Graphene Oxide Quantum Dots Assisted Construction of Fluorescent Aptasensor for Rapid Detection of Pseudomonas aeruginosa in Food Samples

Nanoparticle-Enhanced Acoustic Wave Biosensor Detection of Pseudomonas aeruginosa in Food

A biosensor was designed for detecting Pseudomonas aeruginosa (P. aeruginosa) bacteria in whole milk samples. The sensing layer involved the antifouling linking molecule 3-(2-mercaptoethanoxy)propanoic acid (HS-MEG-COOH), which was covalently linked to an aptamer for binding P. aeruginosa. The aptasensor uses the thickness shear mode (TSM) system for mass-sensitive acoustic sensing of the bacterium. High concentrations (105 CFU mL-1) of nonspecific bacteria, E. coli, S. aureus, and L. acidophilus, were tested with the aptasensor and caused negligible frequency shifts compared to P. aeruginosa. The aptasensor has high selectivity for P. aeruginosa, with an extrapolated limit of detection (LOD) of 86 CFU mL-1 in phosphate-buffered saline (PBS) and 157 CFU mL-1 in milk. To improve the sensitivity of the sensor, gold nanoparticles (AuNPs) were functionalized with the same aptamer for P. aeruginosa and flowed through the sensor following bacteria, reducing the extrapolated LOD to 68 CFU mL-1 in PBS and 46 CFU mL-1 in milk. The frequency variations in the aptasensor are proportional to various concentrations of P. aeruginosa (102-105 CFU mL-1) with and without AuNPs, respectively. The low and rapid mass-sensitive detection demonstrates the ability of the aptasensor to quantitatively identify bacterial contamination in buffer and milk.

Antibody and Aptamer-Based Magnetic-Graphene Oxide Desorption (M-GOD) Quantum Dot Assays for Rapid and Sensitive Detection of SAR-CoV-2

Rapid detection of respiratory diseases using a noninvasive bind-and-detect breath test could shift the future of rapid diagnostics. Commercially available biotinylated anti-SARS-CoV-2 spike (S) protein antibody was conjugated to streptavidin-coated quantum dots, purified, and adsorbed onto magnetic-graphene oxide (M-GO) flakes to quench the conjugate. When inactivated SARS-CoV-2 was added at increasing levels, the antibody-quantum dot conjugates desorbed from the M-GO as a function of virus concentration with an apparent limit of detection ~ 9,600 inactivated virus particles within 2-5 min in phosphate-buffered saline (PBS) plus 10 mM Mg2+ assessed by a spectrofluorometer. A similar fluorescence response was obtained using a published biotinylated DNA aptamer sequence designated MSA52 and inactivated SARS-CoV-2 in PBS plus 5 mM Mg2+. Concentrations of Mg2+ greater than 5 mM diminished the aptamer magnetic-graphene oxide desorption (M-GOD) assay performance, perhaps by altering the aptamer's 3-dimensional conformation and ability to bind the virus. As reported previously, the MSA52 aptamer assay demonstrated reasonable specificity for variants of SARS-CoV-2 and significantly less intense detection of inactivated Influenza A and Respiratory Syncytial Virus (RSV) in the M-GOD assay format. This rapid and sensitive detection of inactivated SARS-CoV-2 in clear PBS buffer bodes well for the ultimate goal of rapid homogeneous bind-and-detect detection of COVID and other viral respiratory pathogens in human breath condensates and other easily accessible body fluids.

Graphene oxide-based fluorescent biosensors for pathogenic bacteria detection: A review

BACKGROUND

Pathogenic bacteria are widespread in nature and can cause infections and various complications, thereby posing a severe risk to public health. Therefore, simple, rapid, sensitive, and cost-effective methods must be developed to detect pathogenic bacteria. Biosensors are prominent platforms for detecting pathogenic bacteria owing to their high sensitivity, specificity, repeatability, and stability. With the development of nanotechnology, graphene oxide (GO) has been increasingly introduced into the construction of fluorescent biosensors to enhance their performance owing to its unique physicochemical properties.

RESULTS

This review systematically summarizes the development of GO-based fluorescent biosensors for the detection of pathogenic bacteria. First, we introduce the functionalization and modification of GO. The design and signal amplification strategies for GO-based fluorescent biosensors are also discussed. Finally, we explore the challenges and new perspectives associated with this field, with the aim of facilitating the development of GO-based fluorescent sensing technologies to prevent the spread of multidrug-resistant bacteria.

SIGNIFICANCE

This review will aid in the development of high-performance biosensors for pathogenic bacterial assays.

Advances in the application of carbon dots-based fluorescent probes in disease biomarker detection

Carbon dots (CDs), as an emerging nanomaterial, have shown tremendous potential in disease biomarker detection. CDs can selectively interact with different target molecules, enabling highly sensitive and specific detection of these biomolecules. Compared to traditional detection methods, CDs sensors offer advantages such as rapid response, high detection sensitivity, and low cost. In this review, we summarize the latest advances in the application of CDs fluorescence probes for the detection of disease biomarkers, including sensing mechanisms, and their applications in the selective detection of metal ions, amino acids, enzymes, proteins, other biomolecules, as well as bacteria and viruses. We discuss the current challenges and issues associated with the practical application of CDs-based fluorescent probes. Furthermore, we propose future directions for the development of CDs. We hope that this review will provide new insights for researchers in the field of disease biomarker detection.

Carbon nanomaterial-based aptasensors for rapid detection of foodborne pathogenic bacteria

Each year, millions of people suffer from foodborne illness due to the consumption of food contaminated with pathogenic bacteria, which severely challenges global health. Therefore, it is essential to recognize foodborne pathogens swiftly and correctly. However, conventional detection techniques for bacterial pathogens are labor-intensive, low selectivity, and time-consuming, highlighting a notable knowledge gap. A novel approach, aptamer-based biosensors (aptasensors) linked to carbon nanomaterials (CNs), has shown the potential to overcome these limitations and provide a more reliable method for detecting bacterial pathogens. Aptamers, short single-stranded DNA (ssDNA)/RNA molecules, serve as bio-recognition elements (BRE) due to their exceptionally high affinity and specificity in identifying foodborne pathogens such as Salmonella spp., Escherichia coli (E. coli), Listeria monocytogenes, Campylobacter jejuni, and other relevant pathogens commonly associated with foodborne illnesses. Carbon nanomaterials' high surface area-to-volume ratio contributes unique characteristics crucial for bacterial sensing, as it improves the binding capacity and signal amplification in the design of aptasensors. Furthermore, aptamers can bind to CNs and create aptasensors with improved signal specificity and sensitivity. Hence, this review intends to critically review the current literature on developing aptamer functionalized CN-based biosensors by transducer optical and electrochemical for detecting foodborne pathogens and explore the advantages and challenges associated with these biosensors. Aptasensors conjugated with CNs offers an efficient tool for identifying foodborne pathogenic bacteria that is both precise and sensitive to potentially replacing complex current techniques that are time-consuming.

Swift and precise detection of unlabeled pathogens using a nanogap electrode impedimetric sensor facilitated by electrokinetics

For the protection of human health and environment, there is a growing demand for high-performance, user-friendly biosensors for the prompt detection of pathogenic bacteria in samples containing various substances. We present a nanogap electrode-based purely electrical impedimetric sensor that utilizes the dielectrophoresis (DEP) mechanism. Our nanogap sensor can directly and sensitively detect pathogens present at concentrations as low as 1-10 cells/assay in buffers and drinking milk without the need for separation, purification, or specific ligand binding. This is achieved by minimizing the electrical double-layer effect and electrode polarization in nanogap impedance sensors, reducing signal loss. In addition, even at low DEP voltages, nanogap sensors can quickly establish strong DEP forces between the nanogap electrodes to control the spatial concentration of pathogens around the electrodes. This activates and stabilizes inter-electrode signal transmission along the nanogap-aligned pathogens, increasing sensitivity and reducing errors during repeated measurements. The DEP-enabled nanogap impedance sensor developed in this study is valuable for a variety of pathogen detection and monitoring systems including point-of-care testing (POCT) as it can detect pathogens in diverse samples containing multiple substances quickly and with high sensitivity, is compatible with complex solutions such as food and beverages, and provides highly reproducible results without the need for separate binding and separation processes.

Aptamers: precision tools for diagnosing and treating infectious diseases

Infectious diseases represent a significant global health challenge, with bacteria, fungi, viruses, and parasitic protozoa being significant causative agents. The shared symptoms among diseases and the emergence of new pathogen variations make diagnosis and treatment complex. Conventional diagnostic methods are laborious and intricate, underscoring the need for rapid, accurate techniques. Aptamer-based technologies offer a promising solution, as they are cost-effective, sensitive, specific, and convenient for molecular disease diagnosis. Aptamers, which are single-stranded RNA or DNA sequences, serve as nucleotide equivalents of monoclonal antibodies, displaying high specificity and affinity for target molecules. They are structurally robust, allowing for long-term storage without substantial activity loss. Aptamers find applications in diverse fields such as drug screening, material science, and environmental monitoring. In biomedicine, they are extensively studied for biomarker detection, diagnostics, imaging, and targeted therapy. This comprehensive review focuses on the utility of aptamers in managing infectious diseases, particularly in the realms of diagnostics and therapeutics.

Advances in Bioreceptor Layer Engineering in Nanomaterial-based Sensing of Pseudomonas Aeruginosa and its Metabolites

Pseudomonas aeruginosa is a pathogen that infects wounds and burns and causes severe infections in immunocompromised humans. The high virulence, the rise of antibiotic-resistant strains, and the easy transmissibility of P. aeruginosa necessitate its fast detection and control. The gold standard for detecting P. aeruginosa, the plate culture method, though reliable, takes several days to complete. Therefore, developing accurate, rapid, and easy-to-use diagnostic tools for P. aeruginosa is highly desirable. Nanomaterial-based biosensors are at the forefront of detecting P. aeruginosa and its secondary metabolites. This review summarises the biorecognition elements, biomarkers, immobilisation strategies, and current state-of-the-art biosensors for P. aeruginosa. The review highlights the underlying principles of bioreceptor layer engineering and the design of optical, electrochemical, mass-based, and thermal biosensors based on nanomaterials. The advantages and disadvantages of these biosensors and their future point-of-care applications are also discussed. This review outlines significant advancements in biosensors and sensors for detecting P. aeruginosa and its metabolites. Research efforts have identified biorecognition elements specific and selective towards P. aeruginosa. The stability, ease of preparation, cost-effectiveness, and integration of these biorecognition elements onto transducers are pivotal for their application in biosensors and sensors. At the same time, when developing sensors for clinically significant analytes such as P. aeruginosa, virulence factors need to be addressed, such as the sensor's sensitivity, reliability, and response time in samples obtained from patients. The point-of-care applicability of the developed sensor may be an added advantage since it enables onsite determination. In this context, optical methods developed for P. aeruginosa offer promising potential.

Fluorescent carbon dots for labeling of bacteria: mechanism and prospects-a review

The search for bacteria-labeling agents that are more efficient and less toxic compared to existing staining dyes is ongoing. Fluorescent quantum dots and carbon dots (CDs) have been extensively researched for various bioimaging applications. Priority is given to CDs due to several advantages, including lower toxicity, versatility in tuning their properties, and better photostability compared to metal-based quantum dots. Although significant progress is still needed to replace existing dyes with CDs for bacteria labeling, they offer promising potential for further improvement in efficiency. Surface charges and functional groups have been reported as decisive factors for bacterial discrimination and live/dead assays; however, a complete guideline for preparing CDs with optimum properties for efficient staining and predicting their labeling performance is lacking. In this review, we discuss the application of fluorescent CDs for bacterial labeling and the underlying mechanisms and principles. We primarily focus on the application and mechanism of CDs for Gram differentiation, live imaging, live/dead bacteria differentiation, bacterial viability testing, biofilm imaging, and the challenges associated with application of CDs. Based on proposed mechanisms of bacterial labeling and ambiguous results reported, we provide our view and guidelines for the researchers in this field to overcome the challenges associated with bacteria labeling using fluorescent CDs.

Recent developments of (bio)-sensors for detection of main microbiological and non-biological pollutants in plastic bottled water samples: A critical review

The importance of water in all biological processes is undeniable. Ensuring access to clean and safe drinking water is crucial for maintaining sustainable water resources. To elaborate, the consumption of water of inadequate quality can have a repercussion on human health. Furthermore, according to the instability of tap water quality, the consumption rate of bottled water is increasing every day at the global level. Although most people believe bottled water is safe, it can also be contaminated by microbiological or chemical pollution, which can increase the risk of disease. Over the last decades, several conventional analytical tools applied to analyze the contamination of bottled water. On the other hand, some limitations restrict their application in this field. Therefore, biosensors, as emerging analytical method, attract tremendous attention for detection both microbial and chemical contamination of bottled water. Biosensors enjoy several facilities including selectivity, affordability, and sensitivity. In this review, the developed biosensors for analyzing contamination of bottled water were highlighted, as along with working strategies, pros and cons of studies. Challenges and prospects were also examined.

Diagnosis and Therapeutic Strategies Based on Nucleic Acid Aptamers Selected against Pseudomonas aeruginosa: The Challenge of Cystic Fibrosis

Antimicrobial resistance (AMR) is a rapidly spreading global health problem, and approximately five million deaths associated with AMR pathogens were identified prior to the COVID-19 pandemic. Pseudomonas aeruginosa has developed increasing AMR, and in patients with cystic fibrosis (CF) colonized by this bacterium, rare phenotypes have emerged that complicate the diagnosis and treatment of the hosts, in addition to multiple associated "epidemic strains" with high morbidities and mortalities. The conjugation of aptamers with fluorochromes or nanostructures has allowed the design of new identification strategies for Pseudomonas aeruginosa with detection limits of up to 1 cell ⋅ mL-1 , and the synergy of aptamers with antibiotics, antimicrobial peptides and nanostructures has exhibited promising therapeutic qualities. Some selected aptamers against this bacterium have shown intrinsic antimicrobial activity. However, these aptamers have been poorly evaluated in clinical isolates and have shown decreased interactions for CF isolates, demonstrating, in these cases, uncommon phenotypes resulting from the selective qualities of this disease as well as the great adaptive capacity of the pathogen. Therefore, finding an aptamer or set of aptamers that have the ability to recognize strange phenotypes of this bacillus is crucial in the battle against AMR.

A point-of-care aptasensor based on the upconversion nanoparticles/MoS2 FRET system for the detection of Pseudomonas aeruginosa infection

The rapid detection of Pseudomonas aeruginosa (P. aeruginosa) is of great significance for the diagnosis of medical infection. In view of the above, a novel aptasensor based on fluorescence resonance energy transfer (FRET) was developed. It contained aptamer-coupled upconversion nanoparticles (UCNPs-apt) as a donor (excitation 980 nm) and molybdenum disulfide (MoS2) nanosheets as an acceptor. The upconversion fluorescence aptamer system was investigated to obtain the optimal parameters of MoS2 concentration, the incubation time of UCNPs-apt/MoS2 and P. aeruginosa, and pH. Based on the optimal parameters, a linear calibration equation (emission 654 nm) with a wide detection range 8.7 × 10 ~ 8.7 × 107 cfu/mL, a high coefficient of determination R2 0.9941, and a low limit of determination (LOD) 15.5 cfu/mL were established. The method was validated with P. aeruginosa infected foci of mouse wound. The advantage of this aptasensor is that analysis results can be obtained  within 1.5 h, which was much faster than that of the standard method (18-24 h). Furthermore, combined with a portable instrument, it can be used as a point-of-care testing for the early detection of P. aeruginosa infection, which is useful for selecting the correct antibiotics to achieve good therapeutic effects. Additionally, it also has a broad application prospect in food and environmental areas.

Functional fluorescent nanomaterials for the detection, diagnosis and control of bacterial infection and biofilm formation: Insight towards mechanistic aspects and advanced applications

Infectious diseases resulting from the high pathogenic potential of several bacteria possesses a major threat to human health and safety. Traditional methods used for screening of these microorganisms face major issues with respect to detection time, selectivity and specificity which may delay treatment for critically ill patients past the optimal time. Thus, a convincing and essential need exists to upgrade the existing methodologies for the fast detection of bacteria. In this context, increasing number of newly emerging nanomaterials (NMs) have been discovered for their effective use and applications in the area of diagnosis in bacterial infections. Recently, functional fluorescent nanomaterials (FNMs) are extensively explored in the field of biomedical research, particularly in developing new diagnostic tools, nanosensors, specific imaging modalities and targeted drug delivery systems for bacterial infection. It is interesting to note that organic fluorophores and fluorescent proteins have played vital role for imaging and sensing technologies for long, however, off lately fluorescent nanomaterials are increasingly replacing these due to the latter's unprecedented fluorescence brightness, stability in the biological environment, high quantum yield along with high sensitivity due to enhanced surface property etc. Again, taking advantage of their photo-excitation property, these can also be used for either photothermal and photodynamic therapy to eradicate bacterial infection and biofilm formation. Here, in this review, we have paid particular attention on summarizing literature reports on FNMs which includes studies detailing fluorescence-based bacterial detection methodologies, antibacterial and antibiofilm applications of the same. It is expected that the present review will attract the attention of the researchers working in this field to develop new engineered FNMs for the comprehensive diagnosis and treatment of bacterial infection and biofilm formation.

Development of a label-free impedimetric aptasensor for the detection of Acinetobacter baumannii bacteria

Acinetobacter baumannii (A. baumannii) is responsible for various nosocomial infections, which is known as a clinically crucial opportunistic pathogen. Therefore, rapid detection of this pathogen is critical to prevent the spread of infection and appropriate treatment. Biological detection probes, such as aptamers and synthetic receptors can be used as diagnostic layers to detect bacteria. In this work, an electrochemical aptasensor was developed for the ultrasensitive detection of A. baumannii by electrochemical impedance spectroscopy (EIS). The aptamer was immobilized on the surface of a CSPE modified with the nanocomposite Fe3O4@SiO2@Glyoxal (Gly) for selective and label-free detection of A. baumannii. The charge transfers resistance (Rct) between redox couple [Fe(CN)63-/4-] and the surface of aptasensor in the Nyquist plot of EIS study was used as electroanalytical signal for detection and determination of A. baumannii. The obtained results showed that the constructed aptasensor could specifically detect A. baumannii in the concentration range from 1.0 × 103-1.0 × 108 Colony-forming unit (CFU)/mL and with a detection limit of 150 CFU/mL (S/N = 3). In addition to its sensitivity, the biosensor exhibits high selectivity over some other pathogens. Therefore, a simple, inexpensive, rapid, label-free, selective, and sensitive electrochemical aptasensor was developed to detect A. baumannii.

Sensitive and Direct Analysis of Pseudomonas aeruginosa through Self-Primer-Assisted Chain Extension and CRISPR-Cas12a-Based Color Reaction

Pseudomonas aeruginosa (P. aeruginosa) is a common opportunistic Gram-negative pathogen that may cause infections to immunocompromised patients. However, sensitive and reliable analysis of P. aeruginosa remains a huge challenge. In this method, target recognition assists the formation of a self-primer and initiates single-stranded chain production. The produced single-stranded DNA chain is identified by CRISPR-Cas12a, and consequently, the trans-cleavage activity of the Cas12a enzyme is activated to parallelly digest Ag+ aptamer sequences that are chelated with silver ions (Ag+). The released Ag+ reacted with 3,3',5,5'-tetramethylbenzidine (TMB) for coloring. Compared with the traditional color developing strategies, which mainly rely on the DNA hybridization, the color developing strategy in this approach exhibits a higher efficiency due to the robust trans-cleavage activity of the Cas12a enzyme. Consequently, the method shows a low limit of detection of a wide detection of 5 orders of magnitudes and a low limit of detection of 21 cfu/mL, holding a promising prospect in early diagnosis of infections. Herein, we develop a sensitive and reliable method for direct and colorimetric detection of P. aeruginosa by integrating self-primer-assisted chain production and CRISPR-Cas12a-based color reaction and believe that the established approach will facilitate the development of bacteria-analyzing sensors.

Aptamer-functionalized quantum dots as theranostic nanotools against cancer and bacterial infections: A comprehensive overview of recent trends

Aptamers (Apts) are synthetic nucleic acid ligands that can be engineered to target various molecules, including amino acids, proteins, and pharmaceuticals. Through a series of adsorption, recovery, and amplification steps, Apts are extracted from combinatorial libraries of synthesized nucleic acids. Using aptasensors in bioanalysis and biomedicine can be improved by combining them with nanomaterials. Moreover, Apt-associated nanomaterials, including liposomes, polymeric, dendrimers, carbon nanomaterials, silica, nanorods, magnetic NPs, and quantum dots (QDs), have been widely used as promising nanotools in biomedicine. Following surface modifications and conjugation with appropriate functional groups, these nanomaterials can be successfully used in aptasensing. Advanced biological assays can use Apts immobilized on QD surfaces through physical interaction and chemical bonding. Accordingly, modern QD aptasensing platforms rely on interactions between QDs, Apts, and targets to detect them. QD-Apt conjugates can be used to directly detect prostate, ovarian, colorectal, and lung cancers or simultaneously detect biomarkers associated with these malignancies. Tenascin-C, mucin 1, prostate-specific antigen, prostate-specific membrane antigen, nucleolin, growth factors, and exosomes are among the cancer biomarkers that can be sensitively detected using such bioconjugates. Furthermore, Apt-conjugated QDs have shown great potential for controlling bacterial infections such as Bacillus thuringiensis, Pseudomonas aeruginosa, Escherichia coli, Acinetobacter baumannii, Campylobacter jejuni, Staphylococcus aureus, and Salmonella typhimurium. This comprehensive review discusses recent advancements in the design of QD-Apt bioconjugates and their applications in cancer and bacterial theranostics.

Recent advances and perspectives of functionalized carbon dots in bacteria sensing

Bacterial infectious diseases are severe threats to human health and increase substantial financial burdens. Nanomaterials have shown great potential in timely and accurate bacterial identification, detection, and monitoring to improve the cure rate and reduce mortality. Recently, carbon dots have been evidenced to be ideal candidates for bacterial identification and detection due to their superior physicochemical properties and biocompatibility. This review outlines the detailed recognition elements and recognition strategies with functionalized carbon dots (FCDs) for bacterial identification and detection. The advantages and limitations of different kinds of FCDs-based sensors will be critically discussed. Meanwhile, the ongoing challenges and perspectives of FCDs-based sensors for bacteria sensing are put forward.

An ultrasensitive aptamer-based fluorescent on/off system for trace amount evaluation of Yersinia enterocolitica in food samples

An innovative aptamer labeled with 5-FAM has been developed with a high affinity for Yersinia enterocolitica (Y. enterocolitica) using graphene oxide (GO) as a quenching platform. The selectivity of the prepared system was evaluated in the presence of common coexisted bacteria like Yersinia pseudotuberculosis, Staphylococcus aureus, Listeria monocytogenes, Escherichia coli, and Salmonella typhimurium. Some experimental factors like pH and stability were investigated. The results showed that in the absence of Y. enterocolitica, aptamer labeled with 5-FAM was bonded with GO, causing fluorescence to be relatively weak. After the addition of Y. enterocolitica, the aptamer is released from the GO surface and binds to the target bacteria, and significantly increases the fluorescence intensity with an excitation wavelength of 410 nm and an emission wavelength of 530 nm. After optimizing all conditions, the system exhibited a wide linear response for Y. enterocolitica in the concentration range 10 to 1.0 × 10⁹ CFU•mL^-1 and the limit of detection (LOD) was 3 CFU•mL^-1. This system demonstrated that GO-designed aptamers can be successful in detecting Y. enterocolitica in whole-cell forms, making them potentially useful for screening and rapid detection.

Low-speed centrifugation based isolation and Personal Glucose Meter assisted synchronous quantification of Pseudomonas aeruginosa in nursing home-acquired pneumonia

Home-acquired pneumonia is a common infection and the incidence has increased in recent years as the population ages. Pseudomonas aeruginosa (P. aeruginosa) is common in nursing home residents and in hospital infections, providing a huge threat to human health. Therefore, it is essential to develop a novel and portable P. aeruginosa analysis method for the early diagnosis of home-acquired pneumonia. Few of the established approaches enable isolation and synchronous quantification of P. aeruginosa. Herein, we propose a novel platform by integrating aptamer recognition-based aggregation of target bacteria and personal glucose meters (PGMs) based readout of results. Based on this, the method enables low-speed centrifugation (4193 g) based isolation and personal glucose meter assisted synchronous quantification of P. aeruginosa. In addition, the chain displacement process is included for signal amplification that endows the method with a wide detection range of six orders of magnitudes and a low limit of detection of 36 cfu/mL. Besides the excellent sensitivity, the approach also shows a good selectivity to P. aeruginosa detection, making it a promising tool to report P. aeruginosa based home-acquired pneumonia and guiding the early-nursing of P. aeruginosa infections at the emergency department.

An inner filter effect-based fluorescent aptasensor for sensitive detection of kanamycin in complex samples using gold nanoparticles and graphene oxide quantum dots

In this work, a label-free fluorescent aptasensor based on the inner filter effect (IFE) between gold nanoparticles (AuNPs) and graphene oxide quantum dots (GOQDs) was developed for the detection of kanamycin in complex samples. AuNPs are capable of functioning as the fluorescence absorber of GOQDs because of the complementary overlap between their absorption spectra and the emission spectra of GOQDs. AuNPs can effectively quench the fluorescence of GOQDs via the IFE and modulate it with their aggregation state. In the presence of kanamycin, the aptamer is released from the surface of AuNPs, leading to their salt-induced aggregation and the fluorescence recovery of GOQDs. Under the optimum conditions, the fluorescence intensity of GOQDs was linearly proportional to the concentration of kanamycin over the range from 5 to 600 nM, with a detection limit of 3.6 nM. Moreover, the fluorescent aptasensor was successfully applied for kanamycin detection in complex samples (milk, honey and serum), which might hold great promise for kanamycin detection in food safety control and clinical research.

Aptamer-Based Technologies for Parasite Detection

Centuries of scientific breakthroughs have brought us closer to understanding and managing the spread of parasitic diseases. Despite ongoing technological advancements in the detection, treatment, and control of parasitic illnesses, their effects on animal and human health remain a major concern worldwide. Aptamers are single-stranded oligonucleotides whose unique three-dimensional structures enable them to interact with high specificity and affinity to a wide range of targets. In recent decades, aptamers have emerged as attractive alternatives to antibodies as therapeutic and diagnostic agents. Due to their superior stability, reusability, and modifiability, aptamers have proven to be effective bioreceptors for the detection of toxins, contaminants, biomarkers, whole cells, pathogens, and others. As such, they have been integrated into a variety of electrochemical, fluorescence, and optical biosensors to effectively detect whole parasites and their proteins. This review offers a summary of the various types of parasite-specific aptamer-based biosensors, their general mechanisms and their performance.

A Synergistic Dual-Channel Sensor for Ultrasensitive Detection of Pseudomonas aeruginosa by DNA Nanostructure and G-Quadruplex

Pseudomonas aeruginosa is one of the foodborne pathogenic bacteria that greatly threatens human health. An ultrasensitive technology for P. aeruginosa detection is urgently demanded. Herein, based on the mechanism of aptamer-specific recognition, an electrochemical-colorimetric dual-mode ultrasensitive sensing strategy for P. aeruginosa is proposed. The vertices of DNA tetrahedral nanoprobes (DTNPs), that immobilized on the gold electrode were modified with P. aeruginosa aptamers. Furthermore, the G-quadruplex, which was conjugated with a P. aeruginosa aptamer, was synthesized via rolling circle amplification (RCA). Once P. aeruginosa is captured, a hemin/G-quadruplex, which possesses peroxidase-mimicking activity, will separate from the P. aeruginosa aptamer. Then, the exfoliated hemin/G-quadruplexes are collected for oxidation of the 3,3',5',5'-tetramethylbenzidine for colorimetric sensing. In the electrochemical mode, the hemin/G-quadruplex that is still bound to the aptamer catalyzes polyaniline (PANI) deposition and leads to a measurable electrochemical signal. The colorimetric and electrochemical channels demonstrated a good forward and reverse linear response for P. aeruginosa within the range of 1-10⁸ CFU mL^-1, respectively. Overall, compared with a traditional single-mode sensor for P. aeruginosa, the proposed dual-mode sensor featuring self-calibration not only avoids false positive results but also improves accuracy and sensitivity. Furthermore, the consistency of the electrochemical/colorimetric assay was verified in practical meat samples and showed great potential for applications in bioanalysis.

In Vitro and In Situ Characterization of Psychrotrophic Spoilage Bacteria Recovered from Chilled Chicken

Spoilage bacteria play a remarkable role in the spoilage of chilled chicken. In this paper, a total of 42 isolates belonging to 16 species of four genera were isolated from chilled chicken and displayed different characterizations of psychrotrophic spoilage. Six isolates of J7, J8, Q20, Q23, R1, and R9 with differences in proteolytic capabilities were further characterized for in situ spoilage potential evaluation. Pseudomonas lundensis J8 exhibited the strongest spoilage potential in situ, displaying a fast growth rate, increased pH velocity, high total volatile basic nitrogen, and high peptide content in the chicken samples. The volatile flavor analysis of chicken samples via electronic nose indicated that the content of characteristic odors representing spoilage, including sulfides, organic sulfide, and hydride, increased during storage. Additionally, the principle component and correlation analyses revealed that the spoilage odors produced by different species of bacteria were significantly different and positively correlated with the results of protease activity in vitro. The characteristics of spoilage bacteria in chilled chicken provided a comprehensive insight into microbial assessment during storage.

Fluorescent aptasensor for detection of live foodborne pathogens based on multicolor perovskite-quantum-dot-encoded DNA probes and dual-stirring-bar-assisted signal amplification

In this study, a fluorescent (FL) aptasensor was developed for on-site detection of live Salmonella typhimurium (S.T.) and Vibrio parahaemolyticus (V.P.). Complementary DNA (cDNA) of aptamer (Apt)-functionalized multicolor polyhedral oligomeric silsesquioxane-perovskite quantum dots (cDNA-POSS-PQDs) were used as encoded probes and combined with dual-stirring-bar-assisted signal amplification for pathogen quantification. In this system, bar 1 was labeled with the S.T. and V.P. Apts, and then bar 2 was functionalized with cDNA-POSS-PQDs. When S.T. and V.P. were introduced, pathogen-Apt complexes would form and be released into the supernatant from bar 1. Under agitation, the two complexes reached bar 2 and subsequently reacted with cDNA-POSS-PQDs, which were immobilized on MXene. Then, the encoded probes would be detached from bar 2 to generate FL signals in the supernatant. Notably, the pathogens can resume their free state and initiate next cycle. They swim between the two bars, and the FL signals can be gradually enhanced to maximum after several cycles. The FL signals from released encoded probes can be used to detect the analytes. In particular, live pathogens can be distinguished from dead ones by using an assay. The detection limits and linear range for S.T. and V.P. were 30 and 10 CFU/mL and 10²-10⁶ CFU/mL, respectively. Therefore, this assay has broad application potential for simultaneous on-site detection of various live pathogenic bacteria in water.

Aptamer-based biosensors for Pseudomonas aeruginosa detection

Pseudomonas aeruginosa possesses innate antibiotic resistance mechanisms, and carbapenem-resistant Pseudomonas aeruginosa has been considered the number one priority in the 2017 WHO list of antimicrobial-resistant crucial hazards. Early detection of Pseudomonas aeruginosa can circumvent treatment challenges. Various techniques have been developed for the detection of P. aeruginosa detection. Biosensors have recently attracted unprecedented attention in the field of point-of-care diagnostics due to their easy operation, rapid, low cost, high sensitivity, and selectivity. Biosensors can convert the specific interaction between bioreceptors (antibodies, aptamers) and pathogens into optical, electrical, and other signal outputs. Aptamers are novel and promising alternatives to antibodies as biorecognition elements mainly synthesized by systematic evolution of ligands by exponential enrichment and have predictable secondary structures. They have comparable affinity and specificity for binding to their target to antibody recognition. Since 2015, there have been about 2000 journal articles published in the field of aptamer biosensors, of which 30 articles were on the detection of P. aeruginosa. Here, we have focused on outlining the recent progress in the field of aptamer-based biosensors for P. aeruginosa detection based on optical, electrochemical, and piezoelectric signal transduction methods.

Advances in Aptamer-Based Biosensors and Cell-Internalizing SELEX Technology for Diagnostic and Therapeutic Application

Aptamers are a group of synthetic single-stranded nucleic acids. They are generated from a random library of single-stranded DNA or RNA by a technology named systematic evolution of ligands by exponential enrichment (SELEX). SELEX is a repetitive process to select and identify suitable aptamers that show high affinity and specificity towards target cells. Great strides have been achieved in the design, construction, and use of aptamers up to this point. However, only a small number of aptamer-based applications have achieved widespread commercial and clinical acceptance. Additionally, finding more effective ways to acquire aptamers with high affinity remains a challenge. Therefore, it is crucial to thoroughly examine the existing dearth and advancement in aptamer-related technologies. This review focuses on aptamers that are generated by SELEX to detect pathogenic microorganisms and mammalian cells, as well as in cell-internalizing SELEX for diagnostic and therapeutic purposes. The development of novel aptamer-based biosensors using optical and electrical methods for microbial detection is reported. The applications and limitations of aptamers are also discussed.

Biosensors for rapid detection of bacterial pathogens in water, food and environment

Conventional techniques (e.g., culture-based method) for bacterial detection typically require a central laboratory and well-trained technicians, which may take several hours or days. However, recent developments within various disciplines of science and engineering have led to a major paradigm shift in how microorganisms can be detected. The analytical sensors which are widely used for medical applications in the literature are being extended for rapid and on-site monitoring of the bacterial pathogens in food, water and the environment. Especially, within the low-resource settings such as low and middle-income countries, due to the advantages of low cost, rapidness and potential for field-testing, their use is indispensable for sustainable development of the regions. Within this context, this paper discusses analytical methods and biosensors which can be used to ensure food safety, water quality and environmental monitoring. In brief, most of our discussion is focused on various rapid sensors including biosensors and microfluidic chips. The analytical performances such as the sensitivity, specificity and usability of these sensors, as well as a brief comparison with the conventional techniques for bacteria detection, form the core part of the discussion. Furthermore, we provide a holistic viewpoint on how future research should focus on exploring the synergy of different sensing technologies by developing an integrated multiplexed, sensitive and accurate sensors that will enable rapid detection for food safety, water and environmental monitoring.

Nanoarchitectonics of graphene based sensors for food safety monitoring

Since the desire for the real-time food quality monitoring, plenty of research effort has been made to develop novel tools and to offer extremely efficient detection of food contaminants. Unique electrical, mechanical, and thermal properties make graphene an important material in the field of sensor research. The material can be manufactured into flakes, sheets, films and with its oxidized derivatives could be almost used for a limitless set of application. Herein, current graphene-based sensors for food quality monitoring, novel designs, sensing mechanisms and elements of sensor systems and potential challenges will be outlined and discussed.

Advanced detection and sensing strategies of Pseudomonas aeruginosa and quorum sensing biomarkers: A review

Pseudomonas aeruginosa (P. aeruginosa), a ubiquitous opportunistic pathogen, can frequently cause chronic obstructive pulmonary disease, cystic fibrosis and chronic wounds, and potentially lead to severe morbidity and mortality. Timely and adequate treatment of nosocomial infection in clinic depends on rapid detection and accurate identification of P. aeruginosa and its early-stage antibiotic susceptibility test. Traditional methods like plating culture, polymerase chain reaction, and enzyme-linked immune sorbent assays are time-consuming and require expensive equipment, limiting the rapid diagnostic application. Advanced sensing strategy capable of fast, sensitive and simple detection with low cost has therefore become highly desired in point of care testing (POCT) of nosocomial pathogens. Within this review, advanced detection and sensing strategies for P. aeruginosa cells along with associated quorum sensing (QS) molecules over the last ten years are discussed and summarized. Firstly, the principles of four commonly used sensing strategies including localized surface plasmon resonance (LSPR), surface-enhanced Raman spectroscopy (SERS), electrochemistry, and fluorescence are briefly overviewed. Then, the advancement of the above sensing techniques for P. aeruginosa cells and its QS biomarkers detection are introduced, respectively. In addition, the integration with novel compatible platforms towards clinical application is highlighted in each section. Finally, the current achievements are summarized along with proposed challenges and prospects.

Aptasensors for the detection of infectious pathogens: design strategies and point-of-care testing

The epidemic of infectious diseases caused by contagious pathogens is a life-threatening hazard to the entire human population worldwide. A timely and accurate diagnosis is the critical link in the fight against infectious diseases. Aptamer-based biosensors, the so-called aptasensors, employ nucleic acid aptamers as bio-receptors for the recognition of target pathogens of interest. This review focuses on the design strategies as well as state-of-the-art technologies of aptasensor-based diagnostics for infectious pathogens (mainly bacteria and viruses), covering the utilization of three major signal transducers, the employment of aptamers as recognition moieties, the construction of versatile biosensing platforms (mostly micro and nanomaterial-based), innovated reporting mechanisms, and signal enhancement approaches. Advanced point-of-care testing (POCT) for infectious disease diagnostics are also discussed highlighting some representative ready-to-use devices to address the urgent needs of currently prevalent coronavirus disease 2019 (COVID-19). Pressing issues in aptamer-based technology and some future perspectives of aptasensors are provided for the implementation of aptasensor-based diagnostics into practical application.

Advances and Challenges of Fluorescent Nanomaterials for Synthesis and Biomedical Applications

With the rapid development of nanotechnology, new types of fluorescent nanomaterials (FNMs) have been springing up in the past two decades. The nanometer scale endows FNMs with unique optical properties which play a critical role in their applications in bioimaging and fluorescence-dependent detections. However, since low selectivity as well as low photoluminescence efficiency of fluorescent nanomaterials hinders their applications in imaging and detection to some extent, scientists are still in search of synthesizing new FNMs with better properties. In this review, a variety of fluorescent nanoparticles are summarized including semiconductor quantum dots, carbon dots, carbon nanoparticles, carbon nanotubes, graphene-based nanomaterials, noble metal nanoparticles, silica nanoparticles, phosphors and organic frameworks. We highlight the recent advances of the latest developments in the synthesis of FNMs and their applications in the biomedical field in recent years. Furthermore, the main theories, methods, and limitations of the synthesis and applications of FNMs have been reviewed and discussed. In addition, challenges in synthesis and biomedical applications are systematically summarized as well. The future directions and perspectives of FNMs in clinical applications are also presented.

Advances in the Methods for the Synthesis of Carbon Dots and Their Emerging Applications

Cutting-edge technologies are making inroads into new areas and this remarkable progress has been successfully influenced by the tiny level engineering of carbon dots technology, their synthesis advancement and impressive applications in the field of allied sciences. The advances of science and its conjugation with interdisciplinary fields emerged in carbon dots making, their controlled characterization and applications into faster, cheaper as well as more reliable products in various scientific domains. Thus, a new era in nanotechnology has developed into carbon dots technology. The understanding of the generation process, control on making processes and selected applications of carbon dots such as energy storage, environmental monitoring, catalysis, contaminates detections and complex environmental forensics, drug delivery, drug targeting and other biomedical applications, etc., are among the most promising applications of carbon dots and thus it is a prominent area of research today. In this regard, various types of carbon dot nanomaterials such as oxides, their composites and conjugations, etc., have been garnering significant attention due to their remarkable potential in this prominent area of energy, the environment and technology. Thus, the present paper highlights the role and importance of carbon dots, recent advancements in their synthesis methods, properties and emerging applications.

Quantum dot biosensor combined with antibody and aptamer for tracing food-borne pathogens

Due to the increasing number of food-borne diseases, more attention is being paid to food safety. Food-borne pathogens are the main cause of food-borne diseases, which seriously endanger human health, so it is necessary to detect and control them. Traditional detection methods cannot meet the requirements of rapid detection of food due to many shortcomings, such as being time-consuming, laborious or requiring expensive instrumentation. Quantum dots have become a promising nanotechnology in pathogens tracking and detection because of their excellent optical properties. New biosensor detection methods based on quantum dots are have been gradually developed due to their high sensitivity and high specificity. In this review, we summarize the different characteristics of quantum dots synthesized by carbon, heavy metals and composite materials firstly. Then, attention is paid to the principles, advantages and limitations of the quantum dots biosensor with antibodies and aptamers as recognition elements for recognition and capture of food-borne pathogens. Finally, the great potential of quantum dots in pathogen detection is summarized.

Gold nanoparticle-based immunochromatographic assay for detection Pseudomonas aeruginosa in water and food samples

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An ICA was developed for P. aeruginosa detection.

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The ICA strip showed a limit of detection of 2.41 × 10⁴ CFU/mL.

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The ICA could be applied to detect P. aeruginosa in water and food samples.

Pseudomonas aeruginosa (P. aeruginosa) is the common infection-causing bacterial pathogen. Conventional methods for the detection of P. aeruginosa are time-consuming, and therefore, a more rapid analytical method is required. Here, monoclonal antibodies (Mabs) against P. aeruginosa (CICC 10419) were prepared and based on paired Mabs, an immunochromatographic assay (ICA) was developed. The ICA strip showed a limit of detection of 2.41 × 10⁴ CFU/mL and the linear range of detection was 3.13 × 10⁴-1.0 × 10⁶ CFU/mL. No cross-reactivity was observed when other common Gram-negative and Gram-positive bacteria were used. The analytical performance of the ICA strip indicated that the developed ICA had good specificity and stability. Moreover, the feasibility of the ICA strip was verified by detecting P. aeruginosa (CICC 10419) in spiked water and food samples. The ICA strip could detect samples contaminated with a low-level of P. aeruginosa (CICC 10419) after 8 h enrichment.

Synthesis of biological quantum dots based on single-strand DNA and its application in melamine detection

By taking TC base-rich single-stranded DNA (ssDNA) as the raw material, a fluorescent biological quantum dots (Bio-dots) probe was prepared in one step through hydrothermal method, where its lifetime was greatly extended in comparison with Carbon quantum dots (CQDs), reaching 10.7 ns. The fluorescent detection of melamine in milk samples was realized by using the base pairing principle. Under the optimal conditions, the linear range of Bio-dots probe fluorescence sensor for melamine detection is 5-600 μM, and the detection limit is (3σ) 1.4 μM. Bio-dots can not only emit photoluminescence, but also detect target molecules as a functional recognition group. As the raw material ssDNA was basically non-toxic and there was no toxic substances participated in its synmanuscript process, this Bio-dots probe was a kind of green and environmentally-friendly photoluminescent functional material.

Aptamers and Aptamer-Coupled Biosensors to Detect Water-Borne Pathogens

Aptamers can serve as efficient bioreceptors for the development of biosensing detection platforms. Aptamers are short DNA or RNA oligonucleotides that fold into specific structures, which enable them to selectively bind to target analytes. The method used to identify aptamers is Systematic Evolution of Ligands through Exponential Enrichment (SELEX). Target properties can have an impact on aptamer efficiencies. Therefore, characteristics of water-borne microbial targets must be carefully considered during SELEX for optimal aptamer development. Several aptamers have been described for key water-borne pathogens. Here, we provide an exhaustive overview of these aptamers and discuss important microbial aspects to consider when developing such aptamers.

Enlarging the Toolbox Against Antimicrobial Resistance: Aptamers and CRISPR-Cas

In the post-genomic era, molecular treatments and diagnostics have been envisioned as powerful techniques to tackle the antimicrobial resistance (AMR) crisis. Among the molecular approaches, aptamers and CRISPR-Cas have gained support due to their practicality, sensibility, and flexibility to interact with a variety of extra- and intracellular targets. Those characteristics enabled the development of quick and onsite diagnostic tools as well as alternative treatments for pan-resistant bacterial infections. Even with such potential, more studies are necessary to pave the way for their successful use against AMR. In this review, we highlight those two robust techniques and encourage researchers to refine them toward AMR. Also, we describe how aptamers and CRISPR-Cas can work together with the current diagnostic and treatment toolbox.

Multicolor Fluorescent Graphene Oxide Quantum Dots for Sensing Cancer Cell Biomarkers

Onion-like carbon nanoparticles were synthesized from diamond nanoparticles to be used as the precursor for graphene oxide quantum dots. Onion-like carbon nanoparticles were exfoliated to produce two types of nanoparticles, graphene oxide quantum dots that showed size-dependent fluorescence and highly stable inner cores. Multicolor fluorescent quantum dots were obtained and characterized using different techniques. Polyacrylamide gel electrophoresis showed a range of emission wavelengths spanning from red to blue with the highest intensity shown by green fluorescence. Using high-resolution transmission electron microscopy, we calculated a unit cell size of 2.47 Å in a highly oxidized and defected structure of graphene oxide. A diameter of ca. 4 nm and radius of gyration of ca. 11 Å were calculated using small-angle X-ray scattering. Finally, the change in fluorescence of the quantum dots was studied when single-stranded DNA that is recognized by telomerase was attached to the quantum dots. Their interaction with the telomerase present in cancer cells was observed and a change was seen after six days, providing an important application of these modified graphene oxide quantum dots for cancer sensing.

Recent Advances in Aptamer-Based Biosensors for Detection of Pseudomonas aeruginosa

Increasing concerns about nosocomial infection, food and environmental safety have prompted the development of rapid, accurate, specific and ultrasensitive methods for the early detection of critical pathogens. Pseudomonas aeruginosa is one of the most common pathogens that cause infection. It is ubiquitous in nature, being found in water, soil, and food, and poses a great threat to public health. The conventional detection technologies are either time consuming or readily produce false positive/negative results, which makes them unsuitable for early diagnosis and spot detection of P. aeruginosa. To circumvent these drawbacks, many efforts have been made to develop biosensors using aptamers as bio-recognition elements. Various aptamer-based biosensors for clinical diagnostics, food, and environmental monitoring of P. aeruginosa have been developed in recent years. In this review, we focus on the latest advances in aptamer-based biosensors for detection of P. aeruginosa. Representative biosensors are outlined according to their sensing mechanisms, which include optical, electrochemical and other signal transduction methods. Possible future trends in aptamer biosensors for pathogen detection are also outlined.

Surface Functional Nanofiber Membrane for Ultrasensitive and Naked-Eye Visualization of Bacterial Concentration

Bacterial contamination in water is a serious health risk to human beings, so it is very important to realize the point-of-care (POC) bacterial detection in water. However, the traditional bacterial detection methods are time-consuming, professional- and equipment-dependent, and do not meet the needs of POC detection. There is a pressing need to develop a platform for POC bacterial detection to defeat the increasing risk of bacterial infections. Herein, a surface functional nanofiber membrane (NFM) is prepared by layer-by-layer (LBL) self-assembly as a platform for POC detection of bacterial concentration; it is naked-eye visualization and ultrasensitive. The platform shows obvious bacterial responsiveness, which allows naked-eye visualization of bacterial concentration (10²-10⁶ CFU/mL) within 30 min and can quantitatively detect the bacterial concentration (10¹-10⁶ CFU/mL) by fluorescence within 5 min. The platform not only exhibits high efficiency but also has a low threshold for bacterial concentration detection. Furthermore, the platform shows good consistency with traditional methods in the detection of bacteria in practical water samples, and has the potential for use in detecting bacterial concentrations in water supplies to protect human beings from health hazards. This work also provides useful reference for research on bacterial detection, taking advantage of the surface characteristics of bacteria and the high sensitivity of NFM.

Ratiometric fluorescence resonance energy transfer aptasensor for highly sensitive and selective detection of Acinetobacter baumannii bacteria in urine sample using carbon dots as optical nanoprobes

Development of sensitive and selective analytical method for accurate diagnosis of Acinetobacter baumannii (Ab) bacteria in biological samples is a challenge. Herein, we developed an ingenious ratiometric fluorescent aptasensor for sensitive and selective detection of (Ab) bacteria based on fluorescence resonance energy transfer (FRET) between ortho-phenylenediamines carbon dot (o-CD), nitrogen-doped carbon nanodots (NCND) as donor's species and graphene oxide (GO) as acceptor. NCND that assembled onto the edge of graphene oxide (GO) exhibited quenched photoluminescence emission, and with the absorption of the modified o-CD with aptamer (o-CD-ssDNA) onto the graphene oxide surface the fluorescence of o-CD was efficiently quenched. The aptamer (ssDNA) as a biorecognition element is bound with A. baumannii specifically which releases the o-CD-ssDNA from GO and the recovery of the fluorescence signal of o-CD, while the fluorescence intensity of NCND only slightly altered and acted as the reference signal in ratiometric fluorescence assay. The fluorescence intensity ratio (I₅₅₀ nm/I₄₄₀nm) varied from 2.0 to 10.0 with the concentration of bacteria changing from 2.0 × 10³ to 4.5 × 10⁷ cfu/mL and the low detection limit of 3.0 × 10² cfu/mL (S/N = 3). The feasibility of the developed aptasensor for selective detection of A. baumannii in urine sample with satisfactory results was also demonstrated.