Morphological profiling by high-throughput single-cell biophysical fractometry

Complex and irregular cell architecture is known to statistically exhibit fractal geometry, i.e., a pattern resembles a smaller part of itself. Although fractal variations in cells are proven to be closely associated with the disease-related phenotypes that are otherwise obscured in the standard cell-based assays, fractal analysis with single-cell precision remains largely unexplored. To close this gap, here we develop an image-based approach that quantifies a multitude of single-cell biophysical fractal-related properties at subcellular resolution. Taking together with its high-throughput single-cell imaging performance (~10,000 cells/sec), this technique, termed single-cell biophysical fractometry, offers sufficient statistical power for delineating the cellular heterogeneity, in the context of lung-cancer cell subtype classification, drug response assays and cell-cycle progression tracking. Further correlative fractal analysis shows that single-cell biophysical fractometry can enrich the standard morphological profiling depth and spearhead systematic fractal analysis of how cell morphology encodes cellular health and pathological conditions.

EuniceScope: Low-Cost Imaging Platform for Studying Microgravity Cell Biology

Microgravity is proven to impact a wide range of human physiology, from stimulating stem cell differentiation to confounding cell health in bones, skeletal muscles, and blood cells. The research in this arena is progressively intensified by the increasing promises of human spaceflights. Considering the limited access to spaceflight, ground-based microgravity-simulating platforms have been indispensable for microgravity-biology research. However, they are generally complex, costly, hard to replicate and reconfigure - hampering the broad adoption of microgravity biology and astrobiology. To address these limitations, we developed a low-cost reconfigurable 3D-printed microscope coined EuniceScope to allow the democratization of astrobiology, especially for educational use. EuniceScope is a compact 2D clinostat system integrated with a modularized brightfield microscope, built upon 3D-printed toolbox. We demonstrated that this compact system offers plausible imaging quality and microgravity-simulating performance. Its high degree of reconfigurability thus holds great promise in the wide dissemination of microgravity-cell-biology research in the broader community, including Science, technology, engineering, and mathematics (STEM) educational and scientific community in the future.

Optofluidic imaging meets deep learning: from merging to emerging

Propelled by the striking advances in optical microscopy and deep learning (DL), the role of imaging in lab-on-a-chip has dramatically been transformed from a silo inspection tool to a quantitative "smart" engine. A suite of advanced optical microscopes now enables imaging over a range of spatial scales (from molecules to organisms) and temporal window (from microseconds to hours). On the other hand, the staggering diversity of DL algorithms has revolutionized image processing and analysis at the scale and complexity that were once inconceivable. Recognizing these exciting but overwhelming developments, we provide a timely review of their latest trends in the context of lab-on-a-chip imaging, or coined optofluidic imaging. More importantly, here we discuss the strengths and caveats of how to adopt, reinvent, and integrate these imaging techniques and DL algorithms in order to tailor different lab-on-a-chip applications. In particular, we highlight three areas where the latest advances in lab-on-a-chip imaging and DL can form unique synergisms: image formation, image analytics and intelligent image-guided autonomous lab-on-a-chip. Despite the on-going challenges, we anticipate that they will represent the next frontiers in lab-on-a-chip imaging that will spearhead new capabilities in advancing analytical chemistry research, accelerating biological discovery, and empowering new intelligent clinical applications.

StarmapVis: An interactive and narrative visualisation tool for single-cell and spatial data

Current single-cell visualisation techniques project high dimensional data into 'map' views to identify high-level structures such as cell clusters and trajectories. New tools are needed to allow the transversal through the high dimensionality of single-cell data to explore the single-cell local neighbourhood. StarmapVis is a convenient web application displaying an interactive downstream analysis of single-cell expression or spatial transcriptomic data. The concise user interface is powered by modern web browsers to explore the variety of viewing angles unavailable to 2D media. Interactive scatter plots display clustering information, while the trajectory and cross-comparison among different coordinates are displayed in connectivity networks. Automated animation of camera view is a unique feature of our tool. StarmapVis also offers a useful animated transition between two-dimensional spatial omic data to three-dimensional single cell coordinates. The usability of StarmapVis is demonstrated by four data sets, showcasing its practical usability. StarmapVis is available at: https://holab-hku.github.io/starmapVis.

Low-Latency In Situ Image Analytics With FPGA-Based Quantized Convolutional Neural Network

Real-time in situ image analytics impose stringent latency requirements on intelligent neural network inference operations. While conventional software-based implementations on the graphic processing unit (GPU)-accelerated platforms are flexible and have achieved very high inference throughput, they are not suitable for latency-sensitive applications where real-time feedback is needed. Here, we demonstrate that high-performance reconfigurable computing platforms based on field-programmable gate array (FPGA) processing can successfully bridge the gap between low-level hardware processing and high-level intelligent image analytics algorithm deployment within a unified system. The proposed design performs inference operations on a stream of individual images as they are produced and has a deeply pipelined hardware design that allows all layers of a quantized convolutional neural network (QCNN) to compute concurrently with partial image inputs. Using the case of label-free classification of human peripheral blood mononuclear cell (PBMC) subtypes as a proof-of-concept illustration, our system achieves an ultralow classification latency of 34.2 [Formula: see text] with over 95% end-to-end accuracy by using a QCNN, while the cells are imaged at throughput exceeding 29 200 cells/s. Our QCNN design is modular and is readily adaptable to other QCNNs with different latency and resource requirements.

890-nm-excited SHG and fluorescence imaging enabled by an all-fiber mode-locked laser

We demonstrate second-harmonic generation (SHG) microscopy excited by the ∼890-nm light frequency-doubled from a 137-fs, 19.4-MHz, and 300-mW all-fiber mode-locked laser centered at 1780 nm. The mode-locking at the 1.7-µm window is realized by controlling the emission peak of the gain fiber, and uses the dispersion management technique to broaden the optical spectrum up to 30 nm. The spectrum is maintained during the amplification and the pulse is compressed by single-mode fibers. The SHG imaging performance is showcased on a mouse skull, leg, and tail. Two-photon fluorescence imaging is also demonstrated on C. elegans labeled with green and red fluorescent proteins. The frequency-doubled all-fiber laser system provides a compact and efficient tool for SHG and fluorescence microscopy.

Generalized and scalable trajectory inference in single-cell omics data with VIA

Inferring cellular trajectories using a variety of omic data is a critical task in single-cell data science. However, accurate prediction of cell fates, and thereby biologically meaningful discovery, is challenged by the sheer size of single-cell data, the diversity of omic data types, and the complexity of their topologies. We present VIA, a scalable trajectory inference algorithm that overcomes these limitations by using lazy-teleporting random walks to accurately reconstruct complex cellular trajectories beyond tree-like pathways (e.g., cyclic or disconnected structures). We show that VIA robustly and efficiently unravels the fine-grained sub-trajectories in a 1.3-million-cell transcriptomic mouse atlas without losing the global connectivity at such a high cell count. We further apply VIA to discovering elusive lineages and less populous cell fates missed by other methods across a variety of data types, including single-cell proteomic, epigenomic, multi-omics datasets, and a new in-house single-cell morphological dataset.

High-speed laser-scanning biological microscopy using FACED

Laser scanning is used in advanced biological microscopy to deliver superior imaging contrast, resolution and sensitivity. However, it is challenging to scale up the scanning speed required for interrogating a large and heterogeneous population of biological specimens or capturing highly dynamic biological processes at high spatiotemporal resolution. Bypassing the speed limitation of traditional mechanical methods, free-space angular-chirp-enhanced delay (FACED) is an all-optical, passive and reconfigurable laser-scanning approach that has been successfully applied in different microscopy modalities at an ultrafast line-scan rate of 1-80 MHz. Optimal FACED imaging performance requires optimized experimental design and implementation to enable specific high-speed applications. In this protocol, we aim to disseminate information allowing FACED to be applied to a broader range of imaging modalities. We provide (i) a comprehensive guide and design specifications for the FACED hardware; (ii) step-by-step optical implementations of the FACED module including the key custom components; and (iii) the overall image acquisition and reconstruction pipeline. We illustrate two practical imaging configurations: multimodal FACED imaging flow cytometry (bright-field, fluorescence and second-harmonic generation) and kHz 2D two-photon fluorescence microscopy. Users with basic experience in optical microscope operation and software engineering should be able to complete the setup of the FACED imaging hardware and software in ~2-3 months.

Toward deep biophysical cytometry: prospects and challenges

The biophysical properties of cells reflect their identities, underpin their homeostatic state in health, and define the pathogenesis of disease. Recent leapfrogging advances in biophysical cytometry now give access to this information, which is obscured in molecular assays, with a discriminative power that was once inconceivable. However, biophysical cytometry should go 'deeper' in terms of exploiting the information-rich cellular biophysical content, generating a molecular knowledge base of cellular biophysical properties, and standardizing the protocols for wider dissemination. Overcoming these barriers, which requires concurrent innovations in microfluidics, optical imaging, and computer vision, could unleash the enormous potential of biophysical cytometry not only for gaining a new mechanistic understanding of biological systems but also for identifying new cost-effective biomarkers of disease.

Deep-learning-assisted biophysical imaging cytometry at massive throughput delineates cell population heterogeneity

The association of the intrinsic optical and biophysical properties of cells to homeostasis and pathogenesis has long been acknowledged. Defining these label-free cellular features obviates the need for costly and time-consuming labelling protocols that perturb the living cells. However, wide-ranging applicability of such label-free cell-based assays requires sufficient throughput, statistical power and sensitivity that are unattainable with current technologies. To close this gap, we present a large-scale, integrative imaging flow cytometry platform and strategy that allows hierarchical analysis of intrinsic morphological descriptors of single-cell optical and mass density within a population of millions of cells. The optofluidic cytometry system also enables the synchronous single-cell acquisition of and correlation with fluorescently labeled biochemical markers. Combined with deep neural network and transfer learning, this massive single-cell profiling strategy demonstrates the label-free power to delineate the biophysical signatures of the cancer subtypes, to detect rare populations of cells in the heterogeneous samples (10-5), and to assess the efficacy of targeted therapeutics. This technique could spearhead the development of optofluidic imaging cell-based assays that stratify the underlying physiological and pathological processes based on the information-rich biophysical cellular phenotypes.

Resolution enhancement in an extended depth of field for volumetric two-photon microscopy

The resolution enhancement over the extended depth of field (DOF) in the volumetric two-photon microscopy (TPM) is demonstrated by utilizing multiple orders of Bessel beams. Here the conventional method of switching laser modes (SLAM) in 2D is introduced to 3D, denoted as the volumetric SLAM (V-SLAM). The equivalent scanning beam in the TPM is a thin needle-like beam, which is generated from the subtraction between the needle-like 0th-order and the straw-like 1st-order Bessel beams. Compared with the 0th-order Bessel beam, the lateral resolution of the V-SLAM is increased by 28.6% and maintains over the axial depth of 56 µm. The V-SLAM performance is evaluated by employing fluorescent beads and a mouse brain slice. The V-SLAM approach provides a promising solution to improve the lateral resolutions for fast volumetric imaging on sparsely distributed samples.

PARC: ultrafast and accurate clustering of phenotypic data of millions of single cells

MOTIVATION

New single-cell technologies continue to fuel the explosive growth in the scale of heterogeneous single-cell data. However, existing computational methods are inadequately scalable to large datasets and therefore cannot uncover the complex cellular heterogeneity.

RESULTS

We introduce a highly scalable graph-based clustering algorithm PARC-Phenotyping by Accelerated Refined Community-partitioning-for large-scale, high-dimensional single-cell data (>1 million cells). Using large single-cell flow and mass cytometry, RNA-seq and imaging-based biophysical data, we demonstrate that PARC consistently outperforms state-of-the-art clustering algorithms without subsampling of cells, including Phenograph, FlowSOM and Flock, in terms of both speed and ability to robustly detect rare cell populations. For example, PARC can cluster a single-cell dataset of 1.1 million cells within 13 min, compared with >2 h for the next fastest graph-clustering algorithm. Our work presents a scalable algorithm to cope with increasingly large-scale single-cell analysis.

AVAILABILITY AND IMPLEMENTATION

https://github.com/ShobiStassen/PARC.

SUPPLEMENTARY INFORMATION

Supplementary data are available at Bioinformatics online.

Parallelized volumetric fluorescence microscopy with a reconfigurable coded incoherent light-sheet array

Parallelized fluorescence imaging has been a long-standing pursuit that can address the unmet need for a comprehensive three-dimensional (3D) visualization of dynamical biological processes with minimal photodamage. However, the available approaches are limited to incomplete parallelization in only two dimensions or sparse sampling in three dimensions. We hereby develop a novel fluorescence imaging approach, called coded light-sheet array microscopy (CLAM), which allows complete parallelized 3D imaging without mechanical scanning. Harnessing the concept of an "infinity mirror", CLAM generates a light-sheet array with controllable sheet density and degree of coherence. Thus, CLAM circumvents the common complications of multiple coherent light-sheet generation in terms of dedicated wavefront engineering and mechanical dithering/scanning. Moreover, the encoding of multiplexed optical sections in CLAM allows the synchronous capture of all sectioned images within the imaged volume. We demonstrate the utility of CLAM in different imaging scenarios, including a light-scattering medium, an optically cleared tissue, and microparticles in fluidic flow. CLAM can maximize the signal-to-noise ratio and the spatial duty cycle, and also provides a further reduction in photobleaching compared to the major scanning-based 3D imaging systems. The flexible implementation of CLAM regarding both hardware and software ensures compatibility with any light-sheet imaging modality and could thus be instrumental in a multitude of areas in biological research.

Depth-resolved volumetric two-photon microscopy based on dual Airy beam scanning

We demonstrate dual-Airy-beam-scanning-based volumetric two-photon microscopy (TPM) with depth-resolving capability. A pair of Airy beams with opposite acceleration is used as the excitation lights to sequentially illuminate the sample, and depth information can be resolved based on the deflection of the Airy beam. The depth-resolving range of the volumetric TPM is up to 32 μm. The advantages of the depth-resolved volumetric TPM are the depth-resolving capability over Bessel-beam-based TPM and less scanning times over traditional Gaussian-beam-based TPM. The depth-resolved volumetric TPM provides a promising fast imaging tool to study the dynamics in neural biology.

A Real-Time Coprime Line Scan Super-Resolution System for Ultra-Fast Microscopy

A fundamental technical challenge for ultra-fast cell microscopy is the tradeoff between imaging throughput and resolution. In addition to throughput, real-time applications such as image-based cell sorting further requires ultra-low imaging latency to facilitate rapid decision making on a single-cell level. Using a novel coprime line scan sampling scheme, a real-time low-latency hardware super-resolution system for ultra-fast time-stretch microscopy is presented. The proposed scheme utilizes analog-to-digital converter with a carefully tuned sampling pattern (shifted sampling grid) to enable super-resolution image reconstruction using line scan input from an optical front-end. A fully pipelined FPGA-based system is built to efficiently handle the real-time high-resolution image reconstruction process with the input subpixel samples while achieving minimal output latency. The proposed super-resolution sampling and reconstruction scheme is parametrizable and is readily applicable to different line scan imaging systems. In our experiments, an imaging latency of 0.29 μs has been achieved based on a pixel-stream throughput of 4.123 giga pixels per second, which translates into imaging throughput of approximately 120000 cells per second.

Multi-ATOM: Ultrahigh-throughput single-cell quantitative phase imaging with subcellular resolution

A growing body of evidence has substantiated the significance of quantitative phase imaging (QPI) in enabling cost-effective and label-free cellular assays, which provides useful insights into understanding the biophysical properties of cells and their roles in cellular functions. However, available QPI modalities are limited by the loss of imaging resolution at high throughput and thus run short of sufficient statistical power at the single-cell precision to define cell identities in a large and heterogeneous population of cells-hindering their utility in mainstream biomedicine and biology. Here we present a new QPI modality, coined multiplexed asymmetric-detection time-stretch optical microscopy (multi-ATOM) that captures and processes quantitative label-free single-cell images at ultrahigh throughput without compromising subcellular resolution. We show that multi-ATOM, based upon ultrafast phase-gradient encoding, outperforms state-of-the-art QPI in permitting robust phase retrieval at a QPI throughput of >10 000 cell/sec, bypassing the need for interferometry which inevitably compromises QPI quality under ultrafast operation. We employ multi-ATOM for large-scale, label-free, multivariate, cell-type classification (e.g. breast cancer subtypes, and leukemic cells vs peripheral blood mononuclear cells) at high accuracy (>94%). Our results suggest that multi-ATOM could empower new strategies in large-scale biophysical single-cell analysis with applications in biology and enriching disease diagnostics.

Quantitative Phase Imaging Flow Cytometry for Ultra-Large-Scale Single-Cell Biophysical Phenotyping

Cellular biophysical properties are the effective label-free phenotypes indicative of differences in cell types, states, and functions. However, current biophysical phenotyping methods largely lack the throughput and specificity required in the majority of cell-based assays that involve large-scale single-cell characterization for inquiring the inherently complex heterogeneity in many biological systems. Further confounded by the lack of reported robust reproducibility and quality control, widespread adoption of single-cell biophysical phenotyping in mainstream cytometry remains elusive. To address this challenge, here we present a label-free imaging flow cytometer built upon a recently developed ultrafast quantitative phase imaging (QPI) technique, coined multi-ATOM, that enables label-free single-cell QPI, from which a multitude of subcellularly resolvable biophysical phenotypes can be parametrized, at an experimentally recorded throughput of >10,000 cells/s-a capability that is otherwise inaccessible in current QPI. With the aim to translate multi-ATOM into mainstream cytometry, we report robust system calibration and validation (from image acquisition to phenotyping reproducibility) and thus demonstrate its ability to establish high-dimensional single-cell biophysical phenotypic profiles at ultra-large-scale (>1,000,000 cells). Such a combination of throughput and content offers sufficiently high label-free statistical power to classify multiple human leukemic cell types at high accuracy (~92-97%). This system could substantiate the significance of high-throughput QPI flow cytometry in enabling next frontier in large-scale image-derived single-cell analysis applied in biological discovery and cost-effective clinical diagnostics. © 2019 International Society for Advancement of Cytometry.

Volumetric two-photon microscopy with a non-diffracting Airy beam

We demonstrate a volumetric two-photon microscopy (TPM) using the non-diffracting Airy beam as illumination. Direct mapping of the imaging trajectory shows that the Airy beam extends the axial imaging range around six times longer than a traditional Gaussian beam does along the propagation direction, while maintaining a comparable lateral width. Benefiting from its non-diffracting nature, the TPM with Airy beam illumination is able not only to capture a volumetric image within a single frame, but also to acquire image structures behind a strongly scattered medium. The volumetric specimen is mapped layer by layer under Gaussian mode, while the three-dimensional structure is projected to a single two-dimensional image under Airy mode, leading to a significantly increased acquisition speed. The performance of the TPM is evaluated employing a phantom of agarose gel imbedding fluorescent beads as well as a mouse brain slice. Finally, we showcase the penetration ability of the developed Airy TPM by imaging through a scattering environment.

Video-rate centimeter-range optical coherence tomography based on dual optical frequency combs by electro-optic modulators

Imaging speed and range are two important parameters for optical coherence tomography (OCT). A conventional video-rate centimeter-range OCT requires an optical source with hundreds of kHz repetition rate and needs the support of broadband detectors and electronics (>1 GHz). In this paper, a type of video-rate centimeter-range OCT system is proposed and demonstrated based on dual optical frequency combs by leveraging electro-optic modulators. The repetition rate difference between dual combs, i.e. the A-scan rate of dual-comb OCT, can be adjusted within 0~6 MHz. By down-converting the interference signal from optical domain to radio-frequency domain through dual comb beating, the down-converted bandwidth of the interference signal is less than 22.5 MHz which is at least two orders of magnitude lower than that in conventional OCT systems. A LabVIEW program is developed for video-rate operation, and the centimeter imaging depth is proved by using 10 pieces of 1-mm thick glass stacked as the sample. The effective beating bandwidth between two optical comb sources is 7 nm corresponding to ~108 comb lines, and the axial resolution of the dual-comb OCT is 158 µm. Dual optical frequency combs provide a promising solution to relax the detection bandwidth requirement in fast long-range OCT systems.

Ultrafast optical imaging at 2.0 μm through second-harmonic-generation-based time-stretch at 1.0 μm

The performance of ultrafast time-stretch imaging at long wavelengths (beyond 1.5 μm) has suffered from low detection sensitivity due to the increasing loss of optical dispersive fibers. Here, we report an ultrafast optical imaging system with a line scan rate of ∼19  MHz at the 2.0-μm wavelength window by combining second-harmonic generation (SHG) with the highly sensitive time-stretch detection at 1.0 μm. In this imaging system, the sample is illuminated by the pulsed laser source at 2.0 μm in the spectrally encoding manner. After SHG, the encoded spectral signal at 2.0 μm is converted to 1.0 μm and then mapped to the time domain through a highly dispersive fiber at 1.0 μm, which provides a superior dispersion-to-loss ratio of ∼53  ps/nm/dB, ∼50  times larger than that of the standard fibers at 2.0 μm (typically ∼1.1  ps/nm/dB). These efforts make it possible for time-stretch technology not only being translated to longer wavelengths, where unique optical absorption contrast exists, but also benefitting from the high detection sensitivity at shorter wavelengths.

Short pulse generation from a passively mode-locked fiber optical parametric oscillator with optical time-stretch

We propose a passively mode-locked fiber optical parametric oscillator assisted with optical time-stretch. Thanks to the lately developed optical time-stretch technique, the onset oscillating spectral components can be temporally dispersed across the pump envelope and further compete for the parametric gain with the other parts of onset oscillating sidebands within the pump envelope. By matching the amount of dispersion in optical time-stretch with the pulse width of the quasi-CW pump and oscillating one of the parametric sidebands inside the fiber cavity, we numerically show that the fiber parametric oscillator can be operated in a single pulse regime. By varying the amount of the intracavity dispersion, we further verify that the origin of this single pulse mode-locking regime is due to the optical pulse stretching and compression.

102-nm, 44.5-MHz inertial-free swept source by mode-locked fiber laser and time stretch technique for optical coherence tomography

A swept source with both high repetition-rate and broad bandwidth is indispensable to enable optical coherence tomography (OCT) with high imaging rate and high axial resolution. However, available swept sources are commonly either limited in speed (sub-MHz) by inertial or kinetic component, or limited in bandwidth (<100 nm) by the gain medium. Here we report an ultrafast broadband (over 100 nm centered at 1.55-µm) all-fiber inertial-free swept source built upon a high-power dispersion-managed fiber laser in conjunction with an optical time-stretch module which bypasses complex optical amplification scheme, which result in a portable and compact implementation of time-stretch OCT (TS-OCT) at A-scan rate of 44.5-MHz, axial resolution of 14 µm in air (or 10 µm in tissue), and flat sensitivity roll-off within 4.3 mm imaging range. Together with the demonstration of two- and three-dimensional OCT imaging of a mud-fish eye anterior segment, we also perform comprehensive studies on the imaging depth, receiver bandwidth, and group velocity dispersion condition. This all-fiber inertia-free swept source could provide a promising source solution for SS-OCT system to realize high-performance volumetric OCT imaging in real time.

A high-throughput all-optical laser-scanning imaging flow cytometer with biomolecular specificity and subcellular resolution

Image-based cellular assay advances approaches to dissect complex cellular characteristics through direct visualization of cellular functional structures. However, available technologies face a common challenge, especially when it comes to the unmet need for unraveling population heterogeneity at single-cell precision: higher imaging resolution (and thus content) comes at the expense of lower throughput, or vice versa. To overcome this challenge, a new type of imaging flow cytometer based upon an all-optical ultrafast laser-scanning imaging technique, called free-space angular-chirp-enhanced delay (FACED) is reported. It enables an imaging throughput (>20 000 cells s^-1 ) 1 to 2 orders of magnitude higher than the camera-based imaging flow cytometers. It also has 2 critical advantages over optical time-stretch imaging flow cytometry, which achieves a similar throughput: (1) it is widely compatible to the repertoire of biochemical contrast agents, favoring biomolecular-specific cellular assay and (2) it enables high-throughput visualization of functional morphology of individual cells with subcellular resolution. These capabilities enable multiparametric single-cell image analysis which reveals cellular heterogeneity, for example, in the cell-death processes demonstrated in this work-the information generally masked in non-imaging flow cytometry. Therefore, this platform empowers not only efficient large-scale single-cell measurements, but also detailed mechanistic analysis of complex cellular processes.

Flexible pulse-stretching for a swept source at 2.0 μm using free-space angular-chirp-enhanced delay

Dispersive pulse-stretching at 2.0 μm has long been hindered by the high intrinsic optical loss from conventional dispersive media. Here a flexible pulse-stretching technique at 2.0 μm is demonstrated over a broad bandwidth with large-scale dispersion and low intrinsic optical loss. The technique employs the newly proposed pulse-stretching scheme, namely, free-space angular-chirp-enhanced delay. Both normal and anomalous temporal dispersion (up to ±500  ps/nm) with low intrinsic loss (<6  dB) over a spectral bandwidth of ∼84  nm at 2.0 μm is obtained with low nonlinear effects. Based on this method, an optical wavelength-swept source at 2.0 μm is realized and applied to spectrally encoded imaging at a line scan rate of ∼19  MHz, proving the potential of this pulse-stretching technique for continuous single-shot measurements at the 2.0 μm wavelength regime, particularly for optical microscopy and spectroscopy.

Compact fs ytterbium fiber laser at 1010 nm for biomedical applications

Ytterbium-doped fiber lasers (YDFLs) working in the near-infrared (NIR) spectral window and capable of high-power operation are popular in recent years. They have been broadly used in a variety of scientific and industrial research areas, including light bullet generation, optical frequency comb formation, materials fabrication, free-space laser communication, and biomedical diagnostics as well. The growing interest in YDFLs has also been cultivated for the generation of high-power femtosecond (fs) pulses. Unfortunately, the operating wavelengths of fs YDFLs have mostly been confined to two spectral bands, i.e., 970-980 nm through the three-level energy transition and 1030-1100 nm through the quasi three-level energy transition, leading to a spectral gap (990-1020 nm) in between, which is attributed to an intrinsically weak gain in this wavelength range. Here we demonstrate a high-power mode-locked fs YDFL operating at 1010 nm, which is accomplished in a compact and cost-effective package. It exhibits superior performance in terms of both short-term and long-term stability, i.e., <0.3% (peak intensity over 2.4 μs) and <4.0% (average power over 24 hours), respectively. To illustrate the practical applications, it is subsequently employed as a versatile fs laser for high-quality nonlinear imaging of biological samples, including two-photon excited fluorescence microscopy of mouse kidney and brain sections, as well as polarization-sensitive second-harmonic generation microscopy of potato starch granules and mouse tail muscle. It is anticipated that these efforts will largely extend the capability of fs YDFLs which is continuously tunable over 970-1100 nm wavelength range for wideband hyperspectral operations, serving as a promising complement to the gold-standard Ti:sapphire fs lasers.

Multi-MHz laser-scanning single-cell fluorescence microscopy by spatiotemporally encoded virtual source array

Apart from the spatial resolution enhancement, scaling of temporal resolution, equivalently the imaging throughput, of fluorescence microscopy is of equal importance in advancing cell biology and clinical diagnostics. Yet, this attribute has mostly been overlooked because of the inherent speed limitation of existing imaging strategies. To address the challenge, we employ an all-optical laser-scanning mechanism, enabled by an array of reconfigurable spatiotemporally-encoded virtual sources, to demonstrate ultrafast fluorescence microscopy at line-scan rate as high as 8 MHz. We show that this technique enables high-throughput single-cell microfluidic fluorescence imaging at 75,000 cells/second and high-speed cellular 2D dynamical imaging at 3,000 frames per second, outperforming the state-of-the-art high-speed cameras and the gold-standard laser scanning strategies. Together with its wide compatibility to the existing imaging modalities, this technology could empower new forms of high-throughput and high-speed biological fluorescence microscopy that was once challenged.

Microfluidic Imaging Flow Cytometry by Asymmetric-detection Time-stretch Optical Microscopy (ATOM)

Scaling the number of measurable parameters, which allows for multidimensional data analysis and thus higher-confidence statistical results, has been the main trend in the advanced development of flow cytometry. Notably, adding high-resolution imaging capabilities allows for the complex morphological analysis of cellular/sub-cellular structures. This is not possible with standard flow cytometers. However, it is valuable for advancing our knowledge of cellular functions and can benefit life science research, clinical diagnostics, and environmental monitoring. Incorporating imaging capabilities into flow cytometry compromises the assay throughput, primarily due to the limitations on speed and sensitivity in the camera technologies. To overcome this speed or throughput challenge facing imaging flow cytometry while preserving the image quality, asymmetric-detection time-stretch optical microscopy (ATOM) has been demonstrated to enable high-contrast, single-cell imaging with sub-cellular resolution, at an imaging throughput as high as 100,000 cells/s. Based on the imaging concept of conventional time-stretch imaging, which relies on all-optical image encoding and retrieval through the use of ultrafast broadband laser pulses, ATOM further advances imaging performance by enhancing the image contrast of unlabeled/unstained cells. This is achieved by accessing the phase-gradient information of the cells, which is spectrally encoded into single-shot broadband pulses. Hence, ATOM is particularly advantageous in high-throughput measurements of single-cell morphology and texture - information indicative of cell types, states, and even functions. Ultimately, this could become a powerful imaging flow cytometry platform for the biophysical phenotyping of cells, complementing the current state-of-the-art biochemical-marker-based cellular assay. This work describes a protocol to establish the key modules of an ATOM system (from optical frontend to data processing and visualization backend), as well as the workflow of imaging flow cytometry based on ATOM, using human cells and micro-algae as the examples.

Correction: Optofluidic time-stretch imaging - an emerging tool for high-throughput imaging flow cytometry

Correction for 'Optofluidic time-stretch imaging - an emerging tool for high-throughput imaging flow cytometry' by Andy K. S. Lau et al., Lab Chip, 2016, 16, 1743-1756.

Real-time observation of round-trip resolved spectral dynamics in a stabilized fs fiber laser

Fiber-stretcher based phase-lock loop (PLL) is a mature technique in fiber mode-locked lasers for repetition-rate stabilization. However, undesired side effects may be induced if not properly handled, which is easily overlooked owing to the lack of single-shot spectral analyzers. Thanks to the ultrafast spectral analyzing capability of optical time-stretch, an intriguing spectral dynamics is observed in a repetition-rate-stabilized nonlinear polarization rotation (NPR) mode-locked laser. Under the dynamic state, the optical spectra of pulses undergo dramatic evolution in every round trip while the pulse energy is relatively constant. Indicated by estimated cross-spectral densities, such spectral dynamics results in noticeable degradation in optical spectral coherence. The physical origin of the round-trip evolved spectral dynamics is attributed to the local birefringence induced by the fiber stretcher. Therefore, the results are helpful for a proper use of fiber-stretcher based PLL in fiber lasers, particularly when a good spectral coherence is desired. Furthermore, our study has also provided a potentially useful optical source for applications where fast spectral modulation is desired.

High-speed wavelength-swept source at 2.0 μm and its application in imaging through a scattering medium

We report a high-speed wavelength-swept source operating at 2.0 μm through advanced time-stretch technology. It sweeps over 30 nm at a speed of 3.3×10⁹  nm/s and a repetition rate of ∼19  MHz. To the best of our knowledge, this is the first time that a megahertz-stable swept source has been implemented at such a long wavelength. A wide bandwidth is enabled by a simple mode-locked fiber laser that covers a wavelength range of ∼60  nm. The all-optical wavelength sweeping is realized by a chirped fiber Bragg grating (CFBG), which shows a superior temporal stability and power efficiency, compared with commonly used dispersive fibers, particularly in the 2.0 μm wavelength window. To showcase its specialties, here we employ it to perform high-speed spectrally-encoded microscopy (i.e., time-stretch imaging) through a scattering medium at a line-scan rate of up to ∼19  MHz. Better image quality is achieved, compared with a conventional imaging window at 1.0 μm. It is believed that the potential applications of this new high-speed swept source will benefit the transient diagnosis that requires deep penetration through a scattering medium.

Time-stretch microscopy on a DVD for high-throughput imaging cell-based assay

Cell-based assay based on time-stretch imaging is recognized to be well-suited for high-throughput phenotypic screening. However, this ultrafast imaging technique has primarily been limited to suspension-cell assay, leaving a wide range of solid-substrate assay formats uncharted. Moreover, time-stretch imaging is generally restricted to intrinsic biophysical phenotyping, but lacks the biomolecular signatures of the cells. To address these challenges, we develop a spinning time-stretch imaging assay platform based on the functionalized digital versatile disc (DVD). We demonstrate that adherent cell culture and biochemically-specific cell-capture can now be assayed with time-stretch microscopy, thanks to the high-speed DVD spinning motion that naturally enables on-the-fly cellular imaging at an ultrafast line-scan rate of >10MHz. As scanning the whole DVD at such a high speed enables ultra-large field-of-view imaging, it could be favorable for scaling both the assay throughput and content as demanded in many applications, e.g. drug discovery, and rare cancer cell screening.

Ultrafast laser-scanning time-stretch imaging at visible wavelengths

Optical time-stretch imaging enables the continuous capture of non-repetitive events in real time at a line-scan rate of tens of MHz-a distinct advantage for the ultrafast dynamics monitoring and high-throughput screening that are widely needed in biological microscopy. However, its potential is limited by the technical challenge of achieving significant pulse stretching (that is, high temporal dispersion) and low optical loss, which are the critical factors influencing imaging quality, in the visible spectrum demanded in many of these applications. We present a new pulse-stretching technique, termed free-space angular-chirp-enhanced delay (FACED), with three distinguishing features absent in the prevailing dispersive-fiber-based implementations: (1) it generates substantial, reconfigurable temporal dispersion in free space (>1 ns nm-1) with low intrinsic loss (<6 dB) at visible wavelengths; (2) its wavelength-invariant pulse-stretching operation introduces a new paradigm in time-stretch imaging, which can now be implemented both with and without spectral encoding; and (3) pulse stretching in FACED inherently provides an ultrafast all-optical laser-beam scanning mechanism at a line-scan rate of tens of MHz. Using FACED, we demonstrate not only ultrafast laser-scanning time-stretch imaging with superior bright-field image quality compared with previous work but also, for the first time, MHz fluorescence and colorized time-stretch microscopy. Our results show that this technique could enable a wider scope of applications in high-speed and high-throughput biological microscopy that were once out of reach.

High-throughput time-stretch imaging flow cytometry for multi-class classification of phytoplankton

Time-stretch imaging has been regarded as an attractive technique for high-throughput imaging flow cytometry primarily owing to its real-time, continuous ultrafast operation. Nevertheless, two key challenges remain: (1) sufficiently high time-stretch image resolution and contrast is needed for visualizing sub-cellular complexity of single cells, and (2) the ability to unravel the heterogeneity and complexity of the highly diverse population of cells - a central problem of single-cell analysis in life sciences - is required. We here demonstrate an optofluidic time-stretch imaging flow cytometer that enables these two features, in the context of high-throughput multi-class (up to 14 classes) phytoplantkton screening and classification. Based on the comprehensive feature extraction and selection procedures, we show that the intracellular texture/morphology, which is revealed by high-resolution time-stretch imaging, plays a critical role of improving the accuracy of phytoplankton classification, as high as 94.7%, based on multi-class support vector machine (SVM). We also demonstrate that high-resolution time-stretch images, which allows exploitation of various feature domains, e.g. Fourier space, enables further sub-population identification - paving the way toward deeper learning and classification based on large-scale single-cell images. Not only applicable to biomedical diagnostic, this work is anticipated to find immediate applications in marine and biofuel research.

Ultrafast time-stretch imaging at 932 nm through a new highly-dispersive fiber

Optical glass fiber has played a key role in the development of modern optical communication and attracted the biotechnology researcher's great attention because of its properties, such as the wide bandwidth, low attenuation and superior flexibility. For ultrafast optical imaging, particularly, it has been utilized to perform MHz time-stretch imaging with diffraction-limited resolutions, which is also known as serial time-encoded amplified microscopy (STEAM). Unfortunately, time-stretch imaging with dispersive fibers has so far mostly been demonstrated at the optical communication window of 1.5 μm due to lack of efficient dispersive optical fibers operating at the shorter wavelengths, particularly at the bio-favorable window, i.e., <1.0 μm. Through fiber-optic engineering, here we demonstrate a 7.6-MHz dual-color time-stretch optical imaging at bio-favorable wavelengths of 932 nm and 466 nm. The sensitivity at such a high speed is experimentally identified in a slow data-streaming manner. To the best of our knowledge, this is the first time that all-optical time-stretch imaging at ultrahigh speed, high sensitivity and high chirping rate (>1 ns/nm) has been demonstrated at a bio-favorable wavelength window through fiber-optic engineering.

Self-healing highly-chirped fiber laser at 1.0 μm

We demonstrate a MHz wavelength-swept fiber laser with diffraction-free and self-healing properties at the bio-favorable wavelength window of 1.0 μm. This ultrafast wavelength sweeping at a high chirp rate is all-optically realized through a newly-designed dispersive fiber that can provide a dispersion amount up to -1.7 ns/nm. It is 8 times larger than the standard single-mode fiber at this window and by adopting a double-pass configuration, the dispersion amount can be further increased to about -3.5 ns/nm, which is 23 times larger than what has previously been demonstrated. Its beam profile, a 2D Airy function, shows no obvious diffraction within a propagation distance of 2 meters and furthermore, the self-healing property is also verified by blocking the main lobe of the laser beam. This is the first wavelength-swept fiber laser equipped with diffraction-free and self-healing properties at the bio-favorable window. We believe that such effort can enable real-time data processing and a deeper penetration for the high-speed spectroscopic applications in the turbid environment.

Optofluidic time-stretch imaging - an emerging tool for high-throughput imaging flow cytometry

Optical imaging is arguably the most effective tool to visualize living cells with high spatiotemporal resolution and in a nearly noninvasive manner. Driven by this capability, state-of-the-art cellular assay techniques have increasingly been adopting optical imaging for classifying different cell types/stages, and thus dissecting the respective cellular functions. However, it is still a daunting task to image and characterize cell-to-cell variability within an enormous and heterogeneous population - an unmet need in single-cell analysis, which is now widely advocated in modern biology and clinical diagnostics. The challenge stems from the fact that current optical imaging technologies still lack the practical speed and sensitivity for measuring thousands to millions of cells down to the single-cell precision. Adopting the wisdom in high-speed fiber-optics communication, optical time-stretch imaging has emerged as a completely new optical imaging concept which is now proven for ultrahigh-throughput optofluidic single-cell imaging, at least 1-2 orders-of-magnitude higher (up to ∼100 000 cells per second) compared to the existing imaging flow cytometers. It also uniquely enables quantification of intrinsic biophysical markers of individual cells - a largely unexploited class of single-cell signatures that is known to be correlated with the overwhelmingly investigated biochemical markers. With the aim of reaching a wider spectrum of experts specializing in cellular assay developments and applications, this paper highlights the essential basics of optical time-stretch imaging, followed by reviewing the recent developments and applications of optofluidic time-stretch imaging. We will also discuss the current challenges of this technology, in terms of providing new insights in basic biology and enriching the clinical diagnostic toolsets.

28 MHz swept source at 1.0 μm for ultrafast quantitative phase imaging

Emerging high-throughput optical imaging modalities, in particular those providing phase information, necessitate a demanding speed regime (e.g. megahertz sweep rate) for those conventional swept sources; while an effective solution is yet to be demonstrated. We demonstrate a stable breathing laser as inertia-free swept source (BLISS) operating at a wavelength sweep rate of 28 MHz, particularly for the ultrafast interferometric imaging modality at 1.0 μm. Leveraging a tunable dispersion compensation element inside the laser cavity, the wavelength sweep range of BLISS can be tuned from ~10 nm to ~63 nm. It exhibits a good intensity stability, which is quantified by the ratio of standard deviation to the mean of the pulse intensity, i.e. 1.6%. Its excellent wavelength repeatability, <0.05% per sweep, enables the single-shot imaging at an ultrafast line-scan rate without averaging. To showcase its potential applications, it is applied to the ultrafast (28-MHz line-scan rate) interferometric time-stretch (iTS) microscope to provide quantitative morphological information on a biological specimen at a lateral resolution of 1.2 μm. This fiber-based inertia-free swept source is demonstrated to be robust and broadband, and can be applied to other established imaging modalities, such as optical coherence tomography (OCT), of which an axial resolution better than 12 μm can be achieved.

110 nm versatile fiber optical parametric amplifier at 1.0 μm

The fiber optical parametric amplifier (FOPA) has been well investigated and widely adopted at the telecommunication window, and outstanding progress has been achieved in areas such as high gain, wide bandwidths, and even flexible gain-spectrum shape. In contrast, a FOPA at the bio-favorable window, 1.0 μm, has been largely underexploited, especially for its relatively limited bandwidth. Here, we demonstrate an all-fiber single-pump FOPA at 1.0 μm with versatile performances, including ultrahigh gain (∼52  dB), wide bandwidth (∼110  nm), and good gain-spectrum flatness (∼3  dB). To showcase the practical applications, the FOPA is utilized to amplify the broadband optical image signal from a spectrally encoded microscopy, yielding a sensitivity enhancement of 47 dB. Thus, it is promising that this all-fiber versatile FOPA works well as an add-on module in boosting sensitivity for existing optical systems at a 1.0 μm window.

High-performance multi-megahertz optical coherence tomography based on amplified optical time-stretch

As the key prerequisite of high-speed volumetric structural and functional tissue imaging in real-time, scaling the A-scan rate beyond MHz has been one of the major pursuits in the development of optical coherence tomography (OCT). Along with a handful of techniques enabling multi-MHz, amplified optical time-stretch OCT (AOT-OCT) has recently been demonstrated as a viable alternative for ultrafast swept-source OCT well above MHz without the need for the mechanical wavelength-tuning mechanism. In this paper, we report a new generation of AOT-OCT demonstrating superior performance to its older generation and all other time-stretch-based OCT modalities in terms of shot-to-shot stability, sensitivity (~90dB), roll-off performance (>4 mm/dB) and A-scan rate (11.5 MHz). Such performance is mainly attributed to the combined contribution from the stable operation of the broadband and compact mode-locked fiber laser as well as the optical amplification in-line with the time-stretch process. The system allows us, for the first time, to deliver volumetric time-stretch-based OCT of biological tissues with the single-shot A-scan rate beyond 10 MHz. Comparing with the existing high-speed OCT systems, the inertia-free AOT-OCT shows promises to realize high-performance 3D OCT imaging at video rate.

Breathing laser as an inertia-free swept source for high-quality ultrafast optical bioimaging

We demonstrate an all-fiber breathing laser as inertia-free swept source (BLISS), with an ultra-compact design, for the emerging ultrafast bioimaging modalities. The unique feature of BLISS is its broadband wavelength-swept operation (∼60  nm) with superior temporal stability in terms of both long term (0.08 dB over 27 h) and shot-to-shot power variations (2.1%). More importantly, it enables a wavelength sweep rate of >10  MHz (∼7×10⁸  nm/s)—orders-of-magnitude faster than the existing swept sources based on mechanical or electrical tuning techniques. BLISS thus represents a practical and new generation of swept source operating in the unmet megahertz swept-rate regime that aligns with the pressing need for scaling the optical bioimaging speed in ultrafast phenomena study or high-throughput screening applications. To showcase its utility in high-speed optical bioimaging, we here employ BLISS for ultrafast time-stretch microscopy and multi-MHz optical coherence tomography of the biological specimen at a single-shot line-scan rate or A-scan rate of 11.5 MHz.

Broadband fiber-optical parametric amplification for ultrafast time-stretch imaging at 1.0 μm

We demonstrate a broadband all-fiber-optical parametric amplifier for ultrafast time-stretch imaging at 1.0 μm, featured by its compact design, alignment-free, high efficiency, and flexible gain spectrum through fiber nonlinearity- and dispersion-engineering: specifically on a dispersion-stabilized photonic-crystal fiber (PCF) to achieve a net gain over 20 THz (75 nm) and a highest gain of ~6000 (37.5 dB). Another unique feature of the parametric amplifier, over other optical amplifiers, is the coherent generation of a synchronized signal replica (called idler) that can be exploited to offer an extra 3-dB gain by optically superposing the signal and idler. It further enhances signal contrast and temporal stability. For proof-of-concept purpose, ultrahigh speed and diffraction-limited time-stretch microscopy is demonstrated with a single-shot line-scan rate of 13 MHz based on the dual-band (signal and idler) detection. Our scheme can be extended to other established bioimaging modalities, such as optical coherence tomography, near infrared fluorescence, and photoacoustic imaging, where weak signal detection at high speed is required.

Performance of megahertz amplified optical time-stretch optical coherence tomography (AOT-OCT)

Enabled by the ultrahigh-speed all-optical wavelength-swept mechanism and broadband optical amplification, amplified optical time-stretch optical coherence tomography (AOT-OCT) has recently been demonstrated as a practical alternative to achieve ultrafast A-scan rate of multi-MHz in OCT. With the aim of identifying the optimal scenarios for MHz operation in AOT-OCT, we here present a theoretical framework to evaluate its performance metric. In particular, the analysis discusses the unique features of AOT-OCT, such as its superior coherence length, and the relationship between the optical gain and the A-scan rate. More importantly, we evaluate the sensitivity of AOT-OCT in the MHz regime under the influence of the amplifier noise. Notably, the model shows that AOT-OCT is particularly promising when operated at the A-scan rate well beyond multi-MHz--not trivially achievable by any existing swept-source OCT platform. A sensitivity beyond 90 dB, close to the shot-noise limit, can be maintained in the range of 2 - 10 MHz with an optical net gain of ~10 dB. Experimental measurement also shows excellent agreement with the theoretical prediction. While distributed fiber Raman amplification is mainly considered in this paper, the theoretical model is generally applicable to any type of amplification schemes. As a result, our analysis serves as a useful tool for further optimization of AOT-OCT system--as a practical alternative to enable MHz OCT operation.

Megahertz all-optical swept-source optical coherence tomography based on broadband amplified optical time-stretch

We demonstrate all-optical ultrahigh-speed swept-source optical coherence tomography (OCT) based on amplified optical time-stretch (AOT). Such an inertia-free wavelength-swept mechanism, via group velocity dispersion, enables us to realize OCT with an A-scan rate well above MHz. More importantly, the key significance of AOT-OCT is its simultaneous broadband Raman amplification during the time-stretch process-greatly enhancing the detection sensitivity compared with prior attempts to apply optical time-stretch to OCT. Here, we report on an AOT-OCT system which is operated at an A-scan rate of 7.14 MHz, a superior roll-off performance (>2 mm/dB), a record-high sensitivity of time-stretch-based OCT (>80 dB) with a broadband gain bandwidth of 80 nm, which results in an axial resolution of ∼15 μm. Our AOT-OCT system is thus able to, for the first time to the best of our knowledge, perform time-stretch-based OCT of biological tissue in vivo. It represents a major step forward in utilizing AOT as an alternative for achieving practical MHz OCT, without any long-term mechanical stability concerns as in typical swept-source OCT or bypassing the speed limitation of the image sensor employed in spectral-domain OCT.

Interferometric time-stretch microscopy for ultrafast quantitative cellular and tissue imaging at 1 μm

Quantitative phase imaging (QPI) has been proven to be a powerful tool for label-free characterization of biological specimens. However, the imaging speed, largely limited by the image sensor technology, impedes its utility in applications where high-throughput screening and efficient big-data analysis are mandated. We here demonstrate interferometric time-stretch (iTS) microscopy for delivering ultrafast quantitative phase cellular and tissue imaging at an imaging line-scan rate >20 MHz—orders-of-magnitude faster than conventional QPI. Enabling an efficient time-stretch operation in the 1-μm wavelength window, we present an iTS microscope system for practical ultrafast QPI of fixed cells and tissue sections, as well as ultrafast flowing cells (at a flow speed of up to 8 m∕s). To the best of our knowledge, this is the first time that time-stretch imaging could reveal quantitative morphological information of cells and tissues with nanometer precision. As many parameters can be further extracted from the phase and can serve as the intrinsic biomarkers for disease diagnosis, iTS microscopy could find its niche in high-throughput and high-content cellular assays (e.g., imaging flow cytometry) as well as tissue refractometric imaging (e.g., whole-slide imaging for digital pathology).

Optical time-stretch confocal microscopy at 1 μm

We demonstrate optical time-stretch confocal microscopy in the 1 μm spectral window for high-speed and high-resolution cellular imaging. In contrast to the prior demonstrations of time-stretch imaging, which all operated in the telecommunication band, the present work extends the utility of this imaging modality to a wavelength regime (~1 μm), which is well known to be the optimal diagnostic window in biophotonics. This imaging technique enables us to image the nasopharyngeal epithelial cells with cellular resolution (<2 μm), at a line scan rate of 10 MHz, and with a field of view as wide as ~0.44 mm × 0.1 mm. We also theoretically and experimentally characterized the system performance. As the low-loss dispersive fibers for the time-stretch process as well as other essential optical components for enhancing the imaging sensitivity are commonly available at 1 μm, time-stretch confocal microscopy in this wavelength range could usher in realizing high-speed cell imaging with an unprecedented throughput.

Serial time-encoded amplified microscopy (STEAM) based on a stabilized picosecond supercontinuum source

Temporal stability of the broadband source, such as supercontinuum (SC), is the key enabling factor for realizing high performance ultrafast serial time-encoded amplified microscopy (STEAM). Owing to that the long-pulse SC (picosecond to nanosecond) generation generally results in an ultrabroadband spectrum with significant pulse-to-pulse fluctuation, only the ultrashort-pulse (femtosecond) SC sources, which offer better temporal stability, have been employed in STEAM so far. Here we report a simple approach to achieve active control of picosecond SC stability and to help extend the applicability of SC in STEAM from the femtosecond to the picosecond or even nanosecond regimes. We experimentally demonstrate stable single-shot STEAM imaging at a frame rate of 4.9 MHz using the CW-triggered picosecond SC source. Such CW-stabilized SC can greatly reduce the shot-to-shot fluctuation, and thus improves the STEAM image quality significantly.

Investigating the influence of a weak continuous-wave-trigger on picosecond supercontinuum generation

We numerically study the impacts of introducing a minute continuous-wave (CW) trigger on the properties of picosecond supercontinuum (SC) generation. We show that this simple triggering approach enables active control of not only the bandwidth, but more importantly the temporal coherence of SC. Detailed numerical simulations suggest that depending on the wavelength of the CW-trigger the multiple higher-order four-wave mixing (FWM) components generated by the CW-trigger can create either a relatively more stochastic or a more deterministic beating effect on the pump pulse, which has significant implications on how soliton fission and the onset of SC are initiated in the presence of noise. By controlling the CW-trigger wavelengths, the rogue solitons emerged in SC generation can exhibit high-degree of temporal coherence and pulse-to-pulse intensity stability. The present study provides a valuable insight on how the initial soliton fission can be initiated in a more controllable manner such that SC generation with both high temporal coherence and stability can be realized.

Manipulating supercontinuum generation by minute continuous wave

We report a simple triggering mechanism that greatly enhances and stabilizes supercontinuum generation by using an extremely weak cw light (~200,000 times weaker than the pump light). Such an active manipulation scheme can be enabled by a wide range of input conditions and circumvents complex techniques such as precise time delay tuning and dedicated feedback control. It thus offers a handy and versatile approach to control and optimize supercontinuum generation, expanding its range of applications, including ultrafast all-optical signal processing, spectroscopy, and imaging. The utility of the present technique for improving signal integrity in chirped pump optical parametric amplification is also demonstrated.

Performance of serial time-encoded amplified microscope

Serial time-encoded amplified microscopy (STEAM) is an entirely new imaging modality that enables ultrafast continuous real-time imaging with high sensitivity. By means of optical image amplification, STEAM overcomes the fundamental tradeoff between sensitivity and speed that affects virtually all optical imaging systems. Unlike the conventional microscope systems, the performance of STEAM depends not only on the lenses, but also on the properties of other components that are unique to STEAM, namely the spatial disperser, the group velocity dispersion element, and the back-end electronic digitizer. In this paper, we present an analysis that shows how these considerations affect the spatial resolution, and how they create a trade-off between the number of pixels and the frame rate of the STEAM imager. We also quantify how STEAM's optical image amplification feature improves the imaging sensitivity. These analyses not only provide valuable insight into the operation of STEAM technology but also serve as a blue print for implementation and optimization of this new imaging technology.