures the combination of electronic- and nuclear-dynamical effects throughout the Marcus (intermediate solvent friction) and Zusman (large solvent friction) regimes of ET. It is also demonstrated that KC-RPMD accurately describes systems in which the magnitude of the diabatic coupling depends on the position of a dynamical donor-acceptor mode. In addition to these successes, however, we present an unsurprising failure of KC-RPMD to capture the enhancement of the ET rate in the low solvent friction regime associated with nuclear coherence effects. In this analysis, we re-visit several aspects of the original KC-RPMD formulation, including the form of the kinetic constraint and the choice of the mass of the auxiliary electronic variable. In particular, we introduce a Langevin bath for the auxiliary electronic variable to correct for its unphysically low coupling with the nuclear degrees of freedom. This work demonstrates that the KC-RPMD method is well suited for the direct simulation of non-adiabatic donor-acceptor chemistries associated with many complex systems, including those for which solvent dynamics plays an important role in the reaction mechanism.

Donor-acceptor type co-crystals of arylthio-substituted tetrathiafulvalenes and fullerenes.

A series of donor–acceptor type co-crystals of fullerene (as the acceptor) and arylthio-substituted tetrathiafulvalene derivatives (Ar-S-TTF, as the donor) were prepared and their structural features were thoroughly investigated. The formation of co-crystals relies on the flexibility of Ar-S-TTF and the size matches between Ar-S-TTF and fullerene. Regarding their compositions, the studied co-crystals can be divided into two types, where types I and II have donor:acceptor ratios of 1:1 and 1:2, respectively. Multiple intermolecular interactions are observed between the donor and acceptor, which act to stabilize the structures of the resulting co-crystals. In the type I co-crystals, the fullerene molecule is surrounded by four Ar-S-TTF molecules, that is, two Ar-S-TTF molecules form a sandwich structure with one fullerene molecule and the other two Ar-S-TTF molecules interact with the fullerene molecule along their lateral axes. In the type II co-crystals, one fullerene molecule has the donor–acceptor mode similar to that in type I, whereas the other fullerene molecule is substantially surrounded by the aryl groups on Ar-S-TTF molecules and the solvent molecules.

Analyzing the properties of acceptor mode in two-dimensional plasma photonic crystals based on a modified finite-difference frequency-domain method

In this paper, the properties of acceptor mode in two-dimensional plasma photonic crystals (2D PPCs) composed of the homogeneous and isotropic dielectric cylinders inserted into nonmagnetized plasma background with square lattices under transverse-magnetic wave are theoretically investigated by a modified finite-difference frequency-domain (FDFD) method with supercell technique, whose symmetry of every supercell is broken by removing a central rod. A new FDFD method is developed to calculate the band structures of such PPCs. The novel FDFD method adopts a general function to describe the distribution of dielectric in the present PPCs, which can easily transform the complicated nonlinear eigenvalue equation to the simple linear equation. The details of convergence and effectiveness of proposed FDFD method are analyzed using a numerical example. The simulated results demonstrate that the enough accuracy of the proposed FDFD method can be observed compared to the plane wave expansion method, and the good convergence can also be obtained if the number of meshed grids is large enough. As a comparison, two different configurations of photonic crystals (PCs) but with similar defect are theoretically investigated. Compared to the conventional dielectric-air PCs, not only the acceptor mode has a higher frequency but also an additional photonic bandgap (PBG) can be found in the low frequency region. The calculated results also show that PBGs of proposed PPCs can be enlarged as the point defect is introduced. The influences of the parameters for present PPCs on the properties of acceptor mode are also discussed in detail. Numerical simulations reveal that the acceptor mode in the present PPCs can be easily tuned by changing those parameters. Those results can hold promise for designing the tunable applications in the signal process or time delay devices based on the present PPCs.

Ionization suppression effects with condensed phase membrane introduction mass spectrometry: methods to increase the linear dynamic range and sensitivity.

Condensed phase membrane introduction mass spectrometry (CP-MIMS) is an online analytical method that allows for the direct, trace level measurement of a wide range of analytes in complex samples. The technique employs a semi-permeable membrane that transfers analytes from a sample into a flowing acceptor solvent, which is directly infused to an atmospheric pressure ionization source, such as electrospray or atmospheric pressure chemical ionization. While CP-MIMS and variants of the technique have been in the literature for nearly a decade, much of the work has focused on instrument development. Few studies have thoroughly addressed quantitative methods related to detection limits, ionization suppression, or linear dynamic range. We examine ionization suppression in the direct rapid quantitation of analytes by CP-MIMS and introduce several analytical strategies to mitigate these effects, including the novel implementation of a continuously infused internal standard in the acceptor phase solvent, and modulation of acceptor phase flow rate. Several representative analytes were used to evaluate this approach with spiked, complex sample matrices, including primary wastewater effluent and artificial urine. Also reported are improved measured detection limits in the low part-per-trillion range, using a 'stopped-flow' acceptor mode.

Broadband two dimensional infrared spectroscopy of cyclic amide 2-Pyrrolidinone.

In the past one-and-a-half decade there has been a significant methodological and technological development of two dimensional infrared (2DIR) spectroscopy, which unfolds many underlying physical and chemical processes of complex molecules, especially for biological molecules. Due to the extreme technical difficulties and non-uniform performance of ultrafast laser, so far, the method has been mostly applied to a small spectral region. A rather simple experimental methodology is presented here which is able to cover a broad spectral range from 1500 cm(-1) to 3500 cm(-1) to explore the molecular structure of cyclic amide, 2-Pyrrolidinone, via the time-resolved coupling of CO, CH and NH stretch vibrations. The signature of the coherent as well as incoherent coupling has been found. The amide-I band is incoherently coupled to CH and NH stretch vibrations and acts as an acceptor mode for vibrational energy relaxation from CH and NH stretch vibrations.

Frequency Modulated Femtosecond Stimulated Raman Spectroscopy of Ultrafast Energy Transfer in a Donor–Acceptor Copolymer

A Raman-pump frequency modulation scheme and an automated signal-processing algorithm are developed for improved collection of time-resolved femtosecond stimulated Raman spectra. Together, these two advancements remove the broad background signals endemic to FSRS measurements and retrieve signals with high sensitivity. We apply this frequency-modulated femtosecond stimulated Raman spectroscopy (FM-FSRS) to the characterization of ultrafast energy transport in a copolymer comprised of polystyrene linked oligo(phenylene-ethynylene) donor and thiophene-benzothiadiazole acceptor chromophores. After photoexcitation of the donor, ultrafast energy transfer is monitored by the decay of donor vibrational modes and simultaneous growth of acceptor modes. The FM-FSRS method shows clear advantages in signal-to-noise levels, mitigation of artifact features, and ease of data processing over the conventional FSRS technique.

Cobalt Phthalocyanine–Graphene Oxide Nanocomposite: Complicated Mutual Electronic Interaction

Through the adsorption/intercalation of cobalt phthalocyanine (CoPc) onto/into graphene oxide (GO) layers, CoPc–GO nanocomposite was prepared via a simple solvent evaporation method driven by the electronic interaction between CoPc and GO. The interaction between GO and CoPc has been studied in detail by various methods. The result suggests that the interaction does not follow a simple donor–acceptor mode, but, instead, it is complicated two-way process including the transfer of electron from the graphitic domain to the adsorbed/intercalated CoPc, and a feedback from the Co ions through the ligand-like attacking of oxygen functional groups of GO to the central cobalt ions. The obtained structural hybrid materials have potential in the electrochemical detection of the compounded medicine.

Structural Dynamics of a Noncovalent Charge Transfer Complex from Femtosecond Stimulated Raman Spectroscopy

Femtosecond stimulated Raman spectroscopy is used to examine the structural dynamics of photoinduced charge transfer within a noncovalent electron acceptor/donor complex of pyromellitic dianhydride (PMDA, electron acceptor) and hexamethylbenzene (HMB, electron donor) in ethylacetate and acetonitrile. The evolution of the vibrational spectrum reveals the ultrafast structural changes that occur during the charge separation (Franck-Condon excited state complex → contact ion pair) and the subsequent charge recombination (contact ion pair → ground state complex). The Franck-Condon excited state is shown to have significant charge-separated character because its vibrational spectrum is similar to that of the ion pair. The charge separation rate (2.5 ps in ethylacetate and ∼0.5 ps in acetonitrile) is comparable to solvation dynamics and is unaffected by the perdeuteration of HMB, supporting the dominant role of solvent rearrangement in charge separation. On the other hand, the charge recombination slows by a factor of ∼1.4 when using perdeuterated HMB, indicating that methyl hydrogen motions of HMB mediate the charge recombination process. Resonance Raman enhancement of the HMB vibrations in the complex reveals that the ring stretches of HMB, and especially the C-CH(3) deformations are the primary acceptor modes promoting charge recombination.

Molecular dynamics simulation and quantum mechanical calculations on α-d-N-acetylneuraminic acid

N-Acetylneuraminic acid is a sugar molecule of biological significance due to its pivotal role in molecular recognition processes. The three dimensional structure and conformation of α-Neu5Ac in biological environments can be clearly observed by molecular dynamics (MD) simulation and quantum mechanical (QM) calculations. A 10ns MD simulation on α-Neu5Ac yields two conformational models which are stabilized by water mediated hydrogen bond between O-8/O-9 hydroxyl oxygen and carbonyl of carboxylate group. The average life time of the conformers and the residual time of water which mediates the hydrogen bonding interactions are computed. Based on the amphiprotic nature of water, water mediation of each conformer is divided into two different modes, one donor–one acceptor mode and two donor modes. According to the analysis of simulation trajectories, the preferred mode of water mediation for conformers is the one donor–one acceptor mode. The energy and geometry of the MD derived conformational models of α-Neu5Ac are optimized using HF/6-31G∗ basis set of Gaussian03. QM calculations also resulted that α-Neu5Ac is preferentially stabilized by water mediated hydrogen bonding between O-8 hydroxyl and the carboxylate group where the mediation is one donor–one acceptor type. The optimized geometry of α-Neu5Ac which is in good agreement with the crystal structure of α-d-N-acetyl-1-O-methylneuraminic acid methyl ester is deposited in the public domain database 3DSDSCAR (http://3dsdscar.org). This optimized structure can be used by biotechnologists, biophysicists and glycobiologists for modelling the sialylglycans and also to design drugs using sialic acid analog inhibitors.

Effect of Sudden Increase of PCE Concentration on Performance of Fluidized Bed Bioreactors Operated in Simultaneos Electron Acceptor Modes

Effect of Sudden Increase of PCE Concentration on Performance of Fluidized Bed Bioreactors Operated in Simultaneos Electron Acceptor Modes

Ethanol Monomers and Dimers Revisited: A Raman Study of Conformational Preferences and Argon Nanocoating Effects

The gauche-trans conformational distribution in ethanol can be determined from the OH stretching Raman spectrum of seeded supersonic jet expansions, which thus provides a sensitive conformational thermometer. Depending on the rare gas mixture, one, two or four ethanol dimer conformations are abundant. Their conformational assignment is facilitated by the observation of hydrogen bond acceptor modes, which have similar Raman cross sections but much inferior infrared intensities than donor modes. Ethanol monomers and dimers can be progressively Ar-coated, and the resulting spectra may be compared with those in a bulk argon matrix. The low frequency range of torsional transitions provides some evidence for conformation-changing transitions in Raman jet spectra.