A cell-free paper-based biosensor dependent on allosteric transcription factors (aTFs) for on-site detection of harmful metals Hg2+ and Pb2+ in water

Biosensor in smart food traceability system for food safety and security

The burden of food contamination and food wastage has significantly contributed to the increased prevalence of foodborne disease and food insecurity all over the world. Due to this, there is an urgent need to develop a smarter food traceability system. Recent advancements in biosensors that are easy-to-use, rapid yet selective, sensitive, and cost-effective have shown great promise to meet the critical demand for onsite and immediate diagnosis and treatment of food safety and quality control (i.e. point-of-care technology). This review article focuses on the recent development of different biosensors for food safety and quality monitoring. In general, the application of biosensors in agriculture (i.e. pre-harvest stage) for early detection and routine control of plant infections or stress is discussed. Afterward, a more detailed advancement of biosensors in the past five years within the food supply chain (i.e. post-harvest stage) to detect different types of food contaminants and smart food packaging is highlighted. A section that discusses perspectives for the development of biosensors in the future is also mentioned.

Recent progress in nanomaterial-based aptamers as biosensors for point of care detection of Hg2+ ions and its environmental applications

Among the foremost persistent heavy metal ions in the ecosystem, mercury (Hg2+) remains intimidating to the environment by producing a catastrophic effect on the environment as well as on mankind due to the exacerbation of anthropogenic activities. Therefore, it has become necessary to develop superlative techniques for its detection even at low concentrations. The conventional approaches for Hg2+ ions are quite laborious, and expensive, and require expertise in operating sophisticated instruments. To overcome these limitations, aptamer-based biosensors emerged as a promising tool for its detection. DNA-based aptamers have evolved as a significant technique by detecting them even in ppb levels. This review outlines the progress in aptamer-based biosensors from the year 2019-2023 by inducing changes in the electrochemical signal or by fluorescent/colorimetric approaches. The electrochemical sensors used nanomaterial electrodes for increasing the sensitivity whereas fluorescent and colorimetric sensors exhibit quenching or strong fluorescence in the presence of Hg2+ ions depending upon the prevailing mechanism or visible color changes. This perturbation in the signals could be attributed to the formation of the T-Hg2+ -T complex with the aptamers in the presence of ions revealing its real-time and biological applications in living or cancerous cells. Furthermore, next-generation biosensors are suggested to bring a paradigm shift to the integration of high-end smartphones, machine learning, artificial intelligence, etc.

Decentralized food safety and authentication on cellulose paper-based analytical platform: A review

Food safety and authenticity analysis play a pivotal role in guaranteeing food quality, safeguarding public health, and upholding consumer trust. In recent years, significant social progress has presented fresh challenges in the realm of food analysis, underscoring the imperative requirement to devise innovative and expedient approaches for conducting on-site assessments. Consequently, cellulose paper-based devices (PADs) have come into the spotlight due to their characteristics of microchannels and inherent capillary action. This review summarizes the recent advances in cellulose PADs in various food products, comprising various fabrication strategies, detection methods such as mass spectrometry and multi-mode detection, sampling and processing considerations, as well as applications in screening food safety factors and assessing food authenticity developed in the past 3 years. According to the above studies, cellulose PADs face challenges such as limited sample processing, inadequate multiplexing capabilities, and the requirement for workflow integration, while emerging innovations, comprising the use of simplified sample pretreatment techniques, the integration of advanced nanomaterials, and advanced instruments such as portable mass spectrometer and the innovation of multimodal detection methods, offer potential solutions and are highlighted as promising directions. This review underscores the significant potential of cellulose PADs in facilitating decentralized, cost-effective, and simplified testing methodologies to maintain food safety standards. With the progression of interdisciplinary research, cellulose PADs are expected to become essential platforms for on-site food safety and authentication analysis, thereby significantly enhancing global food safety for consumers.

Recent advances in portable devices for environmental monitoring applications

Environmental pollution remains a major societal problem, leading to serious impacts on living organisms including humans. Human activities such as civilization, urbanization, and industrialization are major causes of pollution. Imposing stricter rules helps control environmental pollutant levels, creating a need for reliable pollutant monitoring in air, water, and soil. The application of traditional analytical techniques is limited in low-resource areas because they are sophisticated, expensive, and bulky. With the development of biosensors and microfluidics technology, environmental monitoring has significantly improved the analysis time, low cost, portability, and ease of use. This review discusses the fundamentals of portable devices, including microfluidics and biosensors, for environmental control. Recently, publications reviewing microfluidics and biosensor device applications have increased more than tenfold, showing the potential of emerging novel approaches for environmental monitoring. Strategies for enzyme-, immunoassay-, and molecular-based analyte sensing are discussed based on their mechanisms and applications. Microfluidic and biosensor platforms for detecting major pollutants, including metal ions, pathogens, pesticides, and antibiotic residues, are reviewed based on their working principles, advantages, and disadvantages. Challenges and future trends for the device design and fabrication process to improve performance are discussed. Miniaturization, low cost, selectivity, sensitivity, high automation, and savings in samples and reagents make the devices ideal alternatives for in-field detection, especially in low-resource areas. However, their operation with complicated environmental samples requires further research to improve the specificity and sensitivity. Although there is a wide range of devices available for environmental applications, their implementation in real-world situations is limited. This study provides insights into existing issues that can be used as references and a comparative analysis for future studies and applications.

Simultaneous Hg2+ and Pb2+ detection in water samples using an electrochemical aptasensor with dual signal amplification by exonuclease III and metal-organic frameworks

Heavy metal pollution in the environment has become a significant global concern due to its detrimental effects on human health and the environment. In this study, we report an electrochemical aptasensor for the simultaneous detection of Hg2+ and Pb2+. Gold nanoflower/polyethyleneimine-reduced graphene oxide (AuNFs/PEI-rGO) was introduced on the surface of a gold electrode to improve sensing performance. The aptasensor is based on the formation of a T-Hg2+-T mismatch structure and specific cleavage of the Pb2+-dependent DNAzyme, resulting in a dual signal generated by the Exo III specific digestion of methylene blue (MB) labeled at the 3' end of probe DNA-1 and the reduction of the substrate ascorbic acid (AA) catalyzed by the signal label. The decrease of MB signal and the increase of AA oxidation peak was used to indicate the content of Hg2+ and Pb2+, respectively, with detection limits of 0.11 pM (Hg2+) and 0.093 pM (Pb2+). The aptasensor was also used for detecting Hg2+ and Pb2+ in water samples with good recoveries. Overall, this electrochemical aptasensor shows promising potential for sensitive and selective detection of heavy metals in environmental samples.

A cell-free fluorescence biosensor based on allosteric transcription factor NalC for detection of pentachlorophenol

Pentachlorophenol (PCP) was once used as a pesticide, germicide, and preservative due to its stable properties and resistance to degradation. This study aimed to design a biosensor for the quantitative and prompt detection of capable of PCP. A cell-free fluorescence biosensor was developed while employing NalC, an allosteric Transcription Factor responsive to PCP and In Vitro Transcription. By adding a DNA template and PCP and employing Electrophoretic Mobility Shift Assay while monitoring the dynamic fluorescence changes in RNA, this study offers evidence of NalC's potential applicability in sensor systems developed for the specific detection of PCP. The biosensor showed the capability for the quantitative detection of PCP, with a Limit of Detection (LOD) of 0.21 μM. Following the addition of Nucleic Acid Sequence-Based Amplification, the fluorescence intensity of RNA revealed an excellent linear relationship with the concentration of PCP, showing a correlation coefficient (R2) of 0.9595. The final LOD was determined to be 0.002 μM. This study has successfully translated the determination of PCP into a fluorescent RNA output, thereby presenting a novel approach for detecting PCP within environmental settings.

Rapid, Multiplexed, and Enzyme-Free Nucleic Acid Detection Using Programmable Aptamer-Based RNA Switches

Rapid, simple, and low-cost diagnostic technologies are crucial tools for combatting infectious disease. We describe a class of aptamer-based RNA switches or aptaswitches that recognize target nucleic acid molecules and initiate folding of a reporter aptamer. Aptaswitches can detect virtually any sequence and provide an intense fluorescent readout without intervening enzymes, generating signals in as little as 5 minutes and enabling detection by eye with minimal equipment. Aptaswitches can be used to regulate folding of seven fluorogenic aptamers, providing a general means of controlling aptamers and an array of multiplexable reporter colors. Coupling isothermal amplification reactions with aptaswitches, we reach sensitivities down to 1 RNA copy/μL in one-pot reactions. Application of multiplexed all-in-one reactions against RNA from clinical saliva samples yields an overall accuracy of 96.67% for detection of SARS-CoV-2 in 30 minutes. Aptaswitches are thus versatile tools for nucleic acid detection that are readily integrated into rapid diagnostic assays.

Development of a paper-based transcription aptasensor for convenient urinary uric acid self-testing

The abnormal uric acid (UA) level in urine can serve as warning signals of many diseases, such as gout and metabolic cardiovascular diseases. The current methods for detecting UA face limitations of instrument dependence and the requirement for non-invasiveness, making it challenging to fulfill the need for home-based application. In this study, we designed an aptasensor that combined UA-specific transcriptional regulation and a fluorescent RNA aptamer for convenient urinary UA testing. The concentration of UA can be translated into the intensity of fluorescent signals. The aptasensor showed higher sensitivity and more robust anti-interference performance. UA levels in the urine of different volunteers could be accurately tested using this method. In addition, a paper-based aptasensor for UA self-testing was manufactured, in which the urinary UA levels could be determined using a smartphone-based colorimetric approach. This work not only demonstrates a new approach for the design of disease-associated aptasensor, but also offers promising ideas for home-based detection of UA.

Development of smartphone-controlled and machine-learning-powered integrated equipment for automated detection of bioavailable heavy metals in soils

Rapid and accurate on-site detection of crop-absorbable cadmium (Cd) and lead (Pb) in soils is important for food security and human health. The automated soil sample pretreatment method, including the ultrasonic extraction of weakly acid-soluble heavy metals, suction-filtration, and UV photolysis, was proposed to achieve the high-efficiency preparation from soil sample to extract solution. Bismuth-film-modified glass carbon electrode combined with the homemade potentiostat was fabricated to implement the square-wave anodic stripping voltammetry (SWASV) measurements of soil extracts. The peak-information-acquisition algorithm was designed to automatically obtain peak heights and widths of Zn2+, Cd2+, Pb2+, Bi3+, and Cu2+ stripping currents, and then which were used as input variables for establishing machine-learning models to enhance the detection accuracy of SWASV to Cd2+ and Pb2+ under the coexistence of multiple heavy metal ions. Eventually, the smartphone-controlled integrated-automated detection equipment was developed and successfully applied to the automatic pretreatment of soil samples and the determination of weakly acid-soluble Cd2+ and Pb2+ in real soil samples. The detection speed was 75 min/sample, and the detection results were close to the standard method (BCR-ICP-MS). This equipment can provide powerful technical support for on-site rapid and accurate determination of crop-absorbable heavy metals in soils.

Triphenylamine-Based Polythioacetal for Selective Sensing of Mercury(II) with High Specificity and Sensitivity

Utilizing the mercury (Hg2+)-triggered deprotection of thioacetals to aldehyde groups, we constructed a water-soluble triphenylamine (TPA)-based polythioacetal PTA-TPA with thioacetal groups in the backbones for efficient sensing of Hg2+ in aqueous solutions. PTA-TPA is conveniently prepared by polycondensation of 3, 6-dioxa-1,8-octanedithiol (DODT) with 4-(N,N-diphenylamino) benzaldehyde (TPA-CHO) using thiol-terminated mPEG2k-SH as a capping agent. The interaction of Hg2+ with PTA-TPA activates the aggregation-induced emission (AIE) process of TPA-CHO molecules, which makes the emission enhanced, and the emission color changes to sky blue, while other metal ions do not interfere with the sensing process. PTA-TPA can be used as a highly selective and ultrafast detection system for Hg2+ with a low detection limit (LOD) of 9.88 nM and a fast response of less than 1 min. In addition, the prepared test strips report the presence of Hg2+ with an LOD as low as 1 × 10-5 M. Intracellular imaging applications have demonstrated that PTA-TPA acts as a biocompatible fluorescent probe for efficient Hg2+ sensing in HeLa cells. Overall, the PTA-TPA fluorescence probes have the characteristics of easy synthesis, cost-effective, ultrafast detection speed, high selectivity, and high sensitivity, which can be used in practical applications.

Red-Emitting AIEE-Active Rhodamine-Based Ionic Liquid for the Ultrasensitive and Selective Detection of Mercury Ions

A highly fluorescent, red-emitting rhodamine-based imidazolium ionic liquid (RhB-IL) was synthesized, and its structure was extensively verified using various spectroscopic techniques. The novel molecule showed exceptional selectivity toward Hg2+ ions over other competitive metal ions. Additionally, inspired by the solution results, a paper-based device was fabricated by embedding RhB-IL on paper strips and tested for the on-site detection of Hg2+ ions using a portable UV light source. Significantly, the device displayed excellent PL sensing behavior toward Hg2+ with a detection limit of 0.21 nM. In addition, RhB-IL showed the phenomena of aggregation-induced enhanced emission. In fact, when compared to the pure THF solution of RhB-IL, a remarkable 7.7-fold increase in PL intensity was seen for the 90% water fraction. Evidently, this is the first report of a paper-based Hg2+ detection system that uses a red fluorescent ionic liquid.

Flexible carbon fiber cloth supports decorated with cerium metal- organic frameworks and multi-walled carbon nanotubes for simultaneous on-site detection of Cd2+ and Pb2+ in food and water samples

The widespread heavy metal pollution endangers human health; hence, accurate on-site detection and quantification of heavy metal content in the surroundings is a vital step in reversing the harmful effect. Herein, an electrochemical sensor based on flexible cerium metal-organic framework@multi-walled carbon nanotubes/carbon cloth (CeMOF@MWCNTs/CC) was constructed for simultaneous on-site detection of Cd²⁺ and Pb²⁺ in food and water samples. The rich carboxyl groups of MWCNTs provided abundant sites for the adsorption of Cd²⁺ and Pb²⁺, and the mutual conversion of Ce³⁺ and Ce⁴⁺ in CeMOF facilitated the reduction and reoxidation of metal ions. The prepared electrode showed excellent performance in the simultaneous measurement of Cd²⁺ and Pb²⁺, with detection limits of 2.2 ppb and 0.64 ppb, respectively. More importantly, the sensing platform has been successfully used to detect simultaneously Cd²⁺ and Pb²⁺ in grain and water samples, and the detection results were consistent with the standard methods, showing great potential in environmental monitoring and food safety.

In vitro allosteric transcription factor-based biosensing

A biosensor is an analytical device that converts a biological response into a measurable output signal. Bacterial allosteric transcription factors (aTFs) have been utilized as a novel class of recognition elements for in vitro biosensing, which circumvents the limitations of aTF-based whole-cell biosensors (WCBs) and helps to meet the increasing requirement of small-molecule biosensors for diverse applications. In this review, we summarize the recent advances related to the configuration of aTF-based biosensors in vitro. Particularly, we evaluate the advantages of aTFs for in vitro biosensing and highlight their great potential for the establishment of robust and easy-to-implement biosensing strategies. We argue that key technical innovations and generalizable workflows will enhance the pipeline for facile construction of diverse aTF-based small-molecule biosensors.

SERS detection of Hg2+ and aflatoxin B1 through on-off strategy of oxidase-like Au@HgNPs/carbon dots

In this work, cerium-doped carbon dots (Ce-CDs) both as a reducing agent and template hybrid gold nanoparticles (AuNPs) with weak oxidase-like (OXD) activity was synthesized for the detection of Hg²⁺ and aflatoxin B₁ (AFB₁). The AuNPs can catalyze efficiently mercury ion (Hg²⁺) reduction to the metallic (Hg⁰) to form Au-Hg amalgam (Au@HgNPs). The obtained Au@HgNPs with strong OXD-like activity oxidize without Raman-active leucomalachite green (LMG) into the Raman-active malachite green (MG) and simultaneously as the SERS substrates by the formed Raman "hot spot" through MG-induced Au@HgNPs aggregation. While AFB₁ was introduced resulting in the SERS intensity decreasing due to Hg²⁺ with AFB₁ via carbonyl group to inhibit the aggregation of Au@HgNPs. The work paves a new path for the design of a nanozyme-based SERS protocol for tracing Hg²⁺ and AFB₁ residues in foodstuff analysis.

A Paper-Based Fluorescent Sensor for Rapid Early Screening of Oral Squamous Cell Carcinoma

Various types of sensors play an irreplaceable role in the detection of biomarkers, but their high cost and complicated operation make it difficult to benefit ordinary people. Herein, we develop a low-cost, double-layered, paper-based fluorescent sensor (CP/HQ) structurally consisting of the upper reaction layer loaded with two oxidases (lactate oxidase and choline oxidase) and the bottom fluorescent layer that physically associates with the porphine-grafted composite fluorescent polymer colloids (PF-PDMTP/HQ). Based on the dramatic and rapid fluorescence decrease of porphine induced by the oxidation between saliva and oxidases and subsequent fluorescence resonance energy transfer from oxidized hydroquinone, the resultant fluorescent paper sensor enables us to achieve visual detection of OSCC, which was further recognized by smartphone scanning as the grayscale variation. It was found that the linear sensing range of grayscale value are 10-200 μM for lactic acid and 10-100 μM for choline, with LODs of 5.7 and 8.9 μM, respectively. More importantly, the sensor can achieve a powerful detection capability comparable to that of high-performance liquid chromatography (HPLC) in clinical settings with simple operation, demonstrating its great application potential. Our proposed sensor not only improves the accuracy of OSCC diagnosis but also provides a valuable attempt for the device modification of polymer-sensing systems and the development of non-invasive and easy-to-operate disease screening methods.

A portable microfluidic electrochemical sensing platform for rapid detection of hazardous metal Pb2+ based on thermocapillary convection using 3D Ag-rGO-f-Ni(OH)2/NF as a signal amplifying element

Heavy metal pollution is causing a great threat to ecological environment and public health, which needs an efficient strategy for monitoring. A portable microfluidic electrochemical sensing system was developed for the determination of heavy metal ions. Herein, the detection of Pb²⁺ was chosen as a model, and a microfluidic electrochemical sensing chip relying on a smartphone-based electrochemical workstation was proposed for rapid detection Pb²⁺ with the assistance of thermocapillary convection result from the formed temperature gradient. The 3D Ag-rGO-f-Ni(OH)₂/NF composites, prepared by one-step hydrothermal method without any Ni precursor salt, were used to further amplify electrochemical signals under the synergistic effect of thermocapillary convection. The thermocapillary convection could accelerate the preconcentration process and shorten the detection time (save 300 s of preconcentration time). The fabricated system exhibited the exceptional competence for monitoring of Pb²⁺ range from 0.01 μg/L to 2100 μg/L with a low detection limit (LOD) of 0.00464 μg/L. Furthermore, this portable system has been successfully demonstrated for detecting Pb²⁺ (0.01 μg/L to 2100 μg/L) in river water (LOD = 0.00498 μg/L), fish (LOD = 0.00566 μg/L) and human serum samples (LOD = 0.00836 μg/L), and the results were consistent with inductively coupled plasma-mass spectrometry (ICP-MS). The proposed novel sensing platform provides a cost-effectiveness, rapidly responding and ease-to-use pathway for analysis of heavy metal ions in real samples and shows great potential in point-of-care testing.

Programmable Synthesis of Biobased Materials Using Cell-Free Systems

Motivated by the intricate mechanisms underlying biomolecule syntheses in cells that chemistry is currently unable to mimic, researchers have harnessed biological systems for manufacturing novel materials. Cell-free systems (CFSs) utilizing the bioactivity of transcriptional and translational machineries in vitro are excellent tools that allow supplementation of exogenous materials for production of innovative materials beyond the capability of natural biological systems. Herein, recent studies that have advanced the ability to expand the scope of biobased materials using CFS are summarized and approaches enabling the production of high-value materials, prototyping of genetic parts and modules, and biofunctionalization are discussed. By extending the reach of chemical and enzymatic reactions complementary to cellular materials, CFSs provide new opportunities at the interface of materials science and synthetic biology.

Solid-Phase Cell-Free Protein Synthesis and Its Applications in Biotechnology

Cell-free systems for the in vitro production of proteins have revolutionized the synthetic biology field. In the last decade, this technology is gaining momentum in molecular biology, biotechnology, biomedicine and even education. Materials science has burst into the field of in vitro protein synthesis to empower the value of existing tools and expand its applications. In this sense, the combination of solid materials (normally functionalized with different biomacromolecules) together with cell-free components has made this technology more versatile and robust. In this chapter, we discuss the combination of solid materials with DNA and transcription-translation machinery to synthesize proteins within compartments, to immobilize and purify in situ the nascent protein, to transcribe and transduce DNAs immobilized on solid surfaces, and the combination of all or some of these strategies.

Rapid and Finely-Tuned Expression for Deployable Sensing Applications

Organisms from across the tree of life have evolved highly efficient mechanisms for sensing molecules of interest using biomolecular machinery that can in turn be quite valuable for the development of biosensors. However, purification of such machinery for use in in vitro biosensors is costly, while the use of whole cells as in vivo biosensors often leads to long sensor response times and unacceptable sensitivity to the chemical makeup of the sample. Cell-free expression systems overcome these weaknesses by removing the requirements associated with maintaining living sensor cells, allowing for increased function in toxic environments and rapid sensor readout at a production cost that is often more reasonable than purification. Here, we focus on the challenge of implementing cell-free protein expression systems that meet the stringent criteria required for them to serve as the basis for field-deployable biosensors. Fine-tuning expression to meet these requirements can be achieved through careful selection of the sensing and output elements, as well as through optimization of reaction conditions via tuning of DNA/RNA concentrations, lysate preparation methods, and buffer conditions. Through careful sensor engineering, cell-free systems can continue to be successfully used for the production of tightly regulated, rapidly expressing genetic circuits for biosensors.