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We report on the motional and proton transfer dynamics of the super photobase FR0-SB in the series of normal alcohols C1 (methanol) through C8 ( n -octanol) and ethylene glycol. Steady-state and time-resolved fluorescence data reveal that the proton abstraction dynamics of excited FR0-SB depend on the identity of the solvent and that the transfer of the proton from solvent to FR0-SB*, forming FR0-HSB + *, fundamentally alters the nature of interactions between the excited molecule and its surroundings. In its unprotonated state, solvent interactions with FR0-SB* are consistent with slip limit behavior, and in its protonated form, intermolecular interactions are consistent with a much stronger interaction of FR0-HSB + * with the deprotonated solvent RO - . We understand the excited-state population dynamics in the context of a kinetic model involving a transition state wherein FR0-HSB + * is still bound to the negatively charged alkoxide, prior to solvation of the two charged species. Data acquired in ethylene glycol confirm the hypothesis that the rotational diffusion dynamics of FR0-SB* are largely mediated by solvent viscosity while proton transfer dynamics are mediated by the lifetime of the transition state. Taken collectively, our results demonstrate that FR0-SB* extracts solvent protons efficiently and in a predictable manner, consistent with a ca. 3-fold increase in dipole moment upon photoexcitation as determined by ab initio calculations based on the equation-of-motion coupled-cluster theory.

Bacteriorhodopsin represents the simplest, and possibly most abundant, phototropic system requiring only a retinal-bound transmembrane protein to convert photons of light to an energy-generating proton gradient. The creation and interrogation of a microbial rhodopsin mimic, based on an orthogonal protein system, would illuminate the design elements required to generate new photoactive proteins with novel function. We describe a microbial rhodopsin mimic, created using a small soluble protein as a template, that specifically photoisomerizes all- trans to 13- cis retinal followed by thermal relaxation to the all- trans isomer, mimicking the bacteriorhodopsin photocycle, in a single crystal. The key element for selective isomerization is a tuned steric interaction between the chromophore and protein, similar to that seen in the microbial rhodopsins. It is further demonstrated that a single mutation converts the system to a protein photoswitch without chromophore photoisomerization or conformational change.

Quantum coherent control (QCC) has been successfully demonstrated experimentally and theoretically for two- and three-photon optical excitation of atoms and molecules. Here, we explore QCC using spectral phase functions with a single spectral phase step for controlling the yield of H 3 + from methanol under strong laser field excitation. We observe a significant and systematic enhanced production of H 3 + when a negative 34 π phase step is applied near the low energy region of the laser spectrum and when a positive 34 π phase step is applied near the high energy region of the laser spectrum. In some cases, most notably the HCO + fragment, we found the enhancement exceeded the yield measured for transform limited pulses. The observation of enhanced yield is surprising and far from the QCC prediction of yield suppression. The observed QCC enhancement implies an underlying strong field process responsible for polyatomic fragmentation controllable by easy to reproduce shaped pulses.

Roaming chemical reactions are often associated with neutral molecules. The recent findings of roaming processes in ionic species, in particular, ones that lead to the formation of H 3 + under strong-field laser excitation, are of considerable interest. Given that such gas-phase reactions are initiated by double ionization and subsequently facilitated through deprotonation, we investigate the strong-field photodissociation of ethanethiol, also known as ethyl mercaptan, and compare it to results from ethanol. Contrary to expectations, the H 3 + yield was found to be an order of magnitude lower for ethanethiol at certain laser field intensities, despite its lower ionization energy and higher acidity compared to ethanol. In-depth analysis of the femtosecond time-resolved experimental findings, supported by ab initio quantum mechanical calculations, provides key information regarding the roaming mechanisms related to H 3 + formation. Results of this study on the dynamics of dissociative half-collisions involving H 3 + , a vital cation which acts as a Brønsted-Lowry acid protonating interstellar organic compounds, may also provide valuable information regarding the formation mechanisms and observed natural abundances of complex organic molecules in interstellar media and planetary atmospheres.

Roaming mechanisms, involving the brief generation of a neutral atom or molecule that stays in the vicinity before reacting with the remaining atoms of the precursor, are providing valuable insights into previously unexplained chemical reactions. Here, the mechanistic details and femtosecond time-resolved dynamics of H 3 + formation from a series of alcohols with varying primary carbon chain lengths are obtained through a combination of strong-field laser excitation studies and ab initio molecular dynamics calculations. For small alcohols, four distinct pathways involving hydrogen migration and H 2 roaming prior to H 3 + formation are uncovered. Despite the increased number of hydrogens and possible combinations leading to H 3 + formation, the yield decreases as the carbon chain length increases. The fundamental mechanistic findings presented here explore the formation of H 3 + , the most important ion in interstellar chemistry, through H 2 roaming occurring in ionic species.

Molecular reactivity can change dramatically with the absorption of a photon due to the difference of the electronic configurations between the excited and ground states. Here we report on the discovery of a modular system (Schiff base formed from an aldehyde and an amine) that upon photoexcitation yields a more basic imine capable of intermolecular proton transfer from protic solvents. Ultrafast dynamics of the excited state conjugated Schiff base reveals the pathway for proton transfer, culminating in a 14-unit increase in pK a to give the excited state pK a * >20 in ethanol., (© 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.)

Ultrafast lasers have potential use in ophthalmology for diagnoses through non-invasive imaging as well as for surgical therapies or for evaluating pharmacological therapies. New ultrafast laser sources, operating at 1.07 μm and sub-40 fs pulse durations, offer exciting possibilities in multiphoton imagining of the retina as the bulk of the eye is relatively transparent to this wavelength, three-photon excitation is not absorbed by DNA, and this wavelength has a greater penetration depth compared to the commonly used 800 nm Ti:Sapphire laser. In this work, we present the first epi-direction detected cross-section and depth-resolved images of unstained isolated retinas obtained using multiphoton microscopy with an ultrafast fiber laser centered at 1.07 μm and a ~38 fs pulse duration. Spectral and temporal characterization of the autofluorescence signals show two distinct regions; the first one from the nerve fiber layer to the inner receptor layer, and the second being the retinal pigmented epithelium and choroid., Competing Interests: MD Biophotonic Solutions Inc. and IPG Photonics (C, P), GP Polgenix Inc. (I, E), KP Polgenix Inc. (I. S). All other authors declare that there are no conflicts of interest related to this article.

We report on the use of charge-transfer complexes between amines and carbon tetrachloride, as a novel way to activate the amine for photochemical reactions. This principle is demonstrated in a mild, transition metal free, visible light assisted, dealkylative amide formation from feedstock carboxylic acids and amines. The low absorption coefficient of the complex allows deep light penetration and thus scale up to a gram scale.

Strong-field laser-matter interactions often lead to exotic chemical reactions. Trihydrogen cation formation from organic molecules is one such case that requires multiple bonds to break and form. We present evidence for the existence of two different reaction pathways for H 3 + formation from organic molecules irradiated by a strong-field laser. Assignment of the two pathways was accomplished through analysis of femtosecond time-resolved strong-field ionization and photoion-photoion coincidence measurements carried out on methanol isotopomers, ethylene glycol, and acetone. Ab initio molecular dynamics simulations suggest the formation occurs via two steps: the initial formation of a neutral hydrogen molecule, followed by the abstraction of a proton from the remaining CHOH 2+ fragment by the roaming H 2 molecule. This reaction has similarities to the H 2  + H 2 + mechanism leading to formation of H 3 + in the universe. These exotic chemical reaction mechanisms, involving roaming H 2 molecules, are found to occur in the ~100 fs timescale. Roaming molecule reactions may help to explain unlikely chemical processes, involving dissociation and formation of multiple chemical bonds, occurring under strong laser fields.

The optically populated excited state wave packet propagates along multidimensional intramolecular coordinates soon after photoexcitation. This action occurs alongside an intermolecular response from the surrounding solvent. Disentangling the multidimensional convoluted signal enables the possibility to separate and understand the initial intramolecular relaxation pathways over the excited state potential energy surface. Here we track the initial excited state dynamics by measuring the fluorescence yield from the first excited state as a function of time delay between two color femtosecond pulses for several cyanine dyes having different substituents. We find that when the high frequency pulse precedes the low frequency one and for timescales up to 200 fs, the excited state population can be depleted through stimulated emission with efficiency that is dependent on the molecular electronic structure. A similar observation at even shorter times was made by scanning the chirp (frequencies ordering) of a femtosecond pulse. The changes in depletion reflect the rate at which the nuclear coordinates of the excited state leave the Franck-Condon (FC) region and progress towards achieving equilibrium. Through functional group substitution, we explore these dynamic changes as a function of dipolar change following photoexcitation. Density functional theory calculations were performed to provide greater insight into the experimental spectroscopic observations. Complete active space (CAS) self-consistent field and CAS second order perturbation theory calculated potential energy surfaces tracking twisting and pyramidalization confirm that the steeper potential at the FC region leads to the observation of faster wave packet dynamics.

We report the development of a non-contact no-reagents system operating in the eye-safe 1560-1800 nm wavelength range for standoff trace detection of explosives and high-speed imaging. Experimental results are provided for a number of chemicals including explosives on a variety of surfaces at sub-microgram per cm 2 concentration. Chemically specific images were collected at 0.06 ms per pixel. Results from this effort indicate that the combination of modern industrial fiber lasers and nonlinear optical spectroscopy can address next generation eye-safe trace detection of chemicals including explosives.

In this work, we present all epi-direction detected images of an unstained mouse retina using multiphoton microscopy with a sub-50 fs Yb-fiber laser centered at 1.07 μm. This wavelength is particularly interesting as the fundamental wavelength is transparent to the anterior segment of the eye and the higher harmonics are above DNA-damaging UV wavelengths. We present a characterization of the multimodal signals emitted from the different retinal layers, as well as from the choroid and the sclera. By characterizing native multiphoton signals from the retina, we move closer to having Yb-fiber considered for in vivo diagnosis of retinal disease through multiphoton microscopy as well as for corrective therapies.

Ultrashort pulse generation in the 1600 nm wavelength region is required for deep-tissue biomedical imaging. We report on the characterization and adaptive compression of a multi-soliton output spanning >300 nm from a large-mode area photonic-crystal fiber rod for two separate laser setups. Sub-30 fs pulses are generated by first compressing of each soliton individually, and then followed by coherently combining all of the pulses in the train, which are separated by hundreds of femtoseconds. Simulations of the source, together with amplitude and phase coherence measurements are provided.

While the interaction of atoms in strong fields is well understood, the same cannot be said about molecules. We consider how dissociative ionization of molecules depends on the quality of the femtosecond laser pulses, in particular, the presence of third- and fourth-order dispersion. We find that high-order dispersion (HOD) unexpectedly results in order-of-magnitude enhanced ion yields, along with the factor of 3 greater kinetic energy release compared to transform-limited pulses with equal peak intensities. The magnitude of these effects is not caused by increased pulse duration. We evaluate the role of pulse pedestals produced by HOD and other pulse shaping approaches, for a number of molecules including acetylene, methanol, methylene chloride, acetonitrile, toluene, and o-nitrotoluene, and discuss our findings in terms of processes such as prealignment, preionization, and bond softening. We conclude, based on the quasi-symmetric temporal dependence of the observed enhancements that cascade ionization is likely responsible for the large accumulation of charge prior to the ejection of energetic fragments along the laser polarization axis.

Red blood cells (RBC) in two-photon excited fluorescence (TPEF) microscopy usually appear as dark disks because of their low fluorescent signal. Here we use 15fs 800nm pulses for TPEF, 45fs 1060nm pulses for three-photon excited fluorescence, and third harmonic generation (THG) imaging. We find sufficient fluorescent signal that we attribute to hemoglobin fluorescence after comparing time and wavelength resolved spectra of other expected RBC endogenous fluorophores: NADH, FAD, biliverdin, and bilirubin. We find that both TPEF and THG microscopy can be used to examine erythrocyte morphology non-invasively without breaching a blood storage bag.

The preparation, staining, visualization, and interpretation of histological images of tissue is well-accepted as the gold standard process for the diagnosis of disease. These methods were developed historically, and are used ubiquitously in pathology, despite being highly time and labor intensive. Here we introduce a unique optical imaging platform and methodology for label-free multimodal multiphoton microscopy that uses a novel photonic crystal fiber source to generate tailored chemical contrast based on programmable supercontinuum pulses. We demonstrate collection of optical signatures of the tumor microenvironment, including evidence of mesoscopic biological organization, tumor cell migration, and (lymph-)angiogenesis collected directly from fresh ex vivo mammary tissue. Acquisition of these optical signatures and other cellular or extracellular features, which are largely absent from histologically processed and stained tissue, combined with an adaptable platform for optical alignment-free programmable-contrast imaging, offers the potential to translate stain-free molecular histopathology into routine clinical use.

Controlling stimulated emission is of importance because it competes with absorption and fluorescence under intense laser excitation. We performed resonant nonlinear optical spectroscopy measurements using femtosecond pulses shaped by π- or π/2-step phase functions and carried out calculations based on density matrix representation to elucidate the experimental results. In addition, we compared enhancements obtained when using other pulse shaping functions (chirp, third-order dispersion, and a time-delayed probe). The light transmitted through the high optical density solution was dominated by an intense stimulated emission feature that was 14 times greater for shaped pulses than for transform limited pulses. Coherent enhancement depending on the frequency, temporal, and phase characteristics of the shaped pulse is responsible for the experimental observations.

Fast population transfer from higher to lower excited states occurs via internal conversion (IC) and is the basis of Kasha's rule, which states that spontaneous emission takes place from the lowest excited state of the same multiplicity. Photonic control over IC is of interest because it would allow direct influence over intramolecular nonradiative decay processes occurring in condensed phase. Here we tracked the S2 and S1 fluorescence yield for different cyanine dyes in solution as a function of linear chirp. For the cyanine dyes with polar solvation response IR144 and meso-piperidine substituted IR806, increased S2 emission was observed when using transform limited pulses, whereas chirped pulses led to increased S1 emission. The nonpolar solvated cyanine IR806, on the other hand, did not show S2 emission. A theoretical model, based on a nonperturbative solution of the equation of motion for the density matrix, is offered to explain and simulate the anomalous chirp dependence. Our findings, which depend on pulse properties beyond peak intensity, offer a photonic method to control S2 population thereby opening the door for the exploration of photochemical processes initiated from higher excited states.

Ultrashort femtosecond pulsed lasers may provide indispensable benefits for medical bioimaging and diagnosis, particularly for noninvasive biopsy. However, the ability of femtosecond laser irradiation to produce biodamage in the living body is still a concern. To solve this biosafety issue, results of theoretical estimations as well as the in vitro and in situ experiments on femtosecond biodamage should be verified by experimental studies conducted in vivo. Here, we analyzed photodamage produced by femtosecond (19, 42 and 100 fs) near-infrared (NIR; ~800 nm) laser pulses with an average power of 5 and 15 mW in living undissected Drosophila larvae (in vivo). These experimental data on photodamage in vivo agree with the results of theoretical modeling of other groups. Femtosecond NIR laser pulses may affect the concentration of fluorescent biomolecules localized in mitochondria of the cells of living undissected Drosophila larva. Our findings confirm that the results of the mathematical models of femtosecond laser ionization process in living tissues may have a practical value for development of noninvasive biopsy based on the use of femtosecond pulses., (© 2016 The American Society of Photobiology.)

Recent success with trace explosives detection based on the single ultrafast pulse excitation for remote stimulated Raman scattering (SUPER-SRS) prompts us to provide new results and a Perspective that describes the theoretical foundation of the strategy used for achieving the desired sensitivity and selectivity. SUPER-SRS provides fast and selective imaging while being blind to optical properties of the substrate such as color, texture, or laser speckle. We describe the strategy of combining coherent vibrational excitation with a reference pulse in order to detect stimulated Raman gain or loss. A theoretical model is used to reproduce experimental spectra and to determine the ideal pulse parameters for best sensitivity, selectivity, and resolution when detecting one or more compounds simultaneously.

We report the use of binary phase shaping to mitigate pulse degradation and self-focusing in fused silica. The results of simulation and estimated mitigation efficiency are supported by experimental results using both chirped and binary phase-shaped pulses. Possible applications are considered.

We report the generation of square temporal-shape pulses with no loss of spectral bandwidth, using an analytic expression for the spectral phase modulation dependent only on the input spectrum and stretching factor. We demonstrate numerically and experimentally conversion of 40fs pulses into 150 times longer flat top pulses with sharp on and off fronts. Applications in pulse amplification and free electron lasers are considered.

There are few methods capable of characterizing pulse-to-pulse noise in high repetition rate ultrafast lasers. Here we use a recently developed method, termed fidelity, to determine the spectral amplitude and phase noise that leads to lack of pulse repeatability and degrades the performance of laser sources. We present results for a titanium sapphire oscillator and a regenerative amplifier system under different noise conditions. Our experimental results are backed by numerical calculations.

We present experimental measurements of localized surface plasmon emission from individual silver nanoparticles and small clusters via accurately delayed femtosecond laser pulses. Fourier transform analysis of the nanoplasmonic coherence oscillations reveals different frequency components and dephasing rates for each nanoparticle. We find three different types of behavior: single exponential decay, beating between two frequencies, and beating among three or more frequencies. Our results provide insight into inhomogeneous and homogeneous broadening mechanisms in nanoplasmonic spectroscopy that depend on morphology and nearby neighbors. In addition, we find the optical response of certain pairs of nanoparticles to be at least an order of magnitude more intense than the response of single particles.

Nonlinear optical applications depend on pulse duration and coherence of the laser pulses. Characterization of high-repetition rate pulsed laser sources can be complicated by their pulse-to-pulse instabilities. Here, we introduce and demonstrate experimentally a quantitative measurement that can be used to determine the pulse-to-pulse fidelity of ultrafast laser sources. Numerical simulations and experiments illustrate the effect of spectral phase and amplitude noise on second and third harmonic generation.

Differences in the excited state dynamics of molecules and photo-activated drugs either in solution or confined inside protein pockets or large biological macromolecules occur within the first few hundred femtoseconds. Shaped femtosecond laser pulses are used to probe the behavior of indocyanine green (ICG), the only Food and Drug Administration (FDA) approved near-infrared dye and photodynamic therapy agent, while free in solution and while confined inside the pocket of the human serum albumin (HSA) protein. Experimental findings indicate that the HSA pocket hinders torsional motion and thus mitigates the triplet state formation in ICG. Low frequency vibrational motion of ICG is observed more clearly when it is bound to the HSA protein.

Advancing the practical utility of nonlinear optical microscopy requires continued improvement in imaging depth and contrast. We evaluated second-harmonic generation (SHG) and third-harmonic generation images from ex vivo human skin and showed that a sub-40 fs, 1060-nm Yb-fiber laser can enhance SHG penetration depth by up to 80% compared to a >100 fs, 800 nm Ti:sapphire source. These results demonstrate the potential of fiber-based laser systems to address a key performance limitation related to nonlinear optical microscopy (NLOM) technology while providing a low-barrier-to-access alternative to Ti:sapphire sources that could help accelerate the movement of NLOM into clinical practice.

Interaction of intense laser pulses with atoms and molecules is at the forefront of atomic, molecular, and optical physics. It is the gateway to powerful new tools that include above threshold ionization, high harmonic generation, electron diffraction, molecular tomography, and attosecond pulse generation. Intense laser pulses are ideal for probing and manipulating chemical bonding. Though the behavior of atoms in strong fields has been well studied, molecules under intense fields are not as well understood and current models have failed in certain important aspects. Molecules, as opposed to atoms, present confounding possibilities of nuclear and electronic motion upon excitation. The dynamics and fragmentation patterns in response to the laser field are structure sensitive; therefore, a molecule cannot simply be treated as a "bag of atoms" during field induced ionization. In this article we present a set of experiments and theoretical calculations exploring the behavior of a large collection of aryl alkyl ketones when irradiated with intense femtosecond pulses. Specifically, we consider to what extent molecules retain their molecular identity and properties under strong laser fields. Using time-of-flight mass spectrometry in conjunction with pump-probe techniques we study the dynamical behavior of these molecules, monitoring ion yield modulation caused by intramolecular motions post ionization. The set of molecules studied is further divided into smaller sets, sorted by type and position of functional groups. The pump-probe time-delay scans show that among positional isomers the variations in relative energies, which amount to only a few hundred millielectronvolts, influence the dynamical behavior of the molecules despite their having experienced such high fields (V/Å). High level ab initio quantum chemical calculations were performed to predict molecular dynamics along with single and multiphoton resonances in the neutral and ionic states. We propose the following model of strong-field ionization and subsequent fragmentation for polyatomic molecules: Single electron ionization occurs on a suboptical cycle time scale, and the electron carries away essentially all of the energy, leaving behind little internal energy in the cation. Subsequent fragmentation of the cation takes place as a result of further photon absorption modulated by one- and two-photon resonances, which provide sufficient energy to overcome the dissociation energy. The proposed hypothesis implies the loss of a photoelectron at a rate that is faster than intramolecular vibrational relaxation and is consistent with the observation of nonergodic photofragmentation of polyatomic molecules as well as experimental results from many other research groups on different molecules and with different pulse durations and wavelengths.

We report on the experimental observation of fluid flow caused by propagation of femtosecond filaments in dry air. We find that the ionization of the medium deposits a non-negligible amount of heat, which creates vortices in a semi-confined glass cylinder. We confirm the influence of thermal gradients on vortex formation by the use of a heated wire in a similar configuration.

An intense laser pulse is used to control the spectral phase of a weak probe pulse as they overlap in fused silica. The laser-induced linear chirp is controlled by the delay time between pulses. Dependence from intensity and spectral phase of the pump pulse is also studied. Experimental data is validated by numerical simulation based on optical Kerr effect. Results show that laser-induced pulse shaping is possible and may be useful for intracavity pulse compression and shaping in enhancement cavities.

The spectroscopy of large organic molecules and biomolecules in solution has been investigated using various time-resolved and frequency-resolved techniques. Of particular interest is the early response of the molecule and the solvent, which is difficult to study due to the ambiguity in assigning and differentiating inter- and intramolecular contributions to the electronic and vibrational populations and coherence. Our measurements compare the yield of fluorescence and stimulated emission for two laser dyes IR144 and IR125 as a function of chirp. While negatively chirped pulses are insensitive to solvent viscosity, positively chirped pulses are found to be uniquely sensitive probes of solvent viscosity. The fluorescence maximum for IR125 is observed near transform-limited pulses; however, for IR144, it is observed for positively chirped pulses once the pulses have been stretched to hundreds of femtoseconds. We conclude that chirped pulse spectroscopy is a simple one-beam method that is sensitive to early solvation dynamics.

We present 20fs(2) accuracy laser-induced group velocity dispersion (LI-GVD) measurements, resulting from propagation of a femtosecond laser pulse in 1mm of fused silica, as a function of peak intensity. For a 5.5 × 10(11) W/cm(2) peak intensity, LI-GVD values are found to vary from -3 to + 15 times the material GVD. Normal induced dispersion can be explained by the Kerr effect, but anomalous LI-GVD, found when the input pulses have negative pre-chirp, cannot. These findings have significant implications regarding self-compression and the design of femtosecond lasers.

The potential application of nonlinear optical imaging diagnosis and treatment using femtosecond laser pulses in humans accentuates the need for studies carried out in whole organisms instead of single cells or cell cultures. While there is a general consensus that in order to minimize the level of photodamage the excitation power has to be kept as low as possible, it has yet to be determined if shorter pulses have greater benefit than longer pulses. Here we evaluate the rate of death in Drosophila melanogaster as the integral parameter related to photodamage resulting from femtosecond near infrared (NIR) laser irradiation under conditions comparable to those used in two-photon excited fluorescence (TPEF) microscopy. We found that the lethality (resulting from photodamage) as a function of laser energy fluence fits a 3-region dose-response curve. The lethality was accompanied with development of necrosis and apoptosis in irradiated tissues. Quantitative analysis showed that the damage has a mostly linear character on energy fluence per pulse, and for a given TPEF signal, shorter (37 fs) pulse duration results in lower lethality than longer (100 fs) pulse duration. These results have important implications for the use of femtosecond NIR laser pulses in microscopy as well as in vivo medical imaging., (Copyright © 2012 Elsevier B.V. All rights reserved.)

The early optical dynamic response, resulting population, and electronic coherence are investigated experimentally and modeled theoretically for IR144 in solution. The fluorescence and stimulated emission response are studied systematically as a function of chirp. The magnitude of the chirp effect on fluorescence and stimulated emission is found to depend quadratically on pulse energy, even where excitation probabilities range from 0.02 to 5%, in the so-called "linear excitation regime". Interestingly, the shape of the chirp dependence on fluorescence and stimulated emission is found to be independent of pulse energy. The chirp dependence reveals dynamics related to solvent rearrangement following excitation and also depends on electronic relaxation of the chromophore. The experimental results are successfully simulated using a four-level model in the presence of inhomogeneous broadening of the electronic transitions.

We demonstrate a single-beam coherent anti-Stokes Raman scattering (CARS) technique for gas-phase thermometry that assesses the species-specific local gas temperature by single-shot time-to-frequency mapping of Raman-coherence dephasing. The proof-of-principle experiments are performed with air in a temperature-controlled gas cell. Impulsive excitation of molecular vibrations by an ultrashort pump/Stokes pulse is followed by multipulse probing of the 2330 cm(-1) Raman transition of N(2). This sequence of colored probe pulses, delayed in time with respect to each other and corresponding to three isolated spectral bands, imprints the coherence dephasing onto the measured CARS spectrum. For calibration purposes, the dephasing rates are recorded at various gas temperatures, and the relationship is fitted to a linear regression. The calibration data are then used to determine the gas temperature and are shown to provide better than 15 K accuracy. The described approach is insensitive to pulse energy fluctuations and can, in principle, gauge the temperature of multiple chemical species in a single laser shot, which is deemed particularly valuable for temperature profiling of reacting flows in gas-turbine combustors.

Nonlinear optical microscopy with sub-30 fs pulses from an Yb-fiber laser, approximately three times shorter than typical fiber laser pulses, leads to an order of magnitude brighter third harmonic generation imaging. Multiphoton fluorescence, second and third harmonic generation modalities are compared on stained microspheres and unstained biological tissues.

The optical response of the fluorescent molecule IR144 in solution is probed by pairs of collinear pulses with intensity just above the linear dependence using two different pulse shaping methods. The first approach mimics a Michelson interferometer, while the second approach, known as multiple independent comb shaping (MICS), eliminates spectral interference. The comparison of interfering and non-interfering pulses reveals that linear interference between the pulses leads to the loss of experimental information at early delay times. In both cases, the delay between the pulses is controlled with attosecond resolution and the sample fluorescence and stimulated emission are monitored simultaneously. An out-of-phase behavior is observed for fluorescence and stimulated emission, with the fluorescence signal having a minimum at zero time delay. Experimental findings are modeled using a two-level system with relaxation that closely matches the phase difference between fluorescence and stimulated emission and the relative intensities of the measured effects.

Femtosecond laser-induced ionization/dissociation (fs-LID) has been demonstrated as a novel ion activation method for use in tandem mass spectrometry. The technique opens the door to unique structural information about biomolecular samples that is not easily accessed by traditional means. fs-LID is able to cleave strong bonds while keeping weaker bonds intact. This feature has been found to be particularly useful for the mapping of post-translational modifications such as phosphorylation, which is difficult to achieve by conventional proteomic studies. Here we investigate the laser-ion interaction on a fundamental level through the characterization of fs-LID spectra for the protonated amino acids and two series of derivatized samples. The findings are used to better understand the fs-LID spectra of synthetic peptides. This is accomplished by exploring the effects of several single-residue substitutions., (© 2011 American Chemical Society)

Protein phosphorylation is involved in nearly all essential biochemical pathways and the deregulation of phosphorylation events has been associated with the onset of numerous diseases. A multitude of tandem mass spectrometry (MS/MS) and multistage MS/MS (i.e., MS(n) ) strategies have been developed in recent years and have been applied toward comprehensive phosphoproteomic analysis, based on the interrogation of proteolytically derived phosphopeptides. However, the utility of each of these MS/MS and MS(n) approaches for phosphopeptide identification and characterization, including phosphorylation site localization, is critically dependant on the properties of the precursor ion (e.g., polarity and charge state), the specific ion activation method that is employed, and the underlying gas-phase ion chemistries, mechanisms and other factors that influence the gas-phase fragmentation behavior of phosphopeptide ions. This review therefore provides an overview of recent studies aimed at developing an improved understanding of these issues, and highlights the advantages and limitations of both established (e.g., CID) and newly maturing (e.g., ECD, ETD, photodissociation, etc.) yet complementary, ion activation techniques. This understanding is expected to facilitate the continued refinement of existing MS/MS strategies, and the development of novel MS/MS techniques for phosphopeptide analysis, with great promise in providing new insights into the role of protein phosphorylation on normal biological function, and in the onset and progression of disease. © 2011 Wiley Periodicals, Inc., Mass Spec Rev 30:600-625, 2011., (Copyright © 2010 Wiley Periodicals, Inc.)

A double-clad Yb-doped all-normal-dispersion fiber laser with a narrow intra-cavity spectral filter is demonstrated to produce 22 nJ pulses at 42.5 MHz repetition rate. These pulses are characterized and compressed via mulitphoton intrapulse interference phase scan to as short as 42 fs and 10 nJ/pulse. Adaptive compression underlies the achievement of 250-kW peak power, which enables efficient second and third harmonic generation with spectra spanning 30 nm and 20 nm, respectively.

The use of femtosecond-laser sources for the diagnostics of combustion and reacting-flow environments requires detailed knowledge of optical dispersive properties of the medium interacting with the laser beams. Here the second- and third-order dispersion values for nitrogen, oxygen, air, carbon dioxide, ethylene, acetylene, and propane within the 700-900 nm range are reported, along with the pressure dependence of the chromatic dispersion. The effect of dispersion on axial resolution when applied to nonlinear spectroscopy with ultrabroadband pulses is also discussed.

Recent work from our group (Lozovoy, V. V.; Zhu, X.; Gunaratne, T. C.; Harris, D. A.; Shane, J. C.; Dantus, M. J. Phys. Chem. A2008, 112, 3789) using shaped nonresonant femtosecond pulses to ionize and fragment polyatomic molecules indicated that pulse duration is the most important parameter for controlling the relative yield of different fragment ions. Here we explore the time-resolved dynamics that ensue following the interaction of the molecules with a strong 10(15) W/cm(2) nonresonant near-infrared laser field. The data reveal that most of the fragmentation processes occur well after ionization. The molecular dynamics are followed in the 10(-14)-10(-10) s time scale. Studies carried out on acetophenone derivatives are used to assign the observed modulation in the benzoyl product ion yield, which is found to correlate with further ionization and fragmentation through electronic coordination. The resulting experimental data, together with photoelectron spectra and the electron-ionization mass spectra of these compounds, allow us to propose ladder switching processes taking place in this family of compounds which regulate the different fragment ions observed. This analysis sheds light on how pulse duration influences the yield of different fragment ions.

Label-free microscopy with chemical contrast and high acquisition speed up to video-rate has recently been made possible by stimulated Raman scattering (SRS) microscopy. While SRS imaging offers superb sensitivity, the spectral specificity of the original narrowband implementation is limited, making distinguishing chemical species with overlapping Raman bands difficult. Here we present a highly specific imaging method that allows mapping of a particular chemical species in the presence of interfering species based on tailored multiplex excitation of its vibrational spectrum. This is done by spectral modulation of a broadband pump beam at a high-frequency (>1MHz), allowing detection of the stimulated Raman gain signal of the narrowband Stokes beam with high sensitivity. Using the scheme, we demonstrate quantification of cholesterol in the presence of lipids, and real-time three-dimensional spectral imaging of protein, stearic acid and oleic acid in live C.elegans.

To develop an improved understanding of the regulatory role that post-translational modifications (PTMs) involving phosphorylation play in the maintenance of normal cellular function, tandem mass spectrometry (MS/MS) strategies coupled with ion activation techniques such as collision-induced dissociation (CID) and electron-transfer dissociation (ETD) are typically employed to identify the presence and site-specific locations of the phosphate moieties within a given phosphoprotein of interest. However, the ability of these techniques to obtain sufficient structural information for unambiguous phosphopeptide identification and characterization is highly dependent on the ion activation method employed and the properties of the precursor ion that is subjected to dissociation. Herein, we describe the application of a recently developed alternative ion activation technique for phosphopeptide analysis, termed femtosecond laser-induced ionization/dissociation (fs-LID). In contrast to CID and ETD, fs-LID is shown to be particularly suited to the analysis of singly protonated phosphopeptide ions, yielding a wide range of product ions including a, b, c, x, y, and z sequence ions, as well as ions that are potentially diagnostic of the positions of phosphorylation (e.g., 'a(n)+1-98'). Importantly, the lack of phosphate moiety losses or phosphate group 'scrambling' provides unambiguous information for sequence identification and phosphorylation site characterization. Therefore, fs-LID-MS/MS can serve as a complementary technique to established methodologies for phosphoproteomic analysis., (Copyright © 2010. Published by Elsevier Inc.)

A fast and automated approach to measuring two-photon fluorescence excitation (TPE) spectra of fluorophores with high resolution (~2 nm) by pulse shaping ultrabroad-bandwidth femtosecond laser pulses is demonstrated. Selective excitation in the range of 675-990 nm was achieved by imposing a series of specially designed phase and amplitude masks on the excitation pulses using a pulse shaper. The method eliminates the need for laser tuning and is, thus, suitable for non-laser-expert use. The TPE spectrum of Fluorescein was compared with independent measurements and the spectra of the pH-sensitive dye 8-hydroxypyrene-1,3,6-trisulfonic acid (HPTS) in acidic and basic environments were measured for the first time using this approach.

Femtosecond laser pulses have been widely used as a tool to study molecular ionization and fragmentation. This article bridges the application of femtosecond laser technology in early research focused on small isolated molecules with that in modern biological mass spectrometry for proteomics and metabolomic analysis on large (140+ atoms) biomolecules. The single-shot interaction of a femtosecond laser with neutral para-nitrotoluene (pNT) is investigated with time-of-flight mass spectrometry and compared with the ultrafast photodissociation of protonated pNT in an ion trap mass spectrometer accumulated over ∼1000 pulses. The ion trap experiment is then extended to longer biomolecules. As demonstrated in the examples of vasopressin and tomatine, this novel ion activation method provides greater sequence coverage and nonstatistical fragmentation, leading to valuable information complementary to conventional methods for structural analysis.

A single-beam pulse-shaper-based sonogram technique for spectrometer-free measurement and compensation of laser pulse phase distortions is demonstrated. Phase and amplitude shaping is used to both generate an internal reference and scan the time delay between waveforms corresponding to isolated spectral bands of the input spectrum, thereby directly reconstructing the first derivative of the spectral phase. The accuracy and precision of the approach are evaluated by measuring the group delay introduced by transmission through water or reflection from a broadband dielectric mirror.

A novel atmospheric pressure imaging mass spectrometry approach that offers improved lateral resolution (10 microm) using near-infrared femtosecond laser pulses for nonresonant desorption and ionization of sample constituents without the need of a laser-absorbing matrix is demonstrated. As a proof of concept the method was used to image a two-chemical pattern in paper. To demonstrate the ability of the approach to analyze biological tissue, a monolayer of onion epidermis was imaged allowing the chemical visualization of individual cells using mass spectrometry at ambient conditions for the first time. As the spatial resolution is currently limited by the limit of detection of the setup (approximately 500 fmol limit of detection for citric acid), improvements in sensitivity will increase the achievable spatial resolution.

A simple technique for the synthesis of optical pulse sequences is described, where the input laser spectrum is viewed as a superposition of independent but interlaced combs assigned to different sub-pulses. The devised concept enables intuitive programming of complex multi-pulse waveforms via one-dimensional phase-only shaping. Using this approach, we perform self-referenced cross-correlation measurements of various optical waveforms and demonstrate the generation and coding of shaped pulse sequences.