Development of a fluorescent DNA nanomachine for ultrasensitive detection of Salmonella enteritidis without labeling and enzymes

Biomimetic Synthesis of Nanomachine Inspired from Neutrophil Extracellular Traps for Multimodal Antibacterial Application

Bacterial infections, especially drug-resistant bacterial infections, are causing increasing harm in clinical practice, and there is an urgent need to develop effective antimicrobial materials. Biomimetic DNA nanomachines have attracted much attention due to their flexible design, precise control, and high biocompatibility, but their use for bacterial inhibition has not been reported. Neutrophil extracellular traps (NETs), a network structure released by neutrophils with good bactericidal function, can be used as a superior biomimetic object for the construction of functional bacterial inhibition materials. In this study, Y-shaped DNA was polymerized using magnesium ions to develop reticulated DNA structures, which were used as templates to synthesize copper nanoclusters, leading to the construction of compositionally well-defined and simple reticulated DNA nanomachines. The nanomachine had a three-dimensional, reticular structure similar to that of NETs and especially had excellent antibacterial activity. More importantly, the NETs-imitated nanomachine had a multimodal bacterial inhibition mechanism. The nanomachine could target and localize around the bacteria and eliminate the biofilm, and then the DNA network structure effectively trapped and aggregated the bacteria and caused damage to the bacterial morphology and membrane structure; at the same time, the reticulated DNA nanomachine could also damage the bacterial membrane, causing the degradation and leakage of the proteins and the cellular contents and breakage of the DNA structure, ultimately causing irreversible inhibition of the bacteria. Importantly, the developed nanomachines with high biocompatibility could be used as antimicrobial biomaterials for the efficient treatment and healing of skin wounds infected with bacteria. This study develops a biomimetic DNA nanomachine that can be an excellent antibacterial biomaterial, which expands the application of DNA nanomachine in bacteriostatic and therapeutic fields; it is also an improved biomimetic NETs biomaterial, which brings distinctive design sources for biomimetic materials.

Metal and metal oxide nanoparticle-assisted molecular assays for the detection of Salmonella

This paper provides a comprehensive overview of the diverse applications and innovations of nanoparticles in the detection of Salmonella. It encompasses a comprehensive range of novel methods, including efficient enrichment, nucleic acid extraction, immunoassays, nucleic acid tests, biosensors, and emerging strategies with the potential for future applications. The surface modification of specific antibodies or ligands enables nanoparticles to achieve highly selective capture of Salmonella, while optimizing the nucleic acid extraction process and improving detection efficiency. The employment of nanoparticles in immunological and nucleic acid tests markedly enhances the specificity and sensitivity of the reaction, thereby optimizing the determination of detection results. Moreover, the distinctive physicochemical properties of nanoparticles enhance the sensitivity, selectivity, and stability of biosensors, thereby facilitating the rapid advancement of bio-detection technologies. It is particularly noteworthy that there has been significant advancement in the application and innovative research of nanozymes in molecular assays. This progress has not only resulted in enhanced detection efficiency but has also facilitated innovation and improvement in detection technologies. As nanotechnologies continue to advance, the use of metal and metal oxide nanoparticles in Salmonella detection is likely to become a more promising and reliable strategy for ensuring food safety and public health.

Advancing foodborne pathogen detection: a review of traditional and innovative optical and electrochemical biosensing approaches

Foodborne diseases are a significant cause of morbidity (600 million cases) and mortality (420,000 deaths) worldwide every year and are mainly associated with pathogens. Besides the direct effects on human health, they have relevant concerns related to financial, logistics, and infrastructure for the food and medical industries. The standard pathogen identification techniques usually require a sample enrichment step, plating, isolation, and biochemical tests. This process involves specific facilities, a long-time analysis procedures, and skilled personnel. Conversely, biosensors are an emerging innovative approach to detecting pathogens in real time due to their portability, specificity, sensitivity, and low fabrication costs. These advantages can be achieved from the synergistic work between nanotechnology, materials science, and biotechnology for coupling biomolecules in nano-matrices to enhance biosensing performance. This review highlights recent advancements in electrochemical and optical biosensing techniques for detecting bacteria and viruses. Key properties, such as detection limits, are examined, as they depend on factors like the design of the biorecognition molecule, the type of transducer, the target's characteristics, and matrix interferences. Sensitivity levels reported range from 1 to 1 × 10⁸ CFU/mL, with detection times spanning 10 min to 8 h. Additionally, the review explores innovative approaches, including biosensors capable of distinguishing between live and dead bacteria, multimodal sensing, and the simultaneous detection of multiple foodborne pathogens - emerging trends in biosensor development.

Nanoparticles-assisted aptamer biosensing for the detection of environmental pathogens

Given the importance of public health, it is crucial to develop quick, targeted, highly sensitive, and accurate technologies to monitor pathogenic microbes in response to the growing concerns of food and environmental safety. Although conventional approaches for microbiological detection are available, they are laborious, and often skill demanding. Therefore, such approaches are incompetent in the on-site or high-throughput assessment of pathogenic microbes. Numerous efforts have been made to develop biosensors that use nucleic acid aptamer as the biorecognition element, which would avoid the abovementioned limitations. Incorporating nanomaterials (NMs) into aptamer-based biosensors (aptasensors) improves their sensitivity and specificity, opening exciting possibilities for various applications, such as bioanalysis of food and environmental samples. Over the last decade, nanomaterial-conjugated aptasensors have seen a steadily rising demand. To this end, the main goal of this study is to demonstrate the novelty in the design of nanomaterial-conjugated aptasensors and how they can be used to detect different pathogenic microbes in water and food. The intent of this paper is to evaluate the cutting-edge techniques that have appeared in nano-aptasensors throughout the past few years, such as manufacturing procedures, analytical credibility, and sensing mechanisms. Additionally, the fundamental performance parameters of aptasensing techniques (such as detection limits, and sensing ranges response) were also used to evaluate their practical applicability. Finally, it is anticipated that this study will inspire innovative ideas and techniques for the construction and use of aptasensors for monitoring pathogenic microorganisms in food, drinks, recreational water, and wastewater.

Strategy of functional nucleic acids-mediated isothermal amplification for detection of foodborne microbial contaminants: A review

Foodborne microbial contamination (FMC) is the leading cause of food poisoning and foodborne illness. The foodborne microbial detection methods based on isothermal amplification have high sensitivity and short detection time, and functional nucleic acids (FNAs) could extend the detectable object of isothermal amplification to mycotoxins. Therefore, the strategy of FNAs-mediated isothermal amplification has been emergingly applied in biosensors for foodborne microbial contaminants detection, making biosensors more sensitive with lower cost and less dependent on nanomaterials for signal output. Here, the mechanism of six isothermal amplification technologies and their application in detecting FMC is firstly introduced. Then the strategy of FNAs-mediated isothermal amplification is systematically discussed from perspectives of FNAs' versatility including recognition elements (Aptamer, DNAzyme), programming tools (DNA tweezer, DNA walker and CRISPR-Cas) and signal units (G-quadruplex, FNAs-based nanomaterials). Finally, challenges and prospects are presented in terms of addressing the issue of nonspecific amplification reaction, developing better FNAs-based sensing elements and eliminating food matrix effects.

Advances in detection methods for viable Salmonella spp.: current applications and challenges

Salmonella is a common intestinal pathogen that can cause food poisoning and intestinal disease. The high prevalence of Salmonella necessitates efficient and sensitive methods for its identification, detection, and monitoring, especially of viable Salmonella. Conventional culture methods need to be more laborious and time-consuming. And they are relatively limited in their ability to detect Salmonella in the viable but non-culturable status if present in the sample to be tested. As a result, there is an increasing need for rapid and accurate techniques to detect viable Salmonella spp. This paper reviewed the status and progress of various methods reported in recent years that can be used to detect viable Salmonella, such as culture-based methods, molecular methods targeting RNAs and DNAs, phage-based methods, biosensors, and some techniques that have the potential for future application. This review can provide researchers with a reference for additional method options and help facilitate the development of rapid and accurate assays. In the future, viable Salmonella detection approaches will become more stable, sensitive, and fast and are expected to play a more significant role in food safety and public health.

The Dual-Response-Single-Amplification Fluorescent Nanomachine for Tumor Imaging and Gastric Cancer Diagnosis

Gastric cancer (GC) is one of the most common tumors worldwide and is the leading cause of tumor-related mortality. Traditional biomarkers and screening methods cannot meet the clinical demands. There is an urgent need for highly sensitive diagnostic markers as well as accurate quantification methods for early gastric cancer (EGC) screening. Here a dual-target cooperatively responsive fluorescent nanomachine by the innovative application of two targets─responsive strand migration system with a single-amplification-cycle element was developed for the simultaneous detection of GC biomarkers miR-5585-5p and PLS3 mRNA, which were selected by next-generation sequencing and RT-qPCR. It was also an RNA extraction-free, PCR-free, and nonenzymatic biosensor to achieve tumor cell imaging and serum diagnosis. Requiring only a 20 μL serum sample and 20 min incubation time, the nanomachine achieved an ultrasensitive detection limit of fM level with a broad linear range from fM to nM. More importantly, a higher AUC value (0.884) compared to the clinically used biomarker CA 72-4 was obtained by the nanomachine to distinguish GC patients successfully. Notably, for the key concerns of diagnosis of EGC patients, the nanomachine also achieved a satisfactory AUC value of 0.859. Taken together, this work has screened and obtained multiple biomarkers and developed a fluorescent nanomachine for combination diagnosis of GC, providing an ingenious design of a functionalized DNA nanomachine and a feasible strategy for the transformation of serum biomarkers into clinical diagnosis.

One-Pot Synthesis of Enzyme and Antibody/CaHPO4 Nanoflowers for Magnetic Chemiluminescence Immunoassay of Salmonella enteritidis

In this study, through a bioinspired strategy, the horseradish peroxidase (HRP) and antibody (Ab) were co-embedded into CaHPO₄ to prepare HRP-Ab-CaHPO₄ (HAC) bifunctional hybrid nanoflowers by one-pot mild coprecipitation. The as-prepared HAC hybrid nanoflowers then were utilized as the signal tag in a magnetic chemiluminescence immunoassay for application in the detection of Salmonella enteritidis (S. enteritidis). The proposed method exhibited excellent detection performance in the linear range of 10-10⁵ CFU/mL, with the limit of detection (LOD) of 10 CFU/mL. This study indicates great potential in the sensitive detection of foodborne pathogenic bacteria in milk with this new magnetic chemiluminescence biosensing platform.

Nucleic Acid-Based Nanobiosensor (NAB) Used for Salmonella Detection in Foods: A Systematic Review

Salmonella bacteria is a foodborne pathogen found mainly in food products causing severe symptoms in the individual, such as diarrhea, fever, and abdominal cramps after consuming the infected food, which can be fatal in some severe cases. Rapid and selective methods to detect Salmonella bacteria can prevent outbreaks when ingesting contaminated food. Nanobiosensors are a highly sensitive, simple, faster, and lower cost method for the rapid detection of Salmonella, an alternative to conventional enzyme-linked immunosorbent assay (ELISA) and polymerase chain reaction (PCR) techniques. This study systematically searched and analyzed literature data related to nucleic acid-based nanobiosensors (NABs) with nanomaterials to detect Salmonella in food, retrieved from three databases, published between 2010 and 2021. We extracted data and critically analyzed the effect of nanomaterial functionalized with aptamer or DNA at the limit of detection (LOD). Among the nanomaterials, gold nanoparticles (AuNPs) were the most used nanomaterial in studies due to their unique optical properties of the metal, followed by magnetic nanoparticles (MNPs) of Fe₃O₄, copper nanoparticles (CuNPs), and also hybrid nanomaterials multiwalled carbon nanotubes (c-MWCNT/AuNP), QD/UCNP-MB (quantum dotes upconverting nanoparticle of magnetic beads), and cadmium telluride quantum dots (CdTe QDs@MNPs) showed excellent LOD values. The transducers used for detection also varied from electrochemical, fluorescent, surface-enhanced Raman spectroscopy (SERS), RAMAN spectroscopy, and mainly colorimetric due to the possibility of visualizing the detection result with the naked eye. Furthermore, we show the magnetic separation system capable of detecting the target amplification of the genetic material. Finally, we present perspectives, future research, and opportunities to use point-of-care (POC) diagnostic devices as a faster and lower cost approach for detecting Salmonella in food as they prove to be viable for resource-constrained environments such as field-based or economically limited conditions.

A rapid and facile analytical approach to detecting Salmonella Enteritidis with aptamer-based surface-enhanced Raman spectroscopy

Salmonella should be absence in pharmaceutical preparations and foods according to regulations in many countries. Up to now, rapidly detecting Salmonella at 1 CFU·[10 g (mL) ]^-1 in pharmaceutical preparation or 1 CFU·[25 g (mL) ]^-1 in food samples is still a challenge. Herein, we present an aptamer-based surface-enhanced Raman spectroscopy (SERS) method for rapidly detecting Salmonella Enteritidis by using a handheld Raman instrument. The aptamer could specifically recognize S. Enteritidis, and 4-MBA self-assembled on the surface of Au@Ag NPs was used as a Raman reporter molecule. The method was validated to be high specific with no interference from other five pathogenic bacteria. It could identify S. Enteritidis contaminant at ∼ 1 CFU·(10 g)^-1 spiked level in a real sample (Wenxin granule, a botanical drug) after 6 h of enrichment. The detection time was much shorter than that of the methods (more than 54 ∼ 96 h) in the standards of pharmaceutical preparations and foods. In addition, the method could quantitatively determinate S. Enteritidis with satisfactory results. The SERS peak intensities of 4-MBA at 1072 cm^-1 showed a good linear correlation (R² = 0.9873) with the logarithms of S. Enteritidis concentrations ranging from 4.17 × 10² to 1.39 × 10⁷ CFU·mL^-1. T-test result (P = 0.425) revealed that there was no significant difference between the determination results obtained by the SERS method and the plate counting method. Therefore, the study indicated that the method was practical and reliable, and it could be a promising alternative for the on-site detection of S. Enteritidis.