Nonlinear Imaging Histopathology: A Pipeline to Correlate Gold-Standard Hematoxylin and Eosin Staining With Modern Nonlinear Microscopy.

Hematoxylin and eosin (H&E) staining, the century-old technique, has been the gold standard tool for pathologists to detect anomalies in tissues and diseases such as cancer. H&E staining is a cumbersome, time-consuming process that delays and wastes precious minutes during an intraoperative diagnosis. However, even in the modern era, real-time label-free imaging techniques such as simultaneous label-free autofluorescence multiharmonic (SLAM) microscopy have delivered several more layers of information to characterize a tissue with high precision. Still, they have yet to translate to the clinic. The slow translation rate can be attributed to the lack of direct comparisons between the old and new techniques. Our approach to solving this problem is to: 1) reduce dimensions by pre-sectioning the tissue in 500 µm slices, and 2) produce fiducial laser markings which appear in both SLAM and histological imaging. High peak-power femtosecond laser pulses enable ablation in a controlled and contained manner. We perform laser marking on a grid of points encompassing the SLAM region of interest. We optimize laser power, numerical aperture, and timing to produce axially extended marking, hence multilayered fiducial markers, with minimal damage to the surrounding tissues. We performed this co-registration over an area of 3 × 3 mm2 of freshly excised mouse kidney and intestine, followed by standard H&E staining. Reduced dimensionality and the use of laser markings provided a comparison of the old and new techniques, giving a wealth of correlative information and elevating the potential of translating nonlinear microscopy to the clinic for rapid pathological assessment.

Label-free visualization and characterization of extracellular vesicles in breast cancer.

Despite extensive interest, extracellular vesicle (EV) research remains technically challenging. One of the unexplored gaps in EV research has been the inability to characterize the spatially and functionally heterogeneous populations of EVs based on their metabolic profile. In this paper, we utilize the intrinsic optical metabolic and structural contrast of EVs and demonstrate in vivo/in situ characterization of EVs in a variety of unprocessed (pre)clinical samples. With a pixel-level segmentation mask provided by the deep neural network, individual EVs can be analyzed in terms of their optical signature in the context of their spatial distribution. Quantitative analysis of living tumor-bearing animals and fresh excised human breast tissue revealed abundance of NAD(P)H-rich EVs within the tumor, near the tumor boundary, and around vessel structures. Furthermore, the percentage of NAD(P)H-rich EVs is highly correlated with human breast cancer diagnosis, which emphasizes the important role of metabolic imaging for EV characterization as well as its potential for clinical applications. In addition to the characterization of EV properties, we also demonstrate label-free monitoring of EV dynamics (uptake, release, and movement) in live cells and animals. The in situ metabolic profiling capacity of the proposed method together with the finding of increasing NAD(P)H-rich EV subpopulations in breast cancer have the potential for empowering applications in basic science and enhancing our understanding of the active metabolic roles that EVs play in cancer progression.

Single-photon peak event detection (SPEED): a computational method for fast photon counting in fluorescence lifetime imaging microscopy.

Fluorescence lifetime imaging microscopy (FLIM) characterizes samples by examining the temporal properties of fluorescence emission, providing useful contrast within samples based on the local physical and biochemical environment of fluorophores. Despite this, FLIM applications have been limited in scope by either poor accuracy or long acquisition times. Here, we present a method for computational single-photon counting of directly sampled time-domain FLIM data that is capable of accurate fluorescence lifetime and intensity measurements while acquiring over 160 Mega-counts-per-second with sub-nanosecond time resolution between consecutive photon counts. We demonstrate that our novel method of Single-photon PEak Event Detection (SPEED) is more accurate than direct pulse sampling and faster than established photon counting FLIM methods. We further show that SPEED can be implemented for imaging and quantifying samples that benefit from higher -throughput and -dynamic range imaging with real-time GPU-accelerated processing and use this capability to examine the NAD(P)H-related metabolic dynamics of apoptosis in human breast cancer cells. Computational methods for photon counting such as SPEED open up more opportunities for fast and accurate FLIM imaging and additionally provide a basis for future innovation into alternative FLIM techniques.

Label-Free Multimodal Multiphoton Intravital Imaging.

Label-free intravital optical imaging is an emergent visualization tool that is not only useful for basic biological research, but also for preclinical research with potential translational clinical applications. The complete absence of exogenous labeling or genetic alterations avoids plausible harmful perturbation to biological processes and the pristine physiological environment, as the endogenous biomolecules enable intrinsic imaging contrasts to interrogate various live multicellular organisms of interest. This tool has evolved from single-modality, single-photon imaging into multimodal multiphoton imaging, in order to gain different contrasts simultaneously during imaging sessions, and permit long-term time-lapse studies that have begun to spawn more diverse applications.

K-means clustering of coherent Raman spectra from extracellular vesicles visualized by label-free multiphoton imaging.

Extracellular vesicles (EVs) have emerged as potential biomarkers in cancer research and for clinical diagnosis. Little is known, however, about their spatial distributions in tissue and the different subpopulations that may exist. Here we report the use of label-free nonlinear optical imaging techniques to provide spatially resolved chemical information of EVs within untreated tissues. A multimodal nonlinear optical imaging system incorporating multiphoton autofluorescence and hyperspectral coherent anti-Stokes Raman scattering (CARS) imaging was built to visualize the spatial tissue distribution and probe the spectra of EVs. K-means clustering is performed on the CARS spectra from EVs in rat mammary tissues and human breast tumor tissue to reveal both the spatial distribution of EV clusters and their different chemical signatures. Correlations are identified between EV clusters and metabolic information.

Two-photon microscope using a fiber-based approach for supercontinuum generation and light delivery to a small-footprint optical head.

In this Letter, we report a low-cost, portable, two-photon excitation fluorescence microscopy imager that uses a fiber-based approach for both femtosecond supercontinuum (SC) generation and light delivery to the optical head. The SC generation is based on a tapered polarization-maintaining photonic crystal fiber that uses pre-chirped femtosecond narrowband pulses to generate a coherent SC spectrum with a bandwidth of approximately 300 nm. Using this approach, high-power, near-transform-limited, wavelength-selectable SC pulses are generated and directly delivered to the imaging optical head. Preliminary testing of this imager on brain slices is presented, demonstrating a high signal-to-noise ratio and sub-cellular imaging capabilities to a depth of approximately 200 µm. These results demonstrate the suitability of the technology for ex vivo and potentially in vivo cellular-level biomedical imaging applications.

Detection of weak near-infrared optical imaging signals under ambient light by optical parametric amplification.

We present a detection method based on optical parametric amplification to amplify and detect near-infrared (NIR) optical imaging signals. A periodically poled lithium niobate crystal is employed as an optical parametric amplifier (OPA), which provides excellent quasi-phase-matching conditions for the optical parametric amplification process. A weak reflectance imaging signal at 1465 nm is amplified by the OPA with a high gain of up to 92 dB, and the amplified optical signal is detected with a low-cost photodetector under ambient light conditions. Such a high gain leads to a detection limit of 23 pW under a 5 MHz detection bandwidth, which is remarkably lower than the theoretical value of a NIR photomultiplier tube (PMT). By exploiting the advantages of the OPA, the incident power needed for microscopy or imaging is reduced by 40-60 dB. The high imaging gain of the OPA also significantly enhances the imaging penetration depth by selectively detecting the weak signal reflected from deep tissue structures. The successful implementation of the OPA enables a robust and sensitive detection method that offers the potential to replace PMTs in imaging applications within the NIR spectral range.

Multimodal multiphoton imaging for label-free monitoring of early gastric cancer.

BACKGROUND: Early gastric cancer is associated with a much better prognosis than advanced disease, and strategies to improve prognosis is strictly dependent on earlier detection and accurate diagnosis. Therefore, a label-free, non-invasive imaging technique that allows the precise identification of morphologic changes in early gastric cancer would be of considerable clinical interest. METHODS: In this study, multiphoton microscopy (MPM) using two-photon excited fluorescence combined with second-harmonic generation was used for the identification of early gastric cancer. RESULTS: This microscope was able to directly reveal improved cellular detail and stromal changes during the development of early gastric cancer. Furthermore, two features were quantified from MPM images to assess the cell change in size and stromal collagen change as gastric lesion developed from normal to early cancer. CONCLUSIONS: These results clearly show that multiphoton microscopy can be used to examine early gastric cancer at the cellular level without the need for exogenous contrast agents. This study would be helpful for early diagnosis and treatment of gastric cancer, and may provide the groundwork for further exploration into the application of multiphoton microscopy in clinical practice.

Label-free detection of residual breast cancer after neoadjuvant chemotherapy using biomedical multiphoton microscopy.

Neoadjuvant chemotherapy has become a standard treatment for breast cancer as it has been shown to increase the rate of breast preservation and to improve outcome in patients. However, how to accurately detect residual tumors is still a challenge. In this work, we tried to use multiphoton imaging to look for residual breast tumors after preoperative therapy. Imaging results demonstrate that multiphoton microscopy can identify remaining tumor tissues and can even detect rarely residual tumor cells, which would be helpful for surgeons to accurately assess the surgical margin in real time to confirm negative margins during operation. We also performed a quantification analysis of the nuclear area of tumor cells before and after treatment with neoadjuvant chemotherapy. The measurement data show that the tumor cell nuclei after chemotherapy are significantly larger than those without treatment, and there is a statistically significant difference in the nuclear areas between the pre-treatment and post-treatment mammary carcinoma. Our pilot study indicates the potential utility of multiphoton imaging for detecting residual breast carcinoma tissues in fresh, ex vivo specimens without the use of exogenous contrast agents. We foresee real-time intraoperative applications of multiphoton microscopy in evaluating therapy response, and thereby helping clinicians develop individualized treatment plans.

Progress in Cherenkov femtosecond fiber lasers.

We review the recent developments in the field of ultrafast Cherenkov fiber lasers. Two essential properties of such laser systems - broad wavelength tunability and high efficiency of Cherenkov radiation wavelength conversion are discussed. The exceptional performance of the Cherenkov fiber laser systems are highlighted - dependent on the realization scheme, the Cherenkov lasers can generate the femtosecond output tunable across the entire visible and even the UV range, and for certain designs more than 40 % conversion efficiency from the pump to Cherenkov signal can be achieved. The femtosecond Cherenkov laser with all-fiber architecture is presented and discussed. Operating in the visible range, it delivers 100-200 fs wavelength-tunable pulses with multimilliwatt output power and exceptionally low noise figure an order of magnitude lower than the traditional wavelength tunable supercontinuum-based femtosecond sources. The applications for Cherenkov laser systems in practical biophotonics and biomedical applications, such as bio-imaging and microscopy, are discussed.

Suppressing Short-term Polarization Noise and Related Spectral Decoherence in All-normal Dispersion Fiber Supercontinuum Generation.

The supercontinuum generated exclusively in the normal dispersion regime of a nonlinear fiber is widely believed to possess low optical noise and high spectral coherence. The recent development of flattened all-normal dispersion fibers has been motivated by this belief to construct a general-purpose broadband coherent optical source. Somewhat surprisingly, we identify a large short-term polarization noise in this type of supercontinuum generation that has been masked by the total-intensity measurement in the past, but can be easily detected by filtering the supercontinuum with a linear polarizer. Fortunately, this hidden intrinsic noise and the accompanied spectral decoherence can be effectively suppressed by using a polarization-maintaining all-normal dispersion fiber. A polarization-maintaining coherent supercontinuum laser is thus built with a broad bandwidth (780-1300 nm) and high spectral power (~1 mW/nm).

Noise characterization of broadband fiber Cherenkov radiation as a visible-wavelength source for optical coherence tomography and two-photon fluorescence microscopy.

Optical sources in the visible region immediately adjacent to the near-infrared biological optical window are preferred in imaging techniques such as spectroscopic optical coherence tomography of endogenous absorptive molecules and two-photon fluorescence microscopy of intrinsic fluorophores. However, existing sources based on fiber supercontinuum generation are known to have high relative intensity noise and low spectral coherence, which may degrade imaging performance. Here we compare the optical noise and pulse compressibility of three high-power fiber Cherenkov radiation sources developed recently, and evaluate their potential to replace the existing supercontinuum sources in these imaging techniques.

Optical parametrically gated microscopy in scattering media.

High-resolution imaging in turbid media has been limited by the intrinsic compromise between the gating efficiency (removal of multiply-scattered light background) and signal strength in the existing optical gating techniques. This leads to shallow depths due to the weak ballistic signal, and/or degraded resolution due to the strong multiply-scattering background--the well-known trade-off between resolution and imaging depth in scattering samples. In this work, we employ a nonlinear optics based optical parametric amplifier (OPA) to address this challenge. We demonstrate that both the imaging depth and the spatial resolution in turbid media can be enhanced simultaneously by the OPA, which provides a high level of signal gain as well as an inherent nonlinear optical gate. This technology shifts the nonlinear interaction to an optical crystal placed in the detection arm (image plane), rather than in the sample, which can be used to exploit the benefits given by the high-order parametric process and the use of an intense laser field. The coherent process makes the OPA potentially useful as a general-purpose optical amplifier applicable to a wide range of optical imaging techniques.

Compact simultaneous label-free autofluorescence multi-harmonic microscopy for user-friendly photodamage-monitored imaging.

Significance: Label-free nonlinear optical microscopy has become a powerful tool for biomedical research. However, the possible photodamage risk hinders further clinical applications. Aim: To reduce these adverse effects, we constructed a new platform of simultaneous label-free autofluorescence multi-harmonic (SLAM) microscopy, featuring four-channel multimodal imaging, inline photodamage monitoring, and pulse repetition-rate tuning. Approach: Using a large-core birefringent photonic crystal fiber for spectral broadening and a prism compressor for pulse pre-chirping, this system allows users to independently adjust pulse width, repetition rate, and energy, which is useful for optimizing imaging conditions towards no/minimal photodamage. Results: It demonstrates label-free multichannel imaging at one excitation pulse per image pixel and thus paves the way for improving the imaging speed by a faster optical scanner with a low risk of nonlinear photodamage. Moreover, the system grants users the flexibility to autonomously fine-tune repetition rate, pulse width, and average power, free from interference, ensuring the discovery of optimal imaging conditions with high SNR and minimal phototoxicity across various applications. Conclusions: The combination of a stable laser source, independently tunable ultrashort pulse, photodamage monitoring features, and a compact design makes this new system a robust, powerful, and user-friendly imaging platform.

Analog multiplexing of a laser clock and computational photon counting for fast fluorescence lifetime imaging microscopy.

The dynamic range and fluctuations of fluorescence intensities and lifetimes in biological samples are large, demanding fast, precise, and versatile techniques. Among the high-speed fluorescence lifetime imaging microscopy (FLIM) techniques, directly sampling the output of analog single-photon detectors at GHz rates combined with computational photon counting can handle a larger range of photon rates. Traditionally, the laser clock is not sampled explicitly in fast FLIM; rather the detection is synchronized to the laser clock so that the excitation pulse train can be inferred from the cumulative photon statistics of several pixels. This has two disadvantages for sparse or weakly fluorescent samples: inconsistencies in inferring the laser clock within a frame and inaccuracies in aligning the decay curves from different frames for averaging. The data throughput is also very inefficient in systems with repetition rates much larger than the fluorescence lifetime due to significant silent regions where no photons are expected. We present a method for registering the photon arrival times to the excitation using time-domain multiplexing for fast FLIM. The laser clock is multiplexed with photocurrents into the silent region. Our technique does not add to the existing data bottleneck, has the sub-nanosecond dead time of computational photon counting based fast FLIM, works with various detectors, lasers, and electronics, and eliminates the errors in lifetime estimation in photon-starved conditions. We demonstrate this concept on two multiphoton setups of different laser repetition rates for single and multichannel FLIM multiplexed into a single digitizer channel for real-time imaging of biological samples.

Supercontinuum intrinsic fluorescence imaging heralds free view of living systems.

Optimal imaging strategies remain underdeveloped to maximize information for fluorescence microscopy while minimizing the harm to fragile living systems. Taking hint from the supercontinuum generation in ultrafast laser physics, we generated supercontinuum fluorescence from untreated unlabeled live samples before nonlinear photodamage onset. Our imaging achieved high-content cell phenotyping and tissue histology, identified bovine embryo polarization, quantified aging-related stress across cell types and species, demystified embryogenesis before and after implantation, sensed drug cytotoxicity in real-time, scanned brain area for targeted patching, optimized machine learning to track small moving organisms, induced two-photon phototropism of leaf chloroplasts under two-photon photosynthesis, unraveled microscopic origin of autumn colors, and interrogated intestinal microbiome. The results enable a facility-type microscope to freely explore vital molecular biology across life sciences.

Broadband nonlinear vibrational spectroscopy by shaping a coherent fiber supercontinuum.

Vibrational spectroscopy has been widely applied in different fields due to its label-free chemical-sensing capability. Coherent anti-Stokes Raman scattering (CARS) provides stronger signal and faster acquisition than spontaneous Raman scattering, making it especially suitable for molecular imaging. Coherently-controlled single-beam CARS simplifies the conventional multi-beam setup, but the vibrational bandwidth and non-trivial spectrum retrieval have been limiting factors. In this work, a coherent supercontinuum generated in an all-normal-dispersion nonlinear fiber is phase-shaped within a narrow bandwidth for broadband vibrational spectroscopy. The Raman spectra can be directly retrieved from the CARS measurements, covering the fingerprint regime up to 1750 cm(-1). The retrieved spectra of several chemical species agree with their spontaneous Raman data. The compact fiber supercontinuum source offers broad vibrational bandwidth with high stability and sufficient power, showing the potential for spectroscopic imaging in a wide range of applications.

Bright broadband coherent fiber sources emitting strongly blue-shifted resonant dispersive wave pulses.

We predict and realize the targeted wavelength conversion from the 1550-nm band of a fs Er:fiber laser to an isolated band inside 370-850 nm, corresponding to a blue-shift of 700-1180 nm. The conversion utilizes resonant dispersive wave generation in widely available optical fibers with good efficiency (~7%). The converted band has a large pulse energy (~1 nJ), high spectral brightness (~1 mW/nm), and broad Gaussian-like spectrum compressible to clean transform-limited ~17 fs pulses. The corresponding coherent fiber sources open up portable applications of optical parametric oscillators and dual-output synchronized ultrafast lasers.

How long wavelengths can one extract from silica-core fibers?

The generation of wavelengths above 3 µm by nonlinear processes in short silica photonic crystal fibers is investigated numerically. It was found that wavelengths in the 3-3.5 µm range may be generated quite efficiently in centimeter-long fiber pieces when pumping with femtosecond pulses in the 1.55-2 µm range. Wavelengths in the range of 3.5-4 µm can in principle be generated, but these require shorter fiber lengths for efficient extraction. The results indicate that useful 3 µm sources may be fabricated with existing silica-based fiber technology.

Low-Noise Operation of All-Fiber Femtosecond Cherenkov Laser.

We investigate the noise properties of a femtosecond all-fiber Cherenkov radiation source with emission wavelength 600 nm, based on an Yb-fiber laser and a highly nonlinear photonic crystal fiber. A relative intensity noise as low as 103 dBc/Hz, corresponding to 2.48% pulse-to-pulse fluctuation in energy, is observed at the Cherenkov radiation output power of 4.3 mW, or 150 pJ-pulse energy. This pulse-to-pulse fluctuation is at least 10.6-dB lower compared to spectrally sliced supercontinuum sources traditionally used for ultrafast fiber-based generation at visible wavelengths. Low noise makes all-fiber Cherenkov sources promising for biophotonics applications such as multiphoton microscopy, where minimum pulse-to-pulse energy fluctuation is required. We present the dependency of the noise figure on both the Cherenkov radiation output power and its spectrum.