Red-Shifting B12-Dependent Photoreceptor Protein via Optical Coupling for Inducible Living Materials.

Cobalamin (B12)-dependent photoreceptors are gaining traction in materials synthetic biology, especially for optically controlling cell-to-cell adhesion in living materials. However, these proteins are mostly responsive to green light, limiting their deep-tissue applications. Here, we present a general strategy for shifting photoresponse of B12-dependent photoreceptor CarHC from green to red/far-red light via optical coupling. Using thiol-maleimide click chemistry, we labeled cysteine-containing CarHC mutants with SulfoCyanine5 (Cy5), a red light-capturing fluorophore. The resulting photoreceptors not only retained the ability to tetramerize in the presence of adenosylcobalamin (AdoB12), but also gained sensitivity to red light; labeled tetramers disassembled on red light exposure. Using genetically encoded click chemistry, we assembled the red-shifted proteins into hydrogels that degraded rapidly in response to red light. Furthermore, Saccharomyces cerevisiae cells were genetically engineered to display CarHC variants, which, alongside in situ Cy5 labeling, led to living materials that could assemble and disassemble in response to AdoB12 and red light, respectively. These results illustrate the CarHC spectrally tuned by optical coupling as a versatile motif for dynamically controlling cell-to-cell interactions within engineered living materials. Given their prevalence and ecological diversity in nature, this spectral tuning method will expand the use of B12-dependent photoreceptors in optogenetics and living materials.

Protocol for three-dimensional shaping strategy via solidifying polygonal nanofluid drops.

Mesoscale to nanoscale three-dimensional (3D) fabrication mostly requires complicated industry processing techniques. Here, we present a protocol for 3D shaping control by solidifying a water-based TiO2 nanofluid drop on a polygonal wettability-patterned surface. We detail the steps for preparing stable TiO2 nanofluid and wettability-patterned surfaces. We then describe the experimental procedure to obtain various and precise 3D morphologies by adjusting the deposited TiO2 nanofluid drop volume. This protocol provides a promising technique for future 3D manufacturing. For complete details on the use and execution of this protocol, please refer to Jiang et al.1.

Protocol for preparation of a textile magnetoelastic generator patch.

The magnetoelastic generator (MEG) is a fundamentally new platform technology to convert mechanical motions into electrical signals for sensing, therapeutics, and energy applications. Here, we present a protocol for fabricating and characterizing the MEG for personalized muscle physiotherapy when integrated into a wearable textile patch. We describe the steps for fabricating such a textile MEG, including the magnetomechanical coupling (MC) and magnetic induction (MI) layers, and characterizing their magnetoelastic and electrical properties. We then detail procedures for monitoring muscle biomechanical activities and muscle physiotherapy application. For complete details on the use and execution of this protocol, please refer to Xu et al.1.

Protocol to fabricate elastomer microwells for three-dimensional culture of primary adipocytes.

Our understanding of how adipocytes influence metabolic signaling, immune function, and cancer progression remains limited as the culture of primary adipocytes is challenging. Here, we present a protocol to fabricate elastomer microwells for three-dimensional culture of collagen-embedded adipocytes. We describe steps to cure and functionalize elastomer microwells and to isolate and embed primary adipocytes. We then detail how to culture and analyze adipocyte-collagen gels. This protocol provides broad applications to improve our understanding of adipocyte biology in health and disease.

Protocol for siRNA-mediated U1 snRNA knockdown using fluorinated α-helical polypeptide in vitro and in vivo.

Here, we present a protocol for small interfering RNA (siRNA)-mediated U1 small nuclear RNA (snRNA) knockdown using fluorinated α-helical polypeptide in macrophages and mouse lungs, providing a dependable approach to silence U1 snRNA in vitro and in vivo. We describe steps for preparing P7F7/siRNA polyplexes and silencing U1 snRNA with P7F7/siRNA polyplexes in macrophages and mouse lungs. Knockdown efficiency is validated through reverse-transcription quantitative real-time PCR analysis. This protocol is applicable for studying the physiological or pathophysiological function of U1 snRNA. For complete details on the use and execution of this protocol, please refer to Zhang et al.1.

Protocol for the preparation of TiO2-modified boron-doped diamond photoelectrode via electrophoretic deposition and its photoelectrochemical study.

Electrophoretic deposition is a straightforward method for synthesizing high-quality photoanodes. We present a protocol for synthesizing a TiO2-modified boron-doped diamond photoanode (BDD/TiO2) via electrophoretic deposition, detailing the chemical and electrochemical treatments applied to the bare BDD electrode prior to use. We provide a step-by-step guide for performing photoelectrochemical characterization under both dark and light conditions and describe an optical technique for investigating band-gap energy. For complete details on the use and execution of this protocol, please refer to Quilumbaquin et al.1.

Protocol for in vitro evaluation of effects of stiffness on patient-derived glioblastoma.

Glioblastoma (GBM) is the most common and lethal type of primary brain tumor. Physiologically, GBM cells experience a heterogeneous mechanical landscape. Here, we present an in vitro method to study the effects of tissue stiffness on patient-derived GBM that utilizes hyaluronic acid (HA)-based, mechanically tunable scaffolds for three-dimensional (3D) culture of patient-derived GBM spheroids. We describe steps to fabricate and characterize HA-based scaffolds, culture GBM spheroids within 3D hydrogel scaffolds, and prepare cultured cells for a variety of experimental assessments. For complete details on the use and execution of this protocol, please refer to Sohrabi et al.1.

Protocol for fabricating long-lasting passivated perovskite solar cells.

Preparation of perovskite solar cells (PSCs) with long-lasting passivation effectiveness is challenging. Here, we present a protocol for fabricating efficient and stable passivated perovskite solar cells. We describe steps for preparing the electron transporting layer (ETL) via chemical bath deposition and perovskite film. We then detail procedures for passivating the surface defects with excess terpyridine ligands and stability characterization. This protocol features a passivator-terpyridine whose passivation effect is independent of concentration, which greatly improves the durability of the passivation. For complete details on the use and execution of this protocol, please refer to Wang et al.1.

Protocol to fabricate a self-adhesive and long-term stable hydrogel for sleep EEG recording.

Long-term continuous electroencephalogram (EEG) monitoring is crucial for neuroengineering but suffers from hardware limitations. Here, we present a protocol for EEG recording using a long-term stable and reagent-free-cross-linked hydrogel with configurable mechanical and adhesive properties. We describe steps for fabricating the hydrogel and performing material characterizations and stability tests. We detail procedures for setting up the EEG recording configuration and data analysis. This protocol can facilitate EEG recording experiments with the hydrogel, as well as other novel materials and devices. For complete details on the use and execution of this protocol, please refer to Hsieh et al.1.

Protocol for preparation of electrifiable carbon membrane reactor for non-oxidative alkane dehydrogenation.

A membrane reactor (MR) offers a solution to overcome thermodynamic equilibrium limitations by enabling in situ product separation, enhancing product yields and energy efficiency. Here we present a protocol for synthesizing a carbon MR that couples a H2-permeable carbon molecular sieve hollow fiber membrane and a metal supported on zeolite catalyst for non-oxidative propane and ethane dehydrogenation. We describe steps for catalyst preparation, membrane fabrication, and MR construction. The as-developed MR has significant improvements in alkene yield and a record-high stability. For complete details on the use and execution of this protocol, please refer to Liu et al.1.

Protocol for manufacturing the GFRP sample using VARI applied to a modified complex Arcan fixture.

Manufacturing techniques play an essential role in obtaining optimum mechanical properties of composites. Vacuum-assisted resin infusion (VARI) is a composite fabrication approach for optimal fiber volume fraction. Here, we present a protocol for manufacturing glass fiber-reinforced polymer (GFRP) samples by applying VARI to a modified complex Arcan fixture. We describe steps for material preparation, molding preparation, setting vacuum system, resin mixing, and degassing. We then detail procedures for vacuum infusion process and cutting composites for shear testing samples. For complete details on the use and execution of this protocol, please refer to Alandro et al.1.

Protocol for creating representations of molecular structures using a polymer-specific decoder.

To supply chemical structures of polymers for machine learning applications, decoding is necessary. Here, we present a protocol for generating polymer fingerprints (PFPs), which are representations of molecular structures, using a polymer-specific decoder. We outline steps for downloading, installing, and basic application of the software. Moreover, we present procedures for processing and analyzing polymer structure data and the preparation for integration into machine learning methods. On this basis, we explain how artificial neural networks can be utilized to predict polymer properties. For complete details on the use and execution of this protocol, please refer to Köster et al.1.

Protocol for embedded 3D printing of heart tissues using thiol-norbornene collagen.

Here, we present a protocol for 3D printing heart tissues using thiol-norbornene photoclick collagen (NorCol). We describe steps for synthesizing NorCol, preparing bioink and the support bath, and cell-laden printing. We then detail procedures for the loading of C2C12 cells into NorCol, ensuring structural integrity and cell viability after printing. This protocol is adaptable to various cell lines and allows for the printing of diverse complex structures, which can be used in drug screening and disease modeling.

Protocol to develop a moisture-desorptive passive cooling system for electronics thermal management.

Passive thermal management with zero-energy consumption and high compactness has drawn increasing attention. Here, we present a protocol to develop a hygroscopic salt-loaded heat sink with a moisture-permeable membrane encapsulation technique for electronics cooling. We describe steps for preparing lithium bromide solution and heat sink with anti-corrosion graphene coating. We then detail procedures for preparing the hygroscopic salt-loaded membrane-encapsulated heat sinks (HSMHSs). The produced low-cost HSMHS exhibits remarkably high thermal management performance without the risks of leakage and corrosion. For complete details on the use and execution of this protocol, please refer to Sui et al.1.

Protocol for nanoscale thermal mapping of electronic devices using atomic force microscopy with phase change material.

In this protocol, we present a facile nanoscale thermal mapping technique for electronic devices by use of atomic force microscopy and a phase change material Ge2Sb2Te5. We describe steps for Ge2Sb2Te5 thin film coating, Ge2Sb2Te5 temperature calibration, thermal mapping by varying heater power, and thermal mapping by varying heating time. The protocol can be applied for resolving surface temperatures of various operational microelectronic devices with a nanoscale precision. For complete details on the use and execution of this protocol, please refer to Cheng et al.1.

Protocol for photo-controlling the assembly of cyclic peptide nanotubes in solution and inside microfluidic droplets.

In this protocol, we describe how to perform the photo-isomerization of cyclic peptides containing an unsaturated ß-amino acid. This process triggers the formation or disassembly of cyclic peptide nanotubes under appropriate light irradiation. Specifically, we start by describing the solid-phase synthesis of the cyclic peptide component. We also present a technique for performing isomerization studies in solution and how to extend it to microfluidic aqueous droplets. For complete details on the use and execution of this protocol, please refer to Vilela-Picos et al.1.

Protocol for conducting advanced cyclic tests in lithium-ion batteries to estimate capacity fade.

Using advanced cyclic testing techniques improves accuracy in estimating capacity fade and incorporates real-world scenarios in battery cycle aging assessment. Here, we present a protocol for conducting cyclic tests in lithium-ion batteries to estimate capacity fade. We describe steps for implementing strategies for accounting for variations in rest periods, charge-discharge rates, and temperatures. We also detail procedures for validating tests experimentally within a climate-controlled chamber and for developing an empirical model to estimate capacity fading under various testing objectives. For complete details on the use and execution of this protocol, please refer to Mulpuri et al.1.

Protocol for the preparation of primary amine-containing catalysts on the resin.

In light of escalating sustainability concerns, addressing catalyst usage and waste production challenges becomes crucial. Here, we introduce a robust protocol for crafting recyclable polystyrene-supported primary amines, providing a promising solution via heterogeneous catalysis. The protocol details immobilization onto insoluble resins through ester, ether, or amide bonds, facilitating the synthesis of heterogeneous catalysts with diverse organic components. For complete details on the use and execution of this protocol, please refer to Kanger et al.1.

Protocol for synthesis of spherical silver nanoparticles with stable optical properties and characterization by transmission electron microscopy.

The synthesis of metallic plasmonic nanoparticles (NPs) faces challenges in stability and reproducibility, especially with silver. Here, we present a protocol for tunable synthesis of spherical silver NPs (AgNPs) with stable optical properties. We describe steps for preparing solutions, morphological characterization of AgNPs by transmission electron microscopy, and testing stability. AgNPs exhibit enduring stability and compatibility with various pH values. Moreover, they can be functionalized for optical biosensing applications, offering versatility in nanomaterial applications.

Protocol for modeling and simulating lithiation-induced stress in largely deformed spherical nanoparticles using COMSOL.

Here, we present a finite element method-based scheme for solving coupled partial differential equations (PDEs) for the analysis of lithiation-induced stress in largely deformed spherical nanoparticles via the PDE module in COMSOL. We describe steps for software installation and setting PDEs, initial/boundary conditions, and mesh parameters. We then detail procedures for dividing the mesh and analyzing lithium trapping during electrochemical cycling. This protocol can also be extended to analyze a wide range of problems involving diffusion-induced stress. For complete details on the use and execution of this protocol, please refer to Li et al.1.