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Abstract Assays utilizing fluorophores are common throughout life science research and diagnostics, although detection limits are generally limited by weak emission intensity, thus requiring many labeled target molecules to combine their output to achieve higher signal‐to‐noise. We describe how the synergistic coupling of plasmonic and photonic modes can significantly boost the emission from fluorophores. By optimally matching the resonant modes of a plasmonic fluor (PF) nanoparticle and a photonic crystal (PC) with the absorption and emission spectrum of the fluorescent dye, a 52‐fold improvement in signal intensity is observed, enabling individual PFs to be observed and digitally counted, where one PF tag represents one detected target molecule. The amplification can be attributed to the strong near‐field enhancement due to the cavity‐induced activation of the PF, PC band structure‐mediated improvement in collection efficiency, and increased rate of spontaneous emission. The applicability of the method by dose‐response characterization of a sandwich immunoassay for human interleukin‐6, a biomarker used to assist diagnosis of cancer, inflammation, sepsis, and autoimmune disease is demonstrated. A limit of detection of 10 fg mL⁻¹and 100 fg mL⁻¹in buffer and human plasma respectively, is achieved, representing a capability nearly three orders of magnitude lower than standard immunoassays. 

Abstract Novel methods that enable sensitive, accurate and rapid detection of RNA would not only benefit fundamental biological studies but also serve as diagnostic tools for various pathological conditions, including bacterial and viral infections and cancer. Although highly sensitive, existing methods for RNA detection involve long turn‐around time and extensive capital equipment. Here, an ultrasensitive and amplification‐free RNA quantification method is demonstrated by integrating CRISPR‐Cas13a system with an ultrabright fluorescent nanolabel, plasmonic fluor. This plasmonically enhanced CRISPR‐powered assay exhibits nearly 1000‐fold lower limit‐of‐detection compared to conventional assay relying on enzymatic reporters. Using a xenograft tumor mouse model, it is demonstrated that this novel bioassay can be used for ultrasensitive and quantitative monitoring of cancer biomarker (lncRNA H19). The novel biodetection approach described here provides a rapid, ultrasensitive, and amplification‐free strategy that can be broadly employed for detection of various RNA biomarkers, even in resource‐limited settings. 

Photonic crystals are used to amplify the fluorescence emission and collection efficiency from quantum dots and plasmonic fluor nanoparticles to enable miRNA and proteins to be detected from plasma with single molecule precision, with simple 1-step assays. 

The requirements of augmented signal contrast provided by nanoparticle tags in biosensor microscopy-based point-of-care technologies for cancer and infectious disease diagnostics can be addressed through metallo-dielectric nanoarchitectures that enhance optical scattering and absorption to provide digital resolution detection of single tags with simple instrumentation. Photonic Resonator Interferometric Scattering Microscopy (PRISM) enables label-free visualization of nanometer-scale analytes such as extracellular vesicles and virions, and its applicability can be extended to biomolecular analyte counting through nanoparticle tags. Here, we present template-free, linker-less cryosoret nano-assemblies fabricated via adiabatic cooling (−196 °C) as plasmonic nano-antennas that provide high scattering contrast in PRISM. Plasmonic Ag and Au nanomaterials and their cryosorets are evaluated through imaging experiments and simulations based on the finite element method to understand the photo-plasmonic coupling effect at the surface of a photonic crystal (PC) interface. The Ag and Au cryosorets provide at most 8.29-fold and 6.77-fold higher signal contrast compared to their singlet counterpart. Through the simulations, the averaged field magnitude enhancements of 2.77-fold and 3.68-fold are observed for Ag and Au cryosorets when interfacing with PCs compared to bare glass substrates. The hybrid coupling between the localized Mie and delocalized Bragg plasmons of cryosorets and the underlying PC's guided mode resonance provides insights for developing nano-assembly-based nano-tags for biosensing applications. 

We present advanced biosensing methods with photonics crystal enhanced fluorescence emission from Quantum Dots, Plasmonic Fluorophores, and DNA Nano-grippers for nucleic acid, protein, and pathogen detection 

Diagnostic assays utilizing fluorescent reporters in the context of low abundance biomarkers for cancer and infectious disease can reach lower limits of detection through efficient collection of emitted photons into an optical sensor. In this work, we present the rational design, fabrication, and application of one-dimensional photonic crystal (PC) grating interfaces to accomplish a cost-effective prism-free, metal-free, and objective-free platform for augmentation of fluorescence emission collection efficiency. Guided mode resonance (GMR) of the PC is engineered to match the laser excitation (532 nm) and emission maximum (580 nm) of the radiating dipoles to arrive at optimized conditions. The photo-plasmonic hybrid nano-engineering using silver nanoparticles presented >110-fold steering fluorescence enhancement enabling placement of the sample between the excitation source and detector that are in a straight line. From the experimental and simulation inferences, we propose a radiating GMR model by scrutinizing the polarized emission properties of the hybrid substrate, in accordance with the radiating plasmon model. The augmented fluorescence intensity realized here with a simple detection instrument provides sub-nanomolar sensitivity to provide a path toward point-of-care scenarios. 

DNA-origami based nano-grippers, integrated with aptamer-based nanoswitches, generate fluorescent signals when detecting SARS-CoV-2. The integration of Photonic Crystal Enhanced Fluorescence Microscope enables a 104-fold enhancement compared to a single fluorophore reporter on glass substrate, providing a promising tool for ultrasensitive detection and rapid diagnostics. 

Plasmonic and photonic technologies have attracted strong interest in the past few decades toward several interdisciplinary applications stemming from unique light-matter interactions fostered by materials at the nanoscale. The versatility of plasmonic and photonic sensors for ultrasensitive, rapid, analyte sensing without extensive sample pre-treatment steps or sophisticated optics have resulted in their strong foothold in the broad arena of biosensing. Fluorescence-based bioanalytical techniques are widely used in liquid-biopsy diagnostics applications, but require many labeled target molecules to combine their emission output to achieve a practically useful signal-to-noise ratio. Approaches capable of amplifying fluorescence signals can provide signal-to-noise sufficient for digitally counting single emitters for ultrasensitive assays that are detected with simple and inexpensive instruments. [1]. Plasmonic and nano-photonics can function in synergy to amplify fluorescence signals. By concentrating optical energy well below the diffraction limit, plasmonic nanoantenna provide spatial control over excitation light, but their quality factor (Q) is modulated by radiative and dissipative losses. Photonic crystals (PC) as dielectric microcavities have a diffraction-limited optical mode volume despite being able to generate a high Q-factor. Here, we demonstrate a plasmonic-photonic hybrid system to produce a much stronger fluorescent enhancement for digital resolution biosensing. With an optimized dielectric spacer layer, around 200 Alexa-647 fluorophores have been coated over heterometallic Ag@Au core-shell plasmonic nanostructures with minimized Ohmic losses and quenching effects [2]. The target-specific molecule capture events enabled this plasmonic fluor to attach to the PC surface, forming a Plasmonic-Photonic hybrid mode. With much stronger local field enhancement, far-field directional emission, large Purcell enhancement, and high quantum efficiency, we report a two-orders signal enhancement from PC-enhanced plasmonic-fluor (104-fold brighter than a single fluorophore). This improved signal-to-noise ratio enabled us to perform single molecule imaging even with a 10x (NA=0.2) objective lens while offering 3 orders of magnitude boost in the limit of detection of Interleukine-6 (common biomarker for cancer, inflammation, sepsis, and autoimmune disease) compared with standard immunoassays in human plasma 

For decades, investigators have studied the interaction of Mycobacterium tuberculosis (Mtb) with macrophages, which serve as a major cellular niche for the bacilli. Because Mtb are prone to aggregation, investigators rely on varied methods to disaggregate the bacteria for these studies. Here, we examined the impact of routinely used preparation methods on bacterial cell envelope integrity, macrophage inflammatory responses, and intracellular Mtb survival. We found that both gentle sonication and filtering damaged the mycobacterial cell envelope and markedly impacted the outcome of infections in mouse bone marrow-derived macrophages. Unexpectedly, sonicated bacilli were hyperinflammatory, eliciting dramatically higher TLR2-dependent gene expression and elevated secretion of IL-1β and TNF-α. Despite evoking enhanced inflammatory responses, sonicated bacilli replicated normally in macrophages. In contrast, Mtb that had been passed through a filter induced little inflammatory response, and they were attenuated in macrophages. Previous work suggests that the mycobacterial cell envelope lipid, phthiocerol dimycocerosate (PDIM), dampens macrophage inflammatory responses to Mtb. However, we found that the impact of PDIM depended on the method used to prepare Mtb. In conclusion, widely used methodologies to disaggregate Mtb may introduce experimental artifacts in Mtb-host interaction studies, including alteration of host inflammatory signaling, intracellular bacterial survival, and interpretation of bacterial mutants.