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Although the role of RNA binding proteins (RBPs) in extracellular RNA (exRNA) biology is well established, their exRNA cargo and distribution across biofluids are largely unknown. To address this gap, we extend the exRNA Atlas resource by mapping exRNAs carried by extracellular RBPs (exRBPs). This map was developed through an integrative analysis of ENCODE enhanced crosslinking and immunoprecipitation (eCLIP) data (150 RBPs) and human exRNA profiles (6,930 samples). Computational analysis and experimental validation identified exRBPs in plasma, serum, saliva, urine, cerebrospinal fluid, and cell-culture-conditioned medium. exRBPs carry exRNA transcripts from small non-coding RNA biotypes, including microRNA (miRNA), piRNA, tRNA, small nuclear RNA (snRNA), small nucleolar RNA (snoRNA), Y RNA, and lncRNA, as well as protein-coding mRNA fragments. Computational deconvolution of exRBP RNA cargo reveals associations of exRBPs with extracellular vesicles, lipoproteins, and ribonucleoproteins across human biofluids. Overall, we mapped the distribution of exRBPs across human biofluids, presenting a resource for the community.

The highly controlled, microfluidic template-assisted self-assembly of CsPbBr3 nanocrystals into spherical supraparticles is presented, achieving precise control over average supraparticle size through the variation of nanocrystal concentration and droplet size; thus facilitating the synthesis of highly monodisperse, sub-micron supraparticles (with diameters between 280 and 700 nm)., Chemical Communications, 59 (24), ISSN:1359-7345, ISSN:1364-548X

The assembly of nanomaterials into suprastructures offers the possibility to fabricate larger scale functional materials, whose inner structure strongly influences their functionality for a vast range of applications. In spite of the many current strategies, achieving multi-compartment structures in a targeted and versatile way remains highly challenging. Here, we describe a controllable and straightforward route to create uniform suprastructured materials with a multi-compartmentalized architecture by confining primary nanocapsules into droplets using a cross-junction microfluidic device. Following solvent evaporation from the droplets, the nanocapsules spontaneously assemble into precisely sized multi-compartment particles, which we term supracapsules. Thanks to the process, each spatially separated nanocapsule unit retains its cargo and functionalities within the resulting supracapsules. However, new collective properties emerge, and, particularly, programmable release profiles that are distinct from those of single-compartment capsules. Finally, the suprastructures can be disassembled into single-compartment units by applying ultra-sonication, switching their release to a burst-release mode. These findings open up exciting opportunities to fabricate multi-compartment suprastructures incorporating diverse functionalities for materials with emerging properties., Materials Horizons, 9 (6), ISSN:2051-6347, ISSN:2051-6355

Microfluidic paper-based analytical devices (µPADs) are indispensable tools for disease diagnostics. The integration of electronic components into µPADs enables new device functionalities and facilitates the development of complex quantitative assays. Unfortunately, current electrode fabrication methods often hinder capillary flow, considerably restricting µPAD design architectures. Here, laser-induced graphenization is presented as an approach to fabricate porous electrodes embedded into cellulose paper. The resulting electrodes not only have high conductivity and electrochemical activity, but also retain wetting properties for capillary transport. Paper-based electrofluidics, including a lateral flow device for injection analysis of alkaline phosphatase in serum and a vertical flow device for quantitative detection of HPV16 with a CRISPR-based assay are demonstrated. It is expected that this platform will streamline the development of diagnostic devices that combine the operational simplicity of colorimetric lateral flow tests with the added benefits and possibilities offered by electronic signaling., Advanced Materials, ISSN:0935-9648, ISSN:1521-4095

Characterization of particle size and shape is central to the study of particulate matter in its broadest sense. Whilst 1D characterization defines the state of the art, the development of 2D and 3D characterization methods has attracted increasing attention, due to a common need to measure particle shape alongside size. Herein, ensembles of micrometer-sized cuboidal particles are studied, for which reliable sizing techniques are currently missing. Such particles must be characterized using three orthogonal dimensions to completely describe their size and shape. To this end, the utility of an online and in-flow multiprojection imaging tool coupled with machine learning is experimentally assessed. Central to this activity, a methodology is outlined to produce micrometer-sized, non-spherical analytical standards. Such analytical standards are fabricated using photolithography, and consist of monodisperse micro-cuboidal particles of user-defined size and shape. The aforementioned activities are addressed through an experimental framework that fabricates analytical standards and subsequently uses them to validate the performance of our multiprojection imaging tool. Significantly, it is shown that the same set of data collected for particle sizing can also be used to estimate particle orientation in flow, thus defining a rapid and robust protocol to investigate the behavior of dilute particle-laden flows., Small Methods, 7 (1), ISSN:2366-9608

Granular hydrogels have been increasingly exploited in biomedical applications, including wound healing and cardiac repair. Despite their utility, design guidelines for engineering their macroscale properties remain limited, as we do not understand how the properties of granular hydrogels emerge from collective interactions of their microgel building blocks. In this work, we related building block features (stiffness and size) to the macroscale properties of granular hydrogels using contact mechanics. We investigated the mechanics of the microgel packings through dynamic oscillatory rheology. In addition, we modeled the system as a collection of two-body interactions and applied the Zwanzig and Mountain formula to calculate the plateau modulus and viscosity of the granular hydrogels. The calculations agreed with the dynamic mechanical measurements and described how microgel properties and contact deformations define the rheology of granular hydrogels. These results support a rational design framework for improved engineering of this fascinating class of materials.

To understand the crystallization of aqueous solutions in the atmosphere, biological specimens, or pharmaceutical formulations, the rate at which ice nucleates from pure liquid water must be quantified. There is still an orders-of-magnitude spread in the homogeneous nucleation rate of water measured using different instruments, with the most important source of uncertainty being that of the measured temperature. Microfluidic platforms can generate hundreds to thousands of monodisperse water-in-oil droplets, unachievable by most other techniques. However, most microfluidic devices previously used to quantify homogeneous ice nucleation rates have reported high temperature uncertainties, between +/- 0.3 and +/- 0.7 K. We use the recently developed Microfluidic Ice Nuclei Counter Zurich (MINCZ) to observe the freezing of spherical water droplets with two diameters (75 and 100 mu m) at two cooling rates (1 and 0.1 K min(-1)). By varying both droplet volume and cooling rate, we were able to probe a temperature range of 236.5-239.3 K with an accuracy of +/- 0.2 K, providing reliable data where previously determined nucleation rates suffered from large uncertainties and inconsistencies, especially at temperatures above 238 K. From these data and from Monte Carlo simulations, we demonstrate the importance of obtaining a sufficiently large dataset so that underlying nucleation rates are not overestimated at higher temperatures. Finally, we obtain new parameters for a previous parameterisation by fitting to our newly measured nucleation rates, enabling its use in applications where ice formation needs to be predicted., Physical Chemistry Chemical Physics, 24 (46), ISSN:1463-9084, ISSN:1463-9076

Droplets impacting solid surfaces is ubiquitous in nature and of practical importance in numerous industrial applications. For liquid-repelling applications, rigidity-based asymmetric redistribution and flexibility-based structural oscillation strategies have been proven on artificial surfaces; however, these are limited by strict impacting positioning. Here, we show that the gap between these two strategies can be bridged by a flexibility-patterned design similar to a trampoline park. Such a flexibility-patterned design is realized by three-dimensional projection micro-stereolithography and is shown to enhance liquid repellency in terms of droplet impalement resistance and contact time reduction. This is the first demonstration of the synergistic effect obtained by a hybrid solution that exploits asymmetric redistribution and structural oscillation in liquid-repelling applications, paving the rigidity-flexibility cooperative way of wettability tuning. Also, the flexibility-patterned surface is applied to accelerate liquid evaporation.

We present a method for monitoring spatially localized antigen–antibody binding events on physiologically relevant substrates (cell and tissue sections) using fluorescence lifetime imaging. Specifically, we use the difference between the fluorescence decay times of fluorescently tagged antibodies in free solution and in the bound state to track the bound fraction over time and hence deduce the binding kinetics. We make use of a microfluidic probe format to minimize the mass transport effects and localize the analysis to specific regions of interest on the biological substrates. This enables measurement of binding constants (kon) on surface-bound antigens and on cell blocks using model biomarkers. Finally, we directly measure p53 kinetics with differential biomarker expression in ovarian cancer tissue sections, observing that the degree of expression corresponds to the changes in kon, with values of 3.27–3.50 × 10(3) M(–1) s(–1) for high biomarker expression and 2.27–2.79 × 10(3) M(–1) s(–1) for low biomarker expression. ISSN:1520-6882 ISSN:0003-2700

Ice nucleation in the atmosphere is the precursor to important processes that determine cloud properties and lifetime. Computational models that are used to predict weather and project future climate changes require parameterizations of both homogeneous nucleation (i.e. in pure water) and heterogeneous nucleation (i.e. catalysed by ice-nucleating particles, INPs). Microfluidic systems have gained momentum as a tool for obtaining such parameterizations and gaining insight into the stochastic and deterministic contributions to ice nucleation. To overcome the shortcomings of polydimethylsiloxane (PDMS) microfluidic devices with regard to temperature uncertainty and droplet instability due to continuous water adsorption by PDMS, we have developed a new instrument: the Microfluidic Ice Nuclei Counter Zurich (MINCZ). In MINCZ, droplets with a diameter of 75 mu m are generated using a PDMS chip, and hundreds of these droplets are then stored in fluoropolymer tubing that is relatively impermeable to water and solvents. Droplets within the tubing are cooled in an ethanol bath. We validate MINCZ by measuring the homogeneous freezing temperatures of water droplets and the heterogeneous freezing temperatures of aqueous suspensions containing microcline, a common and effective INP in the atmosphere. We obtain results with a high accuracy of 0.2 K in measured droplet temperature. Pure water droplets with a diameter of 75 mu m freeze at a median temperature of 237.3 K with a standard deviation of 0.1 K. Additionally, we perform several freeze-thaw cycles. In the future, MINCZ will be used to investigate the freezing behaviour of INPs, motivated by a need for better-constrained parameterizations of ice nucleation in weather and climate models, wherein the presence or absence of ice influences cloud optical properties and precipitation formation., Atmospheric Measurement Techniques, 15 (18), ISSN:1867-1381, ISSN:1867-8548

The ability to engineer enzymes for industrial and biomedical applications is primarily limited by a paucity of mechanistic understanding. To gain insight into the mechanisms of enzyme catalysis, one must screen enormous numbers of discrete reaction conditions, which is a laborious task using conventional technologies. To address such limitations, we develop a droplet-based microfluidic platform for high-throughput acquisition of transient kinetic data over a range of substrate concentrations and temperatures. When compared with conventional methods, our platform reduces assay volumes by six orders of magnitude and increases throughput to 9,000 reactions/min. To demonstrate their utility, we measure the transient kinetics of three model enzymes, namely, β-galactosidase, horseradish peroxidase, and microperoxidase. Additionally, we conduct a complex kinetic and thermodynamic study of engineered variants of haloalkane dehalogenases. Datasets are globally analyzed and complemented by molecular dynamics simulations, providing new insights into the molecular basis of substrate specificity and the role of hydration-related entropy. ISSN:2451-9294 ISSN:2451-9308

Loop-mediated isothermal amplification (LAMP) has been widely used to detect many infectious diseases. However, minor inconveniences during the steps of adding reaction ingredients and lack of simple color results hinder point-of-care detection. We therefore invented a fluorometric paper-based LAMP by incorporating LAMP reagents, including a biotinylated primer, onto a cellulose membrane paper, with a simple DNA fluorescent dye incubation that demonstrated rapid and accurate results parallel to quantitative polymerase chain reaction (qPCR) methods. This technology allows for instant paper strip detection of methicillin-resistant Staphylococcus aureus (MRSA) in the laboratory and clinical samples. MRSA represents a major public health problem as it can cause infections in different parts of the human body and yet is resistant to commonly used antibiotics. In this study, we optimized LAMP reaction ingredients and incubation conditions following a central composite design (CCD) that yielded the shortest reaction time with high sensitivity. These CCD components and conditions were used to construct the paper-based LAMP reaction by immobilizing the biotinylated primer and the rest of the LAMP reagents to produce the ready-to-use MRSA diagnostic device. Our paper-based LAMP device could detect as low as 10 ag (equivalent to 1 copy) of the MRSA gene mecA within 36-43 min, was evaluated using both laboratory (individual cultures of MRSA and non-MRSA bacteria) and clinical blood samples to be 100% specific and sensitive compared to qPCR results, and had 35 day stability under 25 °C storage. Furthermore, the color readout allows for quantitation of MRSA copies. Hence, this device is applicable for point-of-care MRSA detection.

Biotemplating is a powerful approach for manufacturing small-scale devices. Here, the assembly of metal-organic framework (MOF) nanocrystals onto biotemplated magnetic helical structures on the cyanobacterium Spirulina platensis is reported. It is demonstrated that the authors' approach is universal and can be used to equip biotemplated structures with different functional MOF systems. The successful assembly of MOF nanocrystals on magnetically coated helical biotemplates is achieved by decorating the magnetic surface with gelatin, a naturally occurring macromolecule with synthon moieties that allows anchoring of the MOF nanocrystals via electrostatic interactions. Furthermore, as gelatin is a thermally responsive material, it can serve to free the magnetic biotemplates from the MOF nanocrystal cargoes. As such, the systems can be used as highly integrated magnetically driven microrobots with multiple functionalities. To this end, the potential of these composite helical architectures is demonstrated as MOF-based small-scale robots with applications in biomedicine and environmental remediation., Advanced Functional Materials, 32 (13), ISSN:1616-3028, ISSN:1616-301X

Since their discovery, CRISPR/Cas systems have been extensively exploited in nucleic acid biosensing. However, the vast majority of contemporary platforms offer only qualitative detection of nucleic acid, and fail to realize ultrasensitive quantitative detection. Herein, we report a digital droplet-based platform (DropCRISPR), which combines loop-mediated isothermal amplification (LAMP) with CRISPR/Cas12a to realize ultrasensitive and quantitative detection of nucleic acids. This is achieved through a novel two-step microfluidic system which combines droplet LAMP with a picoinjector capable of injecting the required CRISPR/Cas12a reagents into each droplet. This method circumvents the temperature incompatibilities of LAMP and CRISPR/Cas12a and avoids mutual interference between amplification reaction and CRISPR detection. Ultrasensitive detection (at fM level) was achieved for a model plasmid containing the invA gene of Salmonella typhimurium (St), with detection down to 10

Microfluidic tools have shown significant utility in the synthesis of high-quality nanomaterials. In this issue of Matter, Bateni et al. showcase an automated, modular microfluidic platform with in situ optical characterization using post-synthetic manganese doping of CsPbCl3 Quantum Dots.

In recent years, flow photolithography (FL) has emerged as a powerful synthetic tool for the creation of barcoded microparticles with complex morphologies and chemical compositions which have been shown to be useful in a range of multiplexed bioassay applications. More specifically, FL has been highly successful in producing micron-sized, encoded particles of bespoke shape, size, and color. That said, to date, FL has been restricted to generating barcoded microparticles and has lacked the ability to produce hybrid fibers which are structurally and spectrally encoded. To this end, we herein present a method that combines a continuous flow microfluidic system with two-photon polymerization (2PP) to fabricate microscale-encoded fibers and Janus strips in a high-throughput manner. Specifically, two co-flow liquid streams containing a monomer and initiator are introduced through a Y-shape channel to form a stable interface in the center of a microfluidic channel. The flow containing the (fluorescently labeled) monomer is then patterned by scanning the voxel of the 2PP laser across the interface to selectively polymerize different regions of the forming fiber/particle. Such a process allows for rapid spectral encoding at the single fiber level, with the resulting structurally coded fibers having obvious application in the fields of security identification and anticounterfeiting.

Colorimetric sandwich-type biosensors that can both provide sensitivity competitive with fluorescence-based approaches, and leverage reagents that are cost-effective, widely available and as safe as possible, are highly sought after. Herein, we demonstrate an alternative highly-sensitive colorimetric method for paper-based sandwich-type biosensing that uses starch–iodide complexation to simplify practical biosensing using ubiquitous reagents. Targeting the mycotoxin ochratoxin A (OTA), a covalently-immobilised OTA antibody on a cellulose surface captures OTA and forms a sandwich with OTA aptamer-conjugated glucose oxidase. Adding the chromogenic reagents at an optimized concentration, a distinct blue color develops within 30 min, offering excellent contrast with the clear/white of the negative sample. With a sampling volume down to just 5 μL, the assay exhibits concentration limits of detection and quantitation of 20 and 320 pg mL−1, respectively, and a linear range from 10−1 to 105 ng mL−1 (R2 = 0.997). The method displays excellent selectivity against related mycotoxins, excellent %recovery (95–117%) and robust operation in complex matrices (beer, urine and human serum), with no significant difference versus gold-standard liquid chromatography. Along with its excellent analytical performance, this assay benefits from non-toxic and extremely cheap reagents that can be safely disposed of in the field, and presents an attractive alternative to toxic dyes and nanoparticles.

Besides the conventional fiber production methods, microfluidics has emerged as a promising approach for the engineered spinning of fibrous materials and offers excellent potential for fiber manufacturing in a controlled and straightforward manner. This method facilitates low-speed prototype synthesis of fibers for diverse applications while providing superior control over reaction conditions, efficient use of precursor solutions, reagent mixing, and process parameters. This article reviews recent advances in microfluidic technology for the fabrication of fibrous materials with different morphologies and a variety of properties aimed at various applications. First, the basic principles, as well as the latest developments and achievements of microfluidic-based techniques for fiber production, are introduced. Specifically, microfluidic platforms made of glass, polymers, and/or metals, including but not limited to microfluidic chips, capillary-based devices, and three-dimensional printed devices are summarized. Then, fiber production from various materials, such as alginate, gelatin, silk, collagen, and chitosan, using different microfluidic platforms with a broad range of cross-linking agents and mechanisms is described. Therefore, microfluidic spun fibers with diverse diameters ranging from submicrometer scales to hundreds of micrometers and structures, such as cylindrical, hollow, grooved, flat, core–shell, heterogeneous, helical, and peapod-like morphologies, with tunable sizes and mechanical properties are discussed in detail. Subsequently, the practical applications of microfluidic spun fibers are highlighted in sensors for biomedical or optical purposes, scaffolds for culture or encapsulation of cells in tissue engineering, and drug delivery. Finally, different limitations and challenges of the current microfluidic technologies, as well as the future perspectives and concluding remarks, are presented.

Next-generation sequencing doubles genomic databases every 2.5 years. The accumulation of sequence data raises the need to speed up functional analysis. Herein, we present a pipeline integrating bioinformatics and microfluidics and its application for high-throughput mining of novel haloalkane dehalogenases. We employed bioinformatics to identify 2,905 putative dehalogenases and selected 45 representative enzymes, of which 24 were produced in soluble form. Droplet-based microfluidics accelerates subsequent experimental testing up to 20,000 reactions per day while achieving 1,000-fold lower protein consumption. This resulted in doubling the dehalogenation “toolbox" characterized over three decades, yielding biocatalysts surpassing the efficiency of currently available enzymes. Combining microfluidics with modern global data analysis provided precious mechanistic information related to the high catalytic efficiency of new variants. This pipeline applied to other enzyme families can accelerate the identification of biocatalysts for industrial applications as well as the collection of high-quality data for machine learning.

Several microfluidic-based methods for Caenorhabditis elegans imaging have recently been introduced. Existing methods either permit imaging across multiple larval stages without maintaining a stable worm orientation, or allow for very good immobilization but are only suitable for shorter experiments. Here, we present a novel microfluidic imaging method that allows parallel live-imaging across multiple larval stages, while maintaining worm orientation and identity over time. This is achieved through an array of microfluidic trap channels carefully tuned to maintain worms in a stable orientation, while allowing growth and molting to occur. Immobilization is supported by an active hydraulic valve, which presses worms onto the cover glass during image acquisition only. In this way, excellent quality images can be acquired with minimal impact on worm viability or developmental timing. The capabilities of the devices are demonstrated by observing the hypodermal seam and P-cell divisions and, for the first time, the entire process of vulval development from induction to the end of morphogenesis. Moreover, we demonstrate feasibility of on-chip RNAi by perturbing basement membrane breaching during anchor cell invasion.

Droplet-based microfluidic systems are ideally suited for the investigation of nucleation and crystallization processes. To best leverage the features of such platforms (including exquisite time resolution and high-throughput operation), sensitive and in situ detection schemes are needed to extract real-time chemical information about all species of interest. In this regard, the extension of conventional (UV, visible, and infrared) optical detection schemes to the X-ray region of the electromagnetic spectrum is of high current interest, as techniques such as X-ray absorption spectroscopy (XAS) provide for the element-specific investigation of the local chemical environment. Accordingly, herein, we report for the first time the integration of millisecond droplet-based microfluidics with XAS. Such a platform allows for the sensitive acquisition of X-ray absorption data from picoliter-volume droplets moving at high linear velocities. Significantly, the high-temporal resolution of the droplet-based microfluidic platform enables unprecedented access to the early stages of the reaction. Using such an approach, we demonstrate in situ monitoring of calcium carbonate precipitation by extracting XAS spectra at the early time points of the reaction with a dead time as low as 10 ms. We obtain insights into the kinetics of the formation of amorphous calcium carbonate (ACC) as a first species during the crystallization process by monitoring the proportion of calcium ions converted into ACC. Within the confined and homogeneous environment of picoliter-volume droplets, the ACC content reaches 60% over the first 130 ms. More generally, the presented method offers new opportunities for the real-time monitoring of fast chemical and biological processes., ACS Measurement Science Au, 1 (1), ISSN:2694-250X

Significant non-genetic stochastic factors affect aging, causing lifespan differences among individuals, even those sharing the same genetic and environmental background. In Caenorhabditis elegans, differences in heat-shock response (HSR) are predictive of lifespan. However, factors contributing to the heterogeneity of HSR are still not fully elucidated. Here, the authors characterized HSR dynamics in isogenic C. elegans expressing GFP reporter for hsp-16.2 for identifying the key contributors of HSR heterogeneity. Specifically, microfluidic devices that enable cross-sectional and longitudinal measurements of HSR dynamics in C. elegans at different scales are developed: in populations, within individuals, and in embryos. The authors adapted a mathematical model of HSR to single C. elegans and identified model parameters associated with proteostasis—maintenance of protein homeostasis—more specifically, protein turnover, as the major drivers of heterogeneity in HSR dynamics. It is verified that individuals with enhanced proteostasis fidelity in early adulthood live longer. The model-based comparative analysis of protein turnover in day-1 and day-2 adult C. elegans revealed a stochastic-onset of age-related proteostasis decline that increases the heterogeneity of HSR capacity. Finally, the analysis of C. elegans embryos showed higher HSR and proteostasis capacity than young adults and established transgenerational contribution to HSR heterogeneity that depends on maternal age., Small, 17 (30), ISSN:1613-6810, ISSN:1613-6829

During C. elegans vulval development, the uterine anchor cell (AC) first secretes an epidermal growth factor (EGF) to specify the vulval cell fates and then invades into the underlying vulval epithelium. Thereby, the AC establishes direct contact with the invaginating 1° vulF cells and attaches the developing uterus to the vulva. The signals involved and the exact sequence of events joining these two organs are not fully understood.Using a conditional let-23 egf receptor (EGFR) allele along with novel microfluidic short- and long-term imaging methods, we discovered a specific function of the EGFR in the AC during vulval lumen morphogenesis. Tissue-specific inactivation of let-23 in the AC resulted in imprecise alignment of the AC with the 1° vulval cells, delayed AC invasion and disorganized adherens junctions at the newly forming contact site between the AC and the dorsal vulF toroid. We propose that EGFR signaling, activated by a reciprocal EGF cue from the 1° vulval cells, positions the AC at the vulval midline, guides it during invasion and assembles a cytoskeletal scaffold organizing the adherens junctions that connect the developing uterus to the dorsal vulF toroid. EGFR signaling in the AC thus ensures the precise alignment of the two developing organs.

Biomimetic liquid-repelling surfaces have been the subject of considerable scientific research and technological application. To design such surfaces, a flexibility-based oscillation strategy has been shown to resolve the problem of liquid-surface positioning encountered by the previous, rigidity-based asymmetry strategy; however, its usage is limited by weak mechanical robustness and confined repellency enhancement. Here, we design a flexible surface comprising mesoscale heads and microscale spring sets, in analogy to the mushroomlike geometry discovered on springtail cuticles, and then realize this through three-dimensional projection microstereolithography. Such a surface exhibits strong mechanical robustness against ubiquitous normal and shear compression and even endures tribological friction. Simultaneously, the surface elevates water repellency for impacting droplets by enhancing impalement resistance and reducing contact time, partially reaching an improvement of ∼80% via structural tilting movements. This is the first demonstration of flexible interfacial structures to robustly endure tribological friction as well as to promote water repellency, approaching real-world applications of water repelling. Also, a flexibility gradient is created on the surface to directionally manipulate droplets, paving the way for droplet transport.

Summary Microfluidic tools and technologies offer an engineering methodology for the bottom-up synthesis of artificial cells. Herein, we discuss how droplet-based microfluidic systems may be used for artificial cell and tissue synthesis. In addition, we point out some of the latest developments in the field of microfluidics that have potential use in bottom-up synthetic biology.

Fungi defend their ecological niche against antagonists by producing antibiosis molecules. Some of these molecules are only produced upon confrontation with the antagonist. The basidiomycete Coprinopsis cinerea induces the expression of the sesquiterpene synthase-encoding gene cop6 and its two neighboring genes coding for cytochrome P450 monooxygenases in response to bacteria. We further investigated this regulation of cop6 and examined if the gene product is involved in the production of antibacterials. Cell-free supernatants of axenic cultures of the Gram-positive bacterium Bacillus subtilis were sufficient to induce cop6 transcription assessed using a fluorescent reporter strain. Use of this strain in a microfluidic device revealed that the cop6 gene was induced in all hyphae directly exposed to the supernatant and that induction occurred within less than one hour. Targeted replacement of the cop6 gene demonstrated the requirement of the encoded synthase for the biosynthesis of the sesquiterpene lagopodin B, a previously reported antibacterial compound from related species. Accordingly, lagopodin B from C. cinerea inhibited the growth of several Gram-positive bacteria including B. subtilis but not Gram-negative bacteria. Our results demonstrate that the C. cinerea vegetative mycelium responds to soluble compounds of a bacterial culture supernatant by local production of an antibacterial secondary metabolite.

Ochratoxin A (OTA)-a mycotoxin produced by Aspergillus and Penicillium fungi-is a carcinogen and common trace contaminant in agricultural and processed food products. As consumption is detrimental to human and animal health, regular product monitoring is vital, and highly sensitive and portable OTA sensors are necessary in many circumstances. Herein, we report an ultrasensitive, electroanalytical aptasensor for precise determination of OTA at trace levels. The sensor leverages a DNA aptamer to capture OTA and silver metallization as a signal enhancer. Exonuclease I is used to digest unbound aptamers, engendering excellent background signal suppression and sensitivity enhancements. Efficient optimization of assay conditions is achieved using central composite design (CCD), allowing rapid evaluation of both the electrode and square wave voltammetry parameter space. The sensor exhibits excellent analytical performance, with a concentration limit of detection of 0.7 pg mL

Recently, microfluidic-based flow cytometry platforms have been shown to be powerful tools for the manipulation and analysis of single cells and micron-sized particles in flow. That said, current microfluidic flow cytometers are limited in both their analytical throughput and spatial resolution, due to their reliance on single point interrogation schemes. Conversely, high-speed imaging techniques can be applied to a wide variety of problems in which analyte molecules are manipulated at high linear velocities. Such an approach allows a detailed visualization of dynamic events through acquisition of a series of image frames captured with high temporal and spatial resolution. Herein, we describe some of the most significant recent advances in the development of multi-parametric, optofluidic imaging flow cytometry for the enumeration of complex cellular populations.

Summary The application of machine learning approaches to imaging flow cytometry (IFC) data has the potential to transform the diagnosis of hematological diseases. However, the need for manually labeled single-cell images for machine learning model training has severely limited its clinical application. To address this, we present iCellCnn, a weakly supervised deep learning approach for label-free IFC-based blood diagnostics. We demonstrate the capability of iCellCnn to achieve diagnosis of Sezary syndrome (SS) from patient samples on the basis of bright-field IFC images of T cells obtained after fluorescence-activated cell sorting of human peripheral blood mononuclear cell specimens. With a sample size of four healthy donors and five SS patients, iCellCnn achieved a 100% classification accuracy. As iCellCnn is not restricted to the diagnosis of SS, we expect such weakly supervised approaches to tap the diagnostic potential of IFC by providing automatic data-driven diagnosis of diseases with so-far unknown morphological manifestations.

Several microfluidic-based methods for long-term C. elegans imaging have been introduced in recent years, allowing real-time observation of previously inaccessible processes. The existing methods either permit imaging across multiple larval stages without maintaining a stable worm orientation, or allow for very good immobilization but are only suitable for shorter experiments. Here, we present a novel microfluidic imaging method, which allows parallel live-imaging across multiple larval stages, while delivering excellent immobilization and maintaining worm orientation and identity over time. This is achieved by employing an array of microfluidic trap channels carefully tuned to maintain worms in a stable orientation, while allowing growth and molting to occur. Immobilization is supported by an active hydraulic valve, which presses worms onto the cover glass during image acquisition, with the animals remaining free for most of an experiment. Excellent quality images can be acquired of multiple worms in parallel, with little impact of the imaging method on worm viability or developmental timing. The capabilities of this methodology are demonstrated by observing the hypodermal seam cell divisions and, for the first time, the entire process of vulval development from induction to the end of morphogenesis. Moreover, we demonstrate RNAi on-chip, which allows for perturbation of dynamic developmental processes, such as basement membrane breaching during anchor cell invasion.

To improve the precision of climate models, it is paramount to accurately quantify the probability of ice formation under conditions (e.g., temperatures and cooling rates) that closely resemble those in the atmosphere. In recent years, microfluidic approaches have emerged as a new tool in atmospheric research. Polydimethylsiloxane (PDMS) microfluidic chips have been used to study the ice nucleation behavior of aqueous drops containing ice nucleating particles. However, PDMS readily takes up water, which compromises the stability of droplets for prolonged times. Additionally, careful temperature calibration has been required due to significant temperature gradients that arise between the bottom area of the chip that is cooled and the location of the droplets. In contrast to past work, our generated droplets are stored in fluoropolymer tubing that is impermeable to water and is immersed in an ethanol bath. Such a design has two main advantages: (i) small aqueous droplets are stable in the structure for extended periods of time beyond those possible in PDMS chips; and (ii) immersion in a liquid bath reduces the temperature gradient between droplets and chip-bottom since cooling instead occurs over all exposed surfaces. These benefits impart an ability to study individual droplets with diameters that approach the sizes of cloud droplets over several freeze-thaw cycles. Herein, we present our instrument design (with an automated droplet-freezing image detection algorithm) and report data on the nucleation of ice in pure water droplets and in aqueous suspensions of ice-nucleating particles. This work will be used as the basis for future investigations in atmospheric ice nucleation that aim to better constrain the influence of ice-nucleating particles on cloud optical properties and precipitation formation.

We present a sheathless, microfluidic imaging flow cytometer that incorporates stroboscopic illumination for blur-free fluorescence detection at ultra-high analytical throughput. The imaging platform is capable of multiparametric fluorescence quantification and sub-cellular localization of these structures down to 500 nm with microscopy image quality. We demonstrate the efficacy of the approach through the analysis and localization of P-bodies and stress granules in yeast and human cells using fluorescence and bright-field detection at analytical throughputs in excess of 60,000 and 400,000 cells/s, respectively. Results highlight the utility of our imaging flow cytometer in directly investigating phase-separated compartments within cellular environments and screening rare events at the sub-cellular level for a range of diagnostic applications., Cell Reports, 34 (10), ISSN:2666-3864, ISSN:2211-1247

Loop-mediated isothermal amplification (LAMP) has been widely used to detect many infectious diseases. However, minor inconveniences during the steps of adding reaction ingredients and lack of simple color results hinder point-of-care detection. We therefore invented a fluorometric paper-based LAMP by incorporating LAMP reagents, including a biotinylated primer, onto a cellulose membrane paper, with a simple DNA fluorescent dye incubation that demonstrated rapid and accurate results parallel to quantitative polymerase chain reaction (qPCR) methods. This technology allows for instant paper strip detection of methicillin-resistant

Several microfluidic-based methods for Caenorhabditis elegans imaging have recently been introduced. Existing methods either permit imaging across multiple larval stages without maintaining a stable worm orientation, or allow for very good immobilization but are only suitable for shorter experiments. Here, we present a novel microfluidic imaging method that allows parallel live-imaging across multiple larval stages, while maintaining worm orientation and identity over time. This is achieved through an array of microfluidic trap channels carefully tuned to maintain worms in a stable orientation, while allowing growth and molting to occur. Immobilization is supported by an active hydraulic valve, which presses worms onto the cover glass during image acquisition only. In this way, excellent quality images can be acquired with minimal impact on worm viability or developmental timing. The capabilities of the devices are demonstrated by observing the hypodermal seam and P-cell divisions and, for the first time, the entire process of vulval development from induction to the end of morphogenesis. Moreover, we demonstrate feasibility of on-chip RNAi by perturbing basement membrane breaching during anchor cell invasion., Development, 148 (18), ISSN:0950-1991, ISSN:1477-9129