Controllable detection threshold achieved through the toehold switch system in a mercury ion whole-cell biosensor

Due to the toxicity of mercury and its harmful effects on human health, it is essential to establish a low-cost, highly sensitive and highly specific monitoring method with a wide detection range, ideally with a simple visual readout. In this study, a whole-cell biosensor with adjustable detection limits was developed for the detection of mercury ions in water samples, allowing controllable threshold detection with an expanded detection range. Gene circuits were constructed by combining the toehold switch system with lactose operon, mercury-ion-specific operon, and inducible red fluorescent protein gene. Using MATLAB for design and selection, a total of eleven dual-input single-output sensing logic circuits were obtained based on the basic logic of gene circuit construction. Then, biosensor DTS-3 was selected based on its fluorescence response at different isopropyl β-D-Thiogalactoside (IPTG) concentrations, exhibiting the controllable detection threshold. At 5-20 μM IPTG, DTS-3 can achieve variable threshold detection in the range of 0.005-0.0075, 0.06-0.08, 1-2, and 4-6 μM mercury ion concentrations, respectively. Specificity experiments demonstrated that DTS-3 exhibits good specificity, not showing fluorescence response changes compared with other metal ions. Furthermore spiked sample experiments demonstrated its good resistance to interference, allowing it to distinguish mercury ion concentrations as low as 7.5 nM by the naked eye and 5 nM using a microplate reader. This study confirms the feasibility and performance of biosensor with controllable detection threshold, providing a new detection method and new ideas for expanding the detection range of biosensors while ensuring rapid and convenient measurements without compromising sensitivity.

Sandwich-type electrochemical immunosensing of CA125 by using nanoribbon-like Ti3C2Tx MXenes and toluidine blue/UIO-66-NH2

CA125 (carbohydrate antigen 125) is an important biomarker of ovarian cancer, so developing effective method for its detection is of great significance. In the present work, a novel sandwich-like electrochemical immunosensor (STEM) of CA125 was constructed by preparing nanoribbon-like Ti3C2Tx MXenes (Ti3C2TxNR) to immobilize primary antibody (PAb) of CA125 and UIO-66-NH2 MOFs structure to immobilize second antibody (SAb) and electroactive toluidine blue (Tb) probe. In this designed STEM assay, the as-prepared Ti3C2TxNR nanohybrid offers the advantages in large surface area and conductivity as carrier, and UIO-66-NH2 provided an ideal platform to accommodate SAb and a large number of Tb molecules as signal amplifier. In the presence of CA125, the peak currents of Tb from the formed STEM structure increase with the increase of CA125 level. After optimizing the related control conditions, a wide linear range (0.2-150.0 U mL-1) and a very low detection limit (0.05 U mL-1) of CA125 were achieved. It's thus expected the developed STEM strategy has important applications for the detection of CA125.

Molecular study of the presence and transcriptional activity of HPV in semen

PURPOSE

Human Papillomavirus (HPV) in semen represents a controversial topic. Recent evidence suggests a correlation with poor semen quality, but its detection is still unstandardized in this biological fluid. Thus, the aims of this study were to verify the ability of nested PCR to reveal HPV-DNA in semen; to evaluate association of seminal HPV with sperm parameters and risk factors for infection; to investigate the rate of HPV-DNA positivity in patients with and without risk factors; to assess HPV transcriptional activity.

METHODS

We enrolled sexually active men and collected clinical and anamnestic data during andrological and sexually transmitted infections (STIs) evaluation. For each patient, we performed semen analysis and nested PCR to detect HPV-DNA in semen. In positive semen samples, we proceeded with genotyping and RNA quantification to detect HPV transcriptional activity.

RESULTS

We enrolled 185 men (36.0 ± 8.3 years), of which 85 with (Group A) and 100 without HPV risk factors (Group B). Nested PCR was able to reveal HPV-DNA in semen, discovering a prevalence of 8.6% (11.8% in Group A and 6% in Group B, respectively). We observed no correlation between sperm quality and seminal HPV. Genital warts and previous anogenital infection were significantly associated with the risk of HPV positivity in semen. Moreover, no viral transcriptional activity was detected in positive semen samples.

CONCLUSIONS

Our study suggests that searching for seminal HPV could be important in patients both with and without risk factors, especially in assisted reproduction where the risk of injecting sperm carrying HPV-DNA is possible.

Detection limit of FT-IR-based bacterial typing based on optimized sample preparation and typing model

Accurate and efficient bacterial typing methods are crucial to microbiology. Fourier transform infrared (FT-IR) spectroscopy enables highly distinguishable fingerprint identification of closely related bacterial strains by producing highly specific fingerprints of bacteria, which is increasingly being considered as an alternative to genotypic methods, such as pulsed field gel electrophoresis (PFGE) and whole genome sequencing (WGS), for bacterial typing. Compared with genotypic methods, FT-IR has significant advantages of convenient operation, fast speed, and low cost. Fundamental research into the detection limit based on optimized analytical conditions for FT-IR bacterial typing, which can avoid excessive bacterial culture time or sampling volume, is particularly important, especially in clinical practice. However, the corresponding parameters have not been fully investigated. In this study, we developed a simplified and reliable procedure for sample preparation, optimized the data analysis procedure, and evaluated the FT-IR detection limit based on the above conditions. In particular, we combined the film mold and calcium fluoride plate for sample preparation. We evaluated the detection limit (about 108 CFU/mL) after parameter optimization using hierarchical cluster analysis (HCA) and artificial neural network (ANN). The optimization and evaluation of these key fundamentals will better promote future application of FT-IR-based bacterial typing.

The new role of dipyrromethene chemosensor for absorbance-ratiometic and fluorescence "turn-on" sensing Zn2+ ions in water-organic solutions and real water samples

This study presents a dipyrromethene-based sensitive and selective probe for Zn2+ ions detection in aqueous and water-organic media. The probe demonstrates absorbance-ratiometric and "off-on" fluorescent sensing for Zn2+ in a DMSO/H2O (9:1, v/v) mixture. The 3,3',4,4',5,5'-hexamethyl-2,2'-dipyrromethene (HL), similar to its analogs, exhibits weak fluorescence (with a quantum yield of less than 0.001). However, upon the presence of Zn2+ ions in the sensor HL solution, there is a remarkable increase (up to 200-fold) in fluorescence intensity due to the formation of a stable intramolecular chelate complex [ZnL2]. This complex formation induces a significant hyperchromic effect and a red shift (57 nm) in the characteristic absorption bands. The sensing mechanism of the probe towards Zn2+ ions was thoroughly investigated through absorbance and fluorescent titrations, molar ratio plots, 1H NMR, and DFT/TDDFT studies. The fluorescence response exhibited a strong linear relationship with Zn2+ concentration within the range of 0 to 5.7 × 10-6 mol/L. The detection limit (LOD) and limit of quantitation (LoQ) for Zn2+ were determined as 2 × 10-8 mol/L and 6.6 × 10-8 mol/L, respectively. Moreover, the probe demonstrated high selectivity for Zn2+ ions over other metal ions (Na+, Mg2+, Al3+, Cr3+, Mn2+, Fe3+, Co2+, Ni2+, Cu2+, Pd2+, Cd2+, Hg2+, Pb2+). Test systems in the form of test-strips and cotton-pads were developed based on the dipyrromethene sensor for rapid "naked-eye" detection of zinc ions in water. The sensor was successfully applied for detecting Zn2+ ions in real water samples.

A Prompt Study on Recent Advances in the Development Of Colorimetric and Fluorescent Chemosensors for "Nanomolar Detection" of Biologically Important Analytes

Fluorescent and colorimetric chemosensors for selective detection of various biologically important analytes have been widely applied in different areas such as biology, physiology, pharmacology, and environmental sciences. The research area based on fluorescent chemosensors has been in existence for about 150 years with the development of large number of fluorescent chemosensors for selective detection of cations as metal ions, anions, reactive species, neutral molecules and different gases etc. Despite the progress made in this field, several problems and challenges still exist. The most important part of sensing is limit of detection (LOD) which is the lowest concentration that can be measured (detected) with statistical significance by means of a given analytical procedure. Although there are so many reports available for detection of millimolar to micromolar range but the development of chemosensors for the detection of analytes in nanomolar range is still a challenging task. Therefore, in our current review we have focused the history and a general overview of the development in the research of fluorescent sensors for selective detection of various analytes at nanomolar level only. The basic principles involved in the design of chemosensors for specific analytes, binding mode, photophysical properties and various directions are also covered here. Summary of physiochemical properties, mechanistic view and type of different chemosensors has been demonstrated concisely in the tabular forms.

Fluoride ion detection in aqueous medium: Colorimetric and turn-off fluorescent Schiff base chemosensor

The work described is focused on a newly developed colorimetric Schiff base fluorescent sensor that exhibits a "turn-off" response when detecting fluoride ions (F-) in an aqueous environment. The confirmation of the recognition event is accomplished through fluorescence titration, absorbance titration, and Density Functional Theory (DFT) calculation study. From the results, it is determined that the detection limit of F- is 2.35 × 10-8 M which is much lower than the World Health Organization (WHO) permissible limit for drinking water while the binding constant was obtained to be 0.1 × 106 M-1 indicating a moderate affinity for the fluoride ions. Furthermore, the binding stoichiometry between the Probe L and F- was found to be 1:1 which is evidenced by the Job's plot and DFT calculation study. Overall, the novel sensor's impressive sensitivity and selectivity make it a promising candidate for the detection of fluoride ions in aqueous media, particularly for monitoring drinking water quality to ensure compliance with WHO guidelines.

Naphthaldehyde-Based Schiff Base Chemosensor for the Dual Sensing of Cu2+ and Ni2+ Ions

In this study, a simple Schiff base sensor 1-(((4-nitrophenyl)imino)methyl)naphthalen-2-ol(NNM) has been used for chemosensing of metal ions. The metal sensing properties of sensor NNM have been investigated using UV-visible and fluorescence spectroscopic approaches. The spectral investigations revealed a red shift in absorption spectra and quenching in the emission band of the ligand molecule in the presence of Cu2+ and Ni2+ ions. The binding stoichiometry of sensor NNM for the analyte (Cu2+ and Ni2+ ions) has been investigated by the Job's plot analysis and found to be 1:1 (NNM:Analyte). The data of the Benesi-Hildebrand plot demonstrated that NNM detected Cu2+ and Ni2+ ions in nanomolar quantity. The binding insights among NNM and analytes (Cu2+ and Ni2+ ions) have been confirmed by shifted IR signals. Moreover, the reusabilty of the sensor has been investigated using an EDTA solution. In addition, the sensor NNM also successfully applied to real water samples for the identification and measurement of Cu2+ and Ni2+ ions. Hence, this system could be highly applicable in environmental and biological applications.

In-situ analysis of trace components in proportioning distilled spirits using Raman integrating sphere spectroscopy

In situ and on-site analysis of trace components, such as methanol and ethyl acetate, in distilled spirits poses significant challenges. In this study, we have proposed a simple, yet effective and rapid approach that combines Raman spectroscopy with Raman integrating sphere technology to accurately detect trace constituents in distilled spirits. An external standard method to effectively separate overlapping Raman peaks from different substances are developed. Experimental results demonstrate that with an exposure time of 180 s under normal temperature and pressure, the detection limits for methanol, acetic acid, and ethyl acetate in proportioned distilled spirits are below 0.1 g/L. Importantly, the detection limit of methanol and acetic acid remains unaffected by the concentration of distilled spirits and the types of trace substances. Notably, the concentration of trace solute exhibits a highly linear relationship with its corresponding Raman intensity, offering a reliable probe for identifying unknown components in distilled spirits.

An Isoniazid Based Schiff Base Sensor for Selective Detection of Pd2+ Ions

Here, we developed a novel isoniazid based fluorescent probe (E)-N'-(thiophen-2-ylmethylene)isonicotinohydrazide (TINH) through simple condensation reaction and employed for selective detection of Pd2+ ions with a low detection limit of 4.102 × 10-11 M. Among the many existing cations, TINH bound Pd2+ ions with an association affinity of 9.794 × 105 M-1. Adding Pd2+ ions to ligand solution increased the absorption intensity in UV-Visible and quenched the emission intensity in fluorescence spectroscopic experiments. More importantly, this TINH complexed to Pd2+ ions in 1:1 stoichiometric ratio. To evaluate the stability of complexed system, pH experiments has been performed. The binding insights among the ligand and Pd2+ ions has been confirmed by IR spectroscopic and MASS spectrometric methods. Additionally, TINH also applied to real water samples for the identification and measurement of Pd2+ ions. Hence, this system could be highly applicable for detection of Pd2+ ions in environmental and industrial samples with in low detection range.

The coverage and detection limit of a sampling point for robotics radiation mapping

The sensor coverage problem aims to maximize the coverage of a target area with a fixed or minimum number of sensors. However, the sampling point coverage for radiation mapping has yet to be specified or adequately established. When dealing with unknown radiation fields, it is critical that the placements of sampling points will ensure that all hotspots are detected and accurately identified. Therefore, the concept of coverage and detection limit for a sampling point in radiation mapping is proposed in this paper. The proposed concept relates the angular dependency of the radiation measurement instruments with the detector detection limit or minimum detectable amount (MDA). To demonstrate the implementation, the concept is used to compute the sensitivity of the radiation map for coverage radiation mapping with mobile robot. Simulation results showed that hotspots with intensity equal to or above the sampling point detection limit were successfully detected regardless of their position within the coverage circle. Moreover, the experimental results of coverage radiation mapping showed that the concept can be used to compute the resolution of the radiation map. This will help the user to efficiently configure the appropriate grid size that suit their mapping situation and requirements.

Synthesis, Characterization, Analytical Application, and Theoretical Studies of a Schiff Base, (E)-2-(2-aminophenylthio)-N-(Thiophen-2-yl-methylene) Benzenamine

In this study, a new Schiff base, (E)-2-(2-aminophenylthio)-N-(thiophen-2-yl-methylene) benzenamine was synthesized for selective detection of Hg2+. This Schiff base was characterized by proton nuclear magnetic resonance (1HNMR), carbon-13 nuclear magnetic resonance (13CNMR), and Fourier-transform infrared (FTIR) spectroscopy. Binding interaction between (E)-2-(2-aminophenylthio)-N-(thiophen-2-yl-methylene)benzenamine and various metal ions has been studied by UV-Vis spectroscopic measurements and shows promising coordination towards Hg2+ and almost no interference from other metal ions (Ag+, Mn2+, Fe3+, Al3+, Co2+, Ni2+, Cu2+, Zn2+, Cd2+, Fe2+ and Cr3+).This Schiff base exhibiting detection limit of 3.8 × 10- 8 M. The Schiff base newly synthesized in this study was successfully applied to the determination of Hg2+ in water samples. In addition to the experimental study, a theoretical study was conducted using Gaussian 09 program to support the experimental findings. FTIR, NMR, bond angle, bond length, torsional angles, and structural approximation were studied using theoretical consideration.

Radiological environmental monitoring of groundwater around NPP: A proposal for its assessment

Whether a nuclear installation has radiological impact and, in that case, its extension, are the questions behind any environmental analysis of the installation along its operational life. This analysis is based on the detailed establishment of the radiological background of the area. Accordingly, the dismantling and decommissioning process (D&D) of a nuclear power plant starts with a radiological monitoring plan, which includes the radiological characterization of the area and of its surroundings. At the completion of the D&D, unrestricted use for the site will be permitted strictly in accordance with results of the radiological survey within the limits established by the local authorities. Groundwater quality is typically included in any radiological analysis since, among other reasons, a significant part of it is highly likely to end up being extracted for domestic use and hence, human consumption. While there is no regulation containing maximum activity concentration or radionuclide guidance values for water that may be destined for uses other than public consumption, if groundwater is considered a "part" of the land, dose criteria for site release can be applied. Therefore, together with the guidance levels to be established for the different radionuclides expected in the groundwater, the detection limits to be employed when performing routine radio analytical characterization procedures in the laboratory should also be provided. In this paper, we first propose a relation of the potential radionuclides to be analyzed in groundwater, together with their detection limits to be achieved when the determinations are performed in a laboratory, and subsequently, we discuss the most suitable analytical methodologies and resources that would be necessary to undertake radiological characterization plans from a practical point of view.

Development of portable sensor for the detection of bacteria: effect of gold nanoparticle size, effective surface area, and interparticle spacing upon sensing interface

In this study, systematic development of a portable sensor for the rapid detection of Escherichia coli (E. coli) and Exiguobacterium aurantiacum (E. aurantiacum) was reported. A conductive glass was utilized as a substrate and developed the electrode patterns on it. Trisodium citrate (TSC) and chitosan-stabilized gold nanoparticles (AuNPs) (CHI-AuNP-TSC) and chitosan-stabilized AuNPs (CHI-AuNP) were synthesized and utilized as a sensing interface. The morphology, crystallinity, optical properties, chemical structures, and surface properties of immobilized AuNPs on the sensing electrodes were investigated. The sensing performance of the fabricated sensor was evaluated by using an electrochemical method to observe the current changes in cyclic voltammetric responses. The CHI-AuNP-TSC electrode has higher sensitivity toward E. coli than CHI-AuNP with a limit of detection (LOD) of 1.07 CFU/mL. TSC in the AuNPs synthesis process played a vital role in the particle size, the interparticle spacing, the sensor's effective surface area, and the presence of CHI around AuNPs, thus enhancing the sensing performance. Moreover, post-analysis of the fabricated sensor surface exhibited the sensor stability and the interaction between bacteria and the sensor surface. The sensing results showed a promising potential for rapid detection using a portable sensor for various water and food-borne pathogenic diseases.

Validation and green profile assessment of a binary solvent liquid phase microextraction method for the determination of chlorbenside and fenobucarb in lake and wastewater samples by GC-MS

This study reports a liquid phase microextraction method based on binary extraction solvents, which were used to preconcentrate chlorbenside and fenobucarb from aqueous samples for determination by gas chromatography mass spectrometry. Parameters including the type, ratio, and volume of binary solvents, disperser solvent type and volume, and vortex period were optimized systematically to achieve high enrichment for the analytes. The optimum conditions obtained were used to validate the method, and the detection limits calculated for chlorbenside (0.71 ng/mL) and fenobucarb (0.33 ng/mL) correlated to enrichment factors of 399- and 912-folds, respectively. The optimum method was applied to lake water and wastewater samples in spike recovery experiments, and the results obtained (96-104%) verified the method as accurate and applicable to the aqueous sample matrices. Matrix matching calibration method was used to boost the accuracy of quantifying the two analytes in the wastewater sample, which presented interference effects. Assessment of the method's green profile based on penalty points confirmed the method's compliance with green analytical chemistry.

Luminescent Pyrene-based Schiff base Receptor for Hazardous Mercury(II) Detection Demonstrated by Cell Imaging and Test Strip

Qualitative and quantitative analysis of mercury at concentration levels as low as parts per billion (ppb) is a basic and practical concern. The vast majority of research in this field has centered on the development of potent chemosensor to monitor mercuric (Hg²⁺) ions. Mercury exists in three oxidation states, + 2, + 1 and 0, all of which are highly poisonous. In this study, (N¹E,N²E)-N¹,N²-bis(pyrene-1-ylmethylene)benzene-1,2-diamine (PAPM), a novel photoluminescent sensor based on pyrene platform was synthesized. Over the tested metal ions (Cd²⁺, Co²⁺, Cu²⁺, Mg²⁺, Mn²⁺, Ni²⁺, K⁺, Na⁺, Zn²⁺, Sr²⁺, Pb²⁺, Al³⁺, Cr³⁺ and Fe³⁺) the sensor responds only to Hg²⁺ by showing high selectivity and sensitivity. After treatment with mercuric ions at room temperature, the luminescence intensity of probe was quenched at 456 nm. The quenching of fluorescence intensity of probe upon addition of mercury is due to the effect of "turn-off" chelation enhanced quenching (CHEQ) by the formation of 1:1 complex. The ESI-MS spectrum and the Job's experimental results confirm the formation of 1:1 complex between PAPM and Hg²⁺. The detection limit and association constant of sensor for mercury is computed using fluorescence titration data and were found to be 9.0 × 10^-8 M and 1.29 × 10⁵ M^-1 respectively. The practical application of sensor towards recognition of mercury(II) ions was explored through economically viable test strips and also using cell imaging studies.

Schiff Bases: A Versatile Fluorescence Probe in Sensing Cations

Metal cations such as Zn²⁺, Al³⁺, Hg²⁺, Cd²⁺, Sn²⁺, Fe²⁺, Fe³⁺ and Cu²⁺ play important roles in biology, medicine, and the environment. However, when these are not maintained in proper concentration, they can be lethal to life. Therefore, selective sensing of metal cations is of great importance in understanding various metabolic processes, disease diagnosis, checking the purity of environmental samples, and detecting toxic analytes. Schiff base probes have been largely used in designing fluorescent sensors for sensing metal ions because of their easy processing, availability, fast response time, and low detection limit. Herein, an in-depth report on metal ions recognition by some Schiff base fluorescent sensors, their sensing mechanism, their practical applicability in cell imaging, building logic gates, and analysis of real-life samples has been presented. The metal ions having biological, industrial, and environmental significance are targeted. The compiled information is expected to prove beneficial in designing and synthesis of the related Schiff base fluorescent sensors.

Potential of nanobiosensor in sustainable agriculture: the state-of-art

A rapid surge in world population leads to an increase in worldwide demand for agricultural products. Nanotechnology and its applications in agriculture have appeared as a boon to civilization with enormous potential in transforming conventional farming practices into redefined farming activities. Low-cost portable nanobiosensors are the most effective diagnostic tool for the rapid on-site assessment of plant and soil health including plant biotic and abiotic stress level, nutritional status, presence of hazardous chemicals in soil, etc. to maintain proper farming and crop productivity. Nanobiosensors detect physiological signals and convert them into standardized detectable signals. In order to achieve a reliable sensing analysis, nanoparticles can aid in signal amplification and sensor sensitivity by lowering the detection limit. The high selectivity and sensitivity of nanobiosensors enable early detection and management of targeted abnormalities. This study identifies the types of nanobiosensors according to the target application in agriculture sector.

A chemosensing approach for the colorimetric and spectroscopic detection of Cr3+, Cu2+, Fe3+, and Gd3+ metal ions

Metal cations are present in domestic and industrial wastewater and have adverse effects on human and aqueous life. The present study describes the development of the molecular probe 9-anthracen-9-ylmethylene)hydrazineylidene)methyl)-2,3,6,7-tetrahydro-1H,5H-pyrido[3,2,1-ij]quinolin-8-ol (AMHMPQ) to detect Cr³⁺, Cu²⁺, Fe³⁺, and Gd³⁺ ions by using UV-visible, fluorescence, colorimetric and excitation-emission matrix (EEM) spectroscopy techniques. The interaction of Cr³⁺, Cu²⁺, Fe³⁺, and Gd³⁺ can be observed by the absorption maxima shift, turn-off, colour changes, and EEM shifts. In addition, fluorescence limits of detection 17.66 × 10^-6 M, 6.44 × 10^-9 M, 28.87 × 10^-8 M, and 12.49 × 10^-6 M in wide linear ranges, low limits of quantifications, high values of Stern-Volmer constant, Job's plot and Benesi-Hildebrand plot justify the 1:1 association affinity with association constants of 1.46 × 10⁴ M^-1, 1.86 × 10⁷ M^-1, 2.69 × 10⁵ M^-1, 2.13 × 10⁴ M^-1 for AMHMPQ-metal ions (Cr³⁺, Cu²⁺, Fe³⁺, and Gd³⁺ ions), respectively. Paper- and mask-based kits are developed to explore the utility of the designed chemosensor. Additionally, AMHMPQ acts as a reusable sensor for two, seven, two, and zero cycles for Cr³⁺, Cu²⁺, Fe³⁺, and Gd³⁺ ions, respectively, when checked with EDTA.

Nanoengineering and green chemistry-oriented strategies toward nanocelluloses for protein sensing

As one of the most important functional organic macromolecules of life, proteins not only participate in the cell metabolism and gene regulation, they also earnestly protect the body's immunity system, leading to a powerful biological shield and homeostasis. Advances in nanomaterials are boosting the significant progress in various applications, including the sensing and examination of proteins in trace amount. Nanocellulose-oriented protein sensing is at the forefront of this revolution. The inherent feature of high biocompatibility, low cytotoxicity, high specific area, good durability and marketability endow nanocellulose with great superiority in protein sensing. Here, we highlight the recent progress of protein sensing using nanocellulose as the biosensor in trace amount. Besides, various kinds of construction strategies for nanocelluloses-based biosensors are discussed in detail, to enhance the agility and accuracy of clinical/medical diagnostics. Finally, several challenges in the approbatory identification of new approaches for the marketization of biomedical sensing that need further expedition in the future are highlighted.

RT-qPCR and ATOPlex sequencing for the sensitive detection of SARS-CoV-2 RNA for wastewater surveillance

During the coronavirus disease 2019 (COVID-19) pandemic, wastewater surveillance has become an important tool for monitoring the spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) within communities. In particular, reverse transcription-quantitative PCR (RT-qPCR) has been used to detect and quantify SARS-CoV-2 RNA in wastewater, while monitoring viral genome mutations requires separate approaches such as deep sequencing. A high throughput sequencing platform (ATOPlex) that uses a multiplex tiled PCR-based enrichment technique has shown promise in detecting variants of concern (VOC) while also providing virus quantitation data. However, detection sensitivities of both RT-qPCR and sequencing can be impacted through losses occurring during sample handling, virus concentration, nucleic acid extraction, and RT-qPCR. Therefore, process limit of detection (PLOD) assessments are required to estimate the gene copies of target molecule to attain specific probability of detection. In this study, we compare the PLOD of four RT-qPCR assays (US CDC N1 and N2, China CDC N and ORF1ab) for detection of SARS-CoV-2 to that of ATOPlex sequencing by seeding known concentrations of gamma-irradiated SARS-CoV-2 into wastewater. Results suggest that among the RT-qPCR assays, US CDC N1 was the most sensitive, especially at lower SARS-CoV-2 seed levels. However, when results from all RT-qPCR assays were combined, it resulted in greater detection rates than individual assays, suggesting that application of multiple assays is better suited for the trace detection of SARS-CoV-2 from wastewater samples. Furthermore, while ATOPlex offers a promising approach to SARS-CoV-2 wastewater surveillance, this approach appears to be less sensitive compared to RT-qPCR under the experimental conditions of this study, and may require further refinements. Nonetheless, the combination of RT-qPCR and ATOPlex may be a powerful tool to simultaneously detect/quantify SARS-CoV-2 RNA and monitor emerging VOC in wastewater samples.

Evaluation of the probability distribution of radioactivity estimated by inverse problem solution using Monte Carlo Method

In this study, we derived the posterior probability distribution of the total activity estimated by inverse problem solution. The posterior probability distribution was derived by applying the Monte Carlo approach of the GUM Supplement 1 to the model of evaluation. The decision threshold, the detection limit, and the limits of the coverage interval for the results, all of which are defined in ISO 11929-2 as characteristic limits, were also derived.

Evaluation of process limit of detection and quantification variation of SARS-CoV-2 RT-qPCR and RT-dPCR assays for wastewater surveillance

Effective wastewater surveillance of SARS-CoV-2 RNA requires the rigorous characterization of the limit of detection resulting from the entire sampling process - the process limit of detection (PLOD). Yet to date, no studies have gone beyond quantifying the assay limit of detection (ALOD) for RT-qPCR or RT-dPCR assays. While the ALOD is the lowest number of gene copies (GC) associated with a 95% probability of detection in a single PCR reaction, the PLOD represents the sensitivity of the method after considering the efficiency of all processing steps (e.g., sample handling, concentration, nucleic acid extraction, and PCR assays) to determine the number of GC in the wastewater sample matrix with a specific probability of detection. The primary objective of this study was to estimate the PLOD resulting from the combination of primary concentration and extraction with six SARS-CoV-2 assays: five RT-qPCR assays (US CDC N1 and N2, China CDC N and ORF1ab (CCDC N and CCDC ORF1ab), and E_Sarbeco RT-qPCR, and one RT-dPCR assay (US CDC N1 RT-dPCR) using two models (exponential survival and cumulative Gaussian). An adsorption extraction (AE) concentration method (i.e., virus adsorption on membrane and the RNA extraction from the membrane) was used to concentrate gamma-irradiated SARS-CoV-2 seeded into 36 wastewater samples. Overall, the US CDC N1 RT-dPCR and RT-qPCR assays had the lowest ALODs (< 10 GC/reaction) and PLODs (<3,954 GC/50 mL; 95% probability of detection) regardless of the seeding level and model used. Nevertheless, consistent amplification and detection rates decreased when seeding levels were < 2.32 × 103 GC/50 mL even for US CDC N1 RT-qPCR and RT-dPCR assays. Consequently, when SARS-CoV-2 RNA concentrations are expected to be low, it may be necessary to improve the positive detection rates of wastewater surveillance by analyzing additional field and RT-PCR replicates. To the best of our knowledge, this is the first study to assess the SARS-CoV-2 PLOD for wastewater and provides important insights on the analytical limitations for trace detection of SARS-CoV-2 RNA in wastewater.

Dual Fluorometric Detection of Fe3+ and Hg2+ Ions in an Aqueous Medium Using Carbon Quantum Dots as a "Turn-off" Fluorescence Sensor

The present study aimed to develop a carbon dots-based fluorescence (FL) sensor that can detect more than one pollutant simultaneously in the same aqueous solution. The carbon dots-based FL sensor has been prepared by employing a facile hydrothermal method using citric acid and ethylenediamine as precursors. The as-synthesized CDs displayed excellent hydrophilicity, good photostability and blue fluorescence under UV light. They have been used as an efficient "turn-off" FL sensor for dual sensing of Fe³⁺ and Hg²⁺ ions in an aqueous medium with high sensitivity and selectivity through a static quenching mechanism. The lowest limit of detection (LOD) for Fe³⁺ and Hg²⁺ ions was found to be 0.406 µM and 0.934 µM, respectively over the concentration range of 0-50 µM. Therefore, the present work provides an effective strategy to monitor the concentration of Fe³⁺ and Hg²⁺ ions simultaneously in an aqueous medium using environment-friendly CDs.

Sensing and annihilation of ultra-trace level arsenic (III) using fluoranthene decorated fluorescent nanofibrous cellulose probe

Besides presence of heavy metals, especially arsenic in water bodies, northern India is striving to obliterate crop residue, which is otherwise burnt to make the fields ready for subsequent crop, causing acute air pollution. Through this study, an effort has been made to utilize wheat-straw cellulose to develop inexpensive and efficacious sensing cum annihilation system for deleterious arsenite ions As(III) in water by grafting a novel fluorophore, 3-bromofluoranthene on cellulose (BF@CFs). BF@CFs were characterized for structural, morphological and thermal properties using FTIR, XRD, TGA, FESEM, EDS and TEM, which confirmed the successful insertion of fluoranthene molecule on cellulose while preserving its crystalline nanofibrous structure. Fluorescent studies indicated strong affinity of BF@CFs towards arsenite ions exhibiting "turn on" fluorescence response attributed to inhibition of photo induced electron transfer (PET) and metal ion chelation with a limit of detection of 2.8 ng L^-1, lower than WHO prescribed limit of 10 μg L^-1. Besides sensing, the porous fibrous network of BF@CFs exhibited good adsorption of As(III) ions with maximum adsorption of 171.2 μg g^-1 at 35 min under optimized conditions. BF@CFs displayed 95.2% removal efficiency with 2 μg L^-1 concentration of As (III) ions at room temperature and neutral pH observed by atomic absorption spectrophotometer coupled with hydride generation assembly (HG-AAS) measurements. BF@CFs retained adsorption 97.3% efficiency after five adsorption/ desorption cycles displaying excellent reusability and stability, strengthening its potential as dual functional sensor and adsorbent.

Electrochemical sensor for tricyclic antidepressants with low nanomolar detection limit: Quantitative Determination of Amitriptyline and Nortriptyline in blood

Amitriptyline and its metabolite, Nortriptyline are commonly used tricyclic antidepressant (TCA) drugs that are electrochemically active. In this work, the performance characteristics of a plasticized PVC membrane-coated glassy carbon (GC) electrode are described for the voltammetric quantification of Amitriptyline and Nortriptyline in whole blood. The highly lipophilic Amitriptyline and Nortriptyline preferentially partition into the plasticized PVC membrane where the free drug is oxidized on the GC electrode. The concentrations of the drugs in the membrane are orders of magnitude larger than in the sample solution, resulting in superb limit of detection (LOD) of the membrane-coated voltammetric sensor: 3 nmol/L for Amitriptyline and 20 nmol/L for Nortriptyline. Conversely, hydrophilic components of the sample solution, e.g., proteins, the protein-bound fraction of the drugs, and electrochemically active small molecules are blocked from entering the membrane, which provides exceptional selectivity for the membrane-coated sensor and feasibility for the measurements of Amitriptyline in whole blood. In this work, the concentrations of Amitriptyline and Nortriptyline were determined in whole blood using the sensor and the results of our analysis were compared to the results of the standard HPLC-MS method. Based on our experience, the one-step voltammetric methods with the membrane-coated sensor may become a real alternative to the significantly more complex HPLC-MS analysis.

Prospective evaluation of EDXRF for studying the cation exchange membrane separation of Co from Zr in oxalic acid media and comparison with radiotracer experiments

This work focuses on the selective separation of Co from Zr and Nb, for the decontamination of pressure tubes from pressurized heavy water reactor. Initial experiments were carried out using the respective radiotracers. These laboratory scale studies explore the feasibility of using oxalic acid, a benign complexing medium, for the Zr-Nb matrix, with targeted sorption of trace levels of ⁶⁰Co on cation exchange membranes. Sorption of Co(II) on the membrane followed pseudo second order kinetics and the equilibrium capacity was 1.89 meq g^-1. Oxalic acid concentration was a trade-off between the loading of matrix elements and the % sorption of Co(II). Energy dispersive X-ray fluorescence (EDXRF) spectrometry was used for monitoring the sorption of Co on the membrane from inactive sample solutions. Sorption improved the EDXRF detection limits for Co from 50 μg in solution to 1.3 μg on the membrane, where the total concentration of the matrix elements in solution was 50 g L^-1. EDXRF method was validated by spike recovery and radiotracer studies.

A simple method for daily inspections of gas chromatography-mass spectrometry systems with an instrumental detection limit as an indicator

The purpose of this paper is to propose a simple method for daily inspections of a gas chromatography-mass spectrometry (GC-MS) system with an instrumental detection limit (IDL) as an indicator. A definition of DLs by ISO is 3.3σ where σ denotes the standard deviation (SD) of blank measurements. Estimation of σ is carried out according to the function of mutual information (FUMI) theory and actually with commercial software (TOCO19). An IDL which is a combination of a signal area, width and noise level is concluded to be a good indicator for daily inspections compared with each of its constituents. Methyl stearate is used as a standard material for the daily inspection of a programmed-temperature GC-MS system. A short chromatogram of 1800 data points (1.5 min) containing a target signal and background noise is fit for the IDL prediction by TOCO19. The relative SDs (RSDs) based on the theoretically estimated σ are shown to coincide with statistical results from repeated measurements within 95% confidence intervals. Column temperature is observed to affect IDLs through background fluctuation and then temperature-IDL relationship is examined in a range from 170 to 270 °C. Actual daily inspections over a month are demonstrated.

DNA diagnostics for reliable and universal identification of Helicobacter pylori

Reliable diagnostics are a major challenge for the detection and treatment of Helicobacter pylori (H. pylori) infection. Currently at the forefront are non-invasive urea breath test (UBT) and stool antigen test (SAT). Polymerase chain reaction (PCR) is not endorsed due to nonspecific primers and the threat of false-positives. The specificity of DNA amplification can be achieved by nested PCR (NPCR), which involves two rounds of PCR. If the primers are properly designed for the variable regions of the 16S rRNA gene, it is not difficult to develop an NPCR assay for the unambiguous identification of H. pylori. Elaborate NPCR for a 454 bp amplicon was validated on 81 clinical biopsy, stool, and saliva samples, each from the same individuals, and compared with available H. pylori assays, namely histology, rapid urease test, SAT, and ¹³C-UBT. The assay was much more sensitive than simple PCR, and it was equally sensitive in biopsy samples as the ¹³C-UBT test, which is considered the gold standard. In addition, it is sufficiently specific because sequencing of the PCR products exclusively confirmed the presence of H. pylori-specific DNA. However, due to the threshold and lower abundance, the sensitivity was much lower in amplifications from stool or saliva. Reliable detection in saliva also complicates the ability of H. pylori to survive in the oral cavity aside from and independent of the stomach. The reason for the lower sensitivity in stool is DNA degradation; therefore, a new NPCR assay was developed to obtain a shorter 148 bp 16S rRNA amplicon. The assay was validated on stool samples from 208 gastroenterological patients and compared to SAT results. Surprisingly, this NPCR revealed the presence of H. pylori in twice the number of samples as SAT, indicating that many patients are misdiagnosed, not treated by antibiotics, and their problems are interpreted as chronic. Thus, it is unclear how to properly diagnose H. pylori in practice. In the first approach, SAT or UBT is sufficient. If samples are negative, the 148 bp amplicon NPCR assay should be performed. If problems persist, patients should not be considered negative, but due to threshold H. pylori abundance, they should be periodically tested. The advantage of NPCR over UBT is that it can be used universally, including questionable samples taken from patients with achlorhydria, receiving proton pump inhibitors, antibiotics, bismuth compound, intestinal metaplasia, or gastric ulcer bleeding.

A Monte Carlo method for calculation of the characteristic limits decision threshold and detection limit in low-level radioactivity measurements

In this study, calculation of decision threshold and detection limit expressed in counts for low-level radioactivity measurements were evaluated and compared to a Monte Carlo method for the case of paired Poisson-distributed observations, i.e. for discrete variables. The calculated characteristic limits obtained from Monte Carlo calculations were compared with analytical expressions given in literature. The results in this study show that the equations given by Currie are in good agreement with the results from the Monte Carlo calculations simulating nuclear counting applications with a low number of observed counts. An exception is observed for a background corresponding to zero counts. This study also shows that at a low number of counts, the specific boundary conditions of the interval that represents counts corresponding to the presence of the analyte (>or ≥), have an impact on the false positives and negatives rates as defined by the parameters α and β.

Uncertainty and detection limits of 241Pu determination by liquid scintillation counting (LSC)

Determination of ²⁴¹Pu is an essential issue for radiation protection, as it is the precursor of some nuclides with high radiotoxicity. ²⁴¹Pu is a low energy beta emitter, which makes its measurement more challenging than that of Pu alpha emitters. The most widely used method for the measurement of ²⁴¹Pu is liquid scintillation counting (LSC). In this method, the assessment of Pu radiochemical yield is done by measuring the sample by alpha spectrometry before being lixiviated and measured by LSC. This double measurement affects uncertainty analysis, as well as decision threshold and detection limit, considering that both components of the total yield (radiochemical and lixiviation) should be contemplated. In this paper, and for quality assurance (QA) purposes, in-depth uncertainty and detection limit formulae for the proposed method, controlling correlations and considering all the parameters involved including chemical and lixiviation yields, have been developed. A sensitivity analysis of the uncertainty budget together with an assessment of ²⁴²Pu tracer quantity to be used, ensuring a total yield of at least 50% and a relative uncertainty of the leaching yield of at most 5%, have been carried out. In addition, an analysis of the impact of the real lixiviation yield value and its uncertainty on the results has been done. As a general conclusion, and considering the values of the parameters chosen for this work (samples of 1 g measured for 24 h by LSC), the ²⁴¹Pu uncertainties range from 5% to 30% depending on the activity concentration values and the detection limits range from 14 to 30 Bq kg^-1, depending on yield values. The main components of the uncertainty budget are the net ²⁴¹Pu and background counts obtained in the LSC measurement for low contaminated samples while this is the case for the alpha gross count rate in LSC measurement of the alpha calibration source for highly contaminated samples. In addition, an analysis of possible interference by Pu alpha emitters in the ²⁴¹Pu signal and a comparison of quench standard curves of ³H and ²⁴¹Pu are also performed.

Polymeric membrane-modified voltammetric sensors for lipophilic analytes with nanomolar detection limit: Key parameters influencing the response characteristics

Thin plasticized PVC membrane-coated glassy carbon working electrodes have been used for the voltammetric measurement of highly lipophilic, electroactive drugs. Compared to conventional working electrodes, these membrane-coated electrodes exhibit remarkable detection limit and selectivity and are less prone to electrode fouling. The unique performance characteristics of these sensors are related to the large partition coefficient of the analyte in the membrane coating where it is oxidized in a non-aqueous membrane phase. To analyze the influence of the key parameters of the response of membrane-coated sensors, we derived theoretical expressions on the voltammetric response of the sensors. In our analysis we considered 1) the partition coefficient (P_mw) of the analyte between the aqueous sample and the organic membrane, 2) the membrane volume to sample volume ratio (V_m/V_w), and 3) the binding constant of constituents in the sample that bind the analyte (K). The results of our theoretical analysis have been tested through voltammetric measurement of highly lipophilic analytes with logP_ow values (logarithm of the partition coefficient between octanol and water) ranging between 0.3 and 7.5. By understanding of the influence of the sensor design parameters on the overall sensor response, these parameters can be tuned for optimized response slope, detection limit, etc., for solving specific analytical tasks.

Trends in small organic fluorescent scaffolds for detection of oxidoreductase

Oxidoreductases are diverse class of enzymes engaged in modulating the redox homeostasis and cellular signaling cascades. Abnormal expression of oxidoreductases including thioredoxin reductase, azoreductase, cytochrome oxidoreductase, tyrosinase and monoamine oxidase leads to the initiation of numerous disorders. Thus, enzymes are the promising biomarkers of the diseased cells and their accurate detection has utmost significance for clinical diagnosis. The detection method must be extremely selective, sensitive easy to use, long self-life, mass manufacturable and disposable. Fluorescence assay approach has been developed potential substitute to conventional techniques used in enzyme's quantification. The fluorescent probes possess excellent stability, high spatiotemporal ratio and reproducibility represent applications in real sample analysis. Therefore, the enzymatic transformations have been monitored by small activatable organic fluorescent probes. These probes are generally integrated with enzyme's substrate/inhibitors to improve their binding affinity toward the enzyme's catalytic site. As the recognition unit bio catalyzed, the signaling unit produces the readout signals and provides novel insights to understand the biochemical reactions for diagnosis and development of point of care devices. Several structural modifications are required in fluorogenic scaffolds to tune the selectivity for a particular enzyme. Hence, the fluorescent probes with their structural features and enzymatic reaction mechanism of oxidoreductase are the key points discussed in this review. The basic strategies to detect each enzyme are discussed. The selectivity, sensitivity and real-time applications are critically compared. The kinetic parameters and futuristic opportunities are present, which would be enormous benefits for chemists and biologists to understand the facts to design and develop unique fluorophore molecules for clinical applications.

Comparison of detection limits estimated using single- and multi-concentration spike-based and blank-based procedures

Spike- and blank-based procedures were applied to estimate the detection limits (DLs) for example analytes from inorganic and organic methods for water samples to compare with the U.S. Environmental Protection Agency's (EPA) Method Detection Limit (MDL) procedures (revisions 1.11 and 2.0). The multi-concentration spike-based procedures ASTM Within-laboratory Critical Level (DQCALC) and EPA's Lowest Concentration Minimum Reporting Level were compared in one application, with DQCALC further applied to many methods. The blank-based DLs, MDL_b99 (99th percentile) or MDL_bY (= mean blank concentration + s × t), estimated using large numbers (>100) of blank samples often provide DLs that better approach or achieve the desired ≤1% false positive risk level compared to spike-based DLs. For primarily organic methods that do not provide many uncensored blank results, spike-based DQCALC or MDL rev. 2.0 are needed to simulate the blank distribution and estimate the DL. DQCALC is especially useful for estimating DLs for multi-analyte methods having very different analyte response characteristics. Time series plots of DLs estimated using different procedures reveal that DLs are dependent on the applied procedure, should not be expected to be static over time, and seem best viewed as falling over a range versus being a single value. Use of both blank- and spike-based DL procedures help inform this DL range. Data reporting conventions that censor data at a threshold and report "less than" that threshold concentration as the reporting level have unknown and potentially high false negative risk. The U.S. Geological Survey National Water Quality Laboratory's Laboratory Reporting Level (LRL) convention (applied primarily to organic methods) attempts to simultaneously minimize both the false positive and false negative risk when <LRL is reported and data between DL and the higher LRL are allowed to be reported.

A digital coding combination analysis for mutational genotyping using pyrosequencing

In the present study, we developed a novel digital coding combination analysis (DCCA) to analyze the gene mutation based on the sample combination principle. The principle is that any numerically named sample is divided into two groups, any two samples are not grouped in the same two groups, and any sample can be tested within the detection limit. Therefore, we proposed a specific combination that N samples were divided into M groups. Then N samples were analyzed, which could obtain the mutation results of M mixed groups. If only two groups showed positive (mutant type) signals, the same sample number from two positive signal groups would be the positive sample, and the remaining samples were negative (wild type). If three groups or more exhibited positive results, the same sample number from three positive signal groups would be the positive sample. If some samples remained uncertain, individual samples could be analyzed on a small scale. In the present study, we used the two genotypes of a mutation site (A5301G) to verify whether it was a useful and promising method. The results showed that we could quantitatively detect mutations and demonstrate 100% consistent results against a panel of defined mixtures with the detection limit using pyrosequencing. This method was suitable, sensitive, and reproducible for screening and analyzing low-frequency mutation samples, which could reduce reagent consumption and cost by approximately 70-80% compared with conventional clinical methods.

Improvement in the sensitivity of viroid detection by adapting the reverse transcription step in one-step RT-qPCR assays

Over the course of developing and applying a new real-time PCR assay for the detection of the newly described apple chlorotic fruit spot viroid (ACFSVd), slight modifications of the reverse transcription (RT) step were found to improve significantly the detection limit of the assay. To prove this hypothesis, three different one-step RT-qPCR kits for the detection of three plant viroids and three plant viruses were compared. The results showed both extension of the RT reaction time from 10 or 15 min-30 min or the increase in reaction temperature from 49 to 52 °C for the cDNA synthesis step results in a 10 times higher sensitivity for potato spindle tuber viroid and apple scar skin viroid one-step RT-qPCR assay and 45 higher sensitivity for ACFSVd one-step RT-qPCR assay. No variation in the detection limit was observed when the modifications were tested on tomato brown rugose fruit virus, plum pox virus and tomato ringspot virus assays. This finding is highly valuable for the investigation of viroids in general and could contribute to enhance sensitivity in their detection and to benefit regulatory outcomes for national plant protection organisations.

To what extent can Ulva and Sargassum be detected and separated in satellite imagery?

Blooms of floating macroalgae have been reported around the world, among which are recurrent blooms of Ulva prolifera and Sargassum horneri in the Yellow Sea and East China Sea. While satellite remote sensing has often been used to estimate their distributions and abundance as well as to trace their origins, because the algae mats are often much smaller than the size of an image pixel, it is unclear to what extent they can be detected and discriminated from each other in satellite imagery. Using data collected from laboratory experiments and by the Sentinel-3 OLCI (Ocean and Land Colour Instrument) and Sentinel-2 MSI (Multi Spectral Instrument) satellite instruments, we conduct simulated experiments to determine the lower detection limit and discrimination limit for these two macroalgae in different water environments and under different atmospheric conditions. For OLCI, the detection limit for both macroalgae is about 0.5% of a pixel, while the discrimination limit varies between 0.8% for clear water and 2% for turbid water. For MSI, the detection limit is about 2%, while the discrimination limit is about 6% for all water types. Below these two limits, detection and discrimination of macroalgae in these regions using the two sensors are subject to large uncertainties, thus requiring additional caution when interpreting algae areas and tracing algae origins.

Visual multiple cross displacement amplification for the rapid identification of S. agalactiae immediately from vaginal and rectal swabs

Streptococcus agalactiae (S. agalactiae) is an important pathogen that can lead to neonatus and mother infection. The current existing techniques for the identification of S. agalactiae are limited by accuracy, speed and high-cost. Therefore, a new multiple cross displacement amplification (MCDA) assay was developed for test of the target pathogen immediately from vaginal and rectal swabs. MCDA primers screening were conducted targeting S. agalactiae pcsB gene, and one set of MCDA primers with better rapidity and efficiency was selected for establishing the S. agalactiae-MCDA assay. As a result, the MCDA method could be completed at a constant temperature of 61 °C, without the requirement of special equipment. The detection limit is 250 fg (31.5 copies) per reaction, all S. agalactiae strains displayed positive results, but not for non-S. agalactiae strains. The visual MCDA assay detected 16 positive samples from 200 clinical specimen, which were also detected positive by enrichment/qPCR. While the CHROMagar culture detected 6 positive samples. Thus, the MCDA assay is prefer to enrichment/qPCR and culture for detecting S. agalactiae from clinical specimen. Particularly, the whole test of MCDA takes about 63.1 min, including sample collection (3 min), DNA preparation (15 min), MCDA reaction (45 min) and result reporting (6 s). In addition, the cost was very economic, with only US$ 4.9. These results indicated that our S. agalaciae-MCDA assay is a rapid, sensitive and cost-efficient technique for target pathogen detection, and is more suitable than conventional assays for an urgent detection, especially for 'on-site' laboratories and resource-constrained settings.

Evaluation of the detection limit of net count in peak for the energy spectrum of CZT detector

Pulse shape processing techniques have been used to improve the energy spectrum of the cadmium zinc telluride (CZT) detector, however, quantitative evaluation of the improvement, to determine whether it is acceptable to the related stakeholders, is required. In this study, the detection limit of net count in the full-energy absorption peak according to ISO 11929-1:2019 was selected to quantitatively evaluate the improvement of the characteristics of net count in the peak in the energy spectrum.

A theoretical and generalized approach for the assessment of the sample-specific limit of detection for clinical metagenomics

Metagenomics is a powerful tool to identify novel or unexpected pathogens, since it is generic and relatively unbiased. The limit of detection (LOD) is a critical parameter for the routine application of methods in the clinical diagnostic context. Although attempts for the determination of LODs for metagenomics next-generation sequencing (mNGS) have been made previously, these were only applicable for specific target species in defined samples matrices. Therefore, we developed and validated a generalized probability-based model to assess the sample-specific LOD of mNGS experiments (LOD_mNGS). Initial rarefaction analyses with datasets of Borna disease virus 1 human encephalitis cases revealed a stochastic behavior of virus read detection. Based on this, we transformed the Bernoulli formula to predict the minimal necessary dataset size to detect one virus read with a probability of 99%. We validated the formula with 30 datasets from diseased individuals, resulting in an accuracy of 99.1% and an average of 4.5 ± 0.4 viral reads found in the calculated minimal dataset size. We demonstrated by modeling the virus genome size, virus-, and total RNA-concentration that the main determinant of mNGS sensitivity is the virus-sample background ratio. The predicted LOD_mNGS for the respective pathogenic virus in the datasets were congruent with the virus-concentration determined by RT-qPCR. Theoretical assumptions were further confirmed by correlation analysis of mNGS and RT-qPCR data from the samples of the analyzed datasets. This approach should guide standardization of mNGS application, due to the generalized concept of LOD_mNGS.

Sensitivity of a transcription-mediated amplification method (Aptima Mycoplasma genitalium assay) to detect M. genitalium in vitro

INTRODUCTION

Mycoplasma genitalium is a known causative pathogen for some sexually transmitted infections. Nucleic acid amplification tests are a recommended method for detecting M. genitalium. A transcription-mediated amplification (TMA) nucleic acid amplification test to detect M. genitalium, the Aptima Mycoplasma genitalium assay was approved by the Food and Drug Administration in the United States and has been used in other countries. The purpose of this study is to determine the sensitivity of TMA test as the detection limit for 20 strains.

METHOD

The sensitivity of the TMA test was re-examined using 20 strains in vitro and the detection limit was estimated by comparison with the MgPa quantitative real-time PCR (qPCR) method. The M. genitalium strains used were isolated from Denmark, Norway, Sweden, France and Japan, and included macrolide or fluoroquinolone resistance. Stock strains were used at several dilutions, with each dilution of each strain examined using both TMA test and qPCR methods.

RESULT AND CONCLUSION

Estimated DNA loads of M. genitalium as the detection limit were 0.03-0.87 genome equivalents/mL. Sensitivity for TMA test was almost 100-fold higher than for the qPCR method.

Establishment and application of a multiple cross displacement amplification combined with nanoparticles-based biosensor method for the detection of Bordetella pertussis

Background

Bordetella pertussis is the causative agent of pertussis, a respiratory tract infectious disease.

Efficient techniques for detection of B. pertussis isolates are important for clinical diagnosis.

Multiple cross displacement amplification (MCDA), a novel isothermal amplification based molecular detection method, has been developed to overcome the technical drawback of the current methods in recent years. This aim of this study is to develop a MCDA with Nanoparticles-based Lateral Flow Biosensor (MCDA-LFB) for the detection of B. pertussis.

Results

A set of 10 primers based on the pertussis toxin (PT) promoter region sequence of B. pertussis was designed. The B. pertussis-MCDA-LFB assay was successfully established and optimized at 64 °C for reaction of 40 min. The detection limit was determined as 10 fg/reaction of pure DNA, and no cross-reactions to non-B. pertussis strains were observed, based on the specificity validation. The whole operation, ranging from template preparation to result reporting, could be completed within 70 min without requirement of costly equipment. The B. pertussis-MCDA-LFB in clinic sample detection yielded identical positive rates with traditional culture and showed higher sensitivity than conventional PCR. The results of MCDA-LFB are easier to read due to the usage of LFB.

Conclusions

The isothermal amplification based MCDA-LFB established in the present study is a specific, sensitive, rapid and economical technique for the detection of B. pertussis.

Detection limit of 89Zr-labeled T cells for cellular tracking: an in vitro imaging approach using clinical PET/CT and PET/MRI

PURPOSE

Tracking cells in vivo using imaging can provide non-invasive information to understand the pharmacology, efficacy, and safety of novel cell therapies. Zirconium-89 (t1/2 = 78.4 h) has recently been used to synthesize [89Zr]Zr(oxinate)4 for cell tracking using positron emission tomography (PET). This work presents an in vitro approach to estimate the detection limit for in vivo PET imaging of Jurkat T cells directly labeled with [89Zr]Zr(oxinate)4 utilizing clinical PET/CT and PET/MRI.

METHODS

Jurkat T cells were labeled with varying concentrations of [89Zr]Zr(oxinate)4 to generate different cell-specific activities (0.43-31.91 kBq/106 cells). Different concentrations of labeled cell suspensions (104, 105, and 106 cells) were seeded on 6-well plates and into a 3 × 3 cubic-well plate with 1 cm3 cubic wells as a gel matrix. Plates were imaged on clinical PET/CT and PET/MRI scanners for 30 min. The total activity in each well was determined by drawing volumes of interest over each well on PET images. The total cell-associated activity was measured using a well counter and correlated with imaging data. Simulations for non-specific signal were performed to model the effect of non-specific radioactivity on detection.

RESULTS

Using this in vitro model, the lowest cell number that could be visualized on 6-well plate images was 6.8 × 104, when the specific activity was 27.8 kBq/106 cells. For the 3 × 3 cubic-well, a plate of 3.3 × 104 cells could be detected on images with a specific activity of 15.4 kBq/106 cells.

CONCLUSION

The results show the feasibility of detecting [89Zr]Zr(oxinate)4-labeled Jurkat T cells on clinical PET systems. The results provide a best-case scenario, as in vivo detection using PET/CT or PET/MRI will be affected by cell number, specific activity per cell, the density of cells within the target volume, and non-specific signal. This work has important implications for cell labeling studies in patients, particularly when using radiosensitive cells (e.g., T cells), which require detection of low cell numbers while minimizing radiation dose per cell.

Terahertz fingerprint characterization of 2,4-dichlorophenoxyacetic acid and its enhanced detection in food matrices combined with spectral baseline correction

Rapid and accurate detection of pesticide residues in food matrices are of great significance to food safety. This study aimed to characterize the fingerprint peaks of 2,4-dichlorophenoxyacetic acid (2,4-D) and to enhance its detection accuracy in food matrices by using terahertz (THz) time-domain spectroscopy. Density functional theory was used to simulate molecular dynamics of 2,4-D peaks (1.35, 1.60, 2.37 and 3.00 THz). Four baseline correction methods, including asymmetric least squares smoothing (AsLS), adaptive iteratively reweighted penalized least squares (AirPLS), background correction (Backcor), baseline estimation and denoising with sparsity (BEADS) were compared and used to eliminate spectral baselines of Zizania latifolia (ZIZLA), rice and maize containing 2,4-D residues, from 0.1 to 4 THz. Based on the peak information of 1.35 THz, the detection limit and accuracy of 2,4-D residues in these food matrices were significantly improved after THz spectral baseline correction, providing a new feasibility for food safety and agricultural applications.

Accounting for the uncertainty due to chemicals below the detection limit in mixture analysis

Simultaneous exposure to a mixture of chemicals over a lifetime may increase an individual's risk of disease to a greater extent than individual exposures. Researchers have used weighted quantile sum (WQS) regression to estimate the effect of multiple exposures in a manner that identifies the important (etiologically relevant) components in the mixture. However, complications arise when an experimental apparatus detects concentrations for each chemical with a different detection limit. Current strategies to account for values below the detection limit (BDL) in WQS include single imputation or placing the BDL values into the first quantile of the weighted index (BDLQ1), which do not fully capture the uncertainty in the data when estimating mixture effects. In response, we integrated WQS regression into the multiple imputation framework (MI-WQS). In a simulation study, we compared the BDLQ1 approach to MI-WQS when using either a Bayesian imputation or bootstrapping imputation approach over a range of BDL values. We examined the ability of each method to estimate the mixture's overall effect and to identify important chemicals. The results showed that as the number of BDL values increased, the accuracy, precision, model fit, and power declined for all imputation approaches. When chemical values were missing at 10%, 33%, or 50%, the MI approaches generally performed better than single imputation and BDLQ1. In the extreme case of 80% of all the chemical values were missing, the BDLQ1 approach was superior in some examined metrics.

Comparison of Detection Limits for Allergenic Foods between Total Adenylate (ATP+ADP+AMP) Hygiene Monitoring Test and Several Hygiene Monitoring Approaches

ABSTRACT

Validation and verification of cleaning and inspection methods are essential to prevent the spread of allergens via cross-contact. Among the hygiene monitoring tests used on-site, the ATP test is rapid and provides quantifiable results. Nevertheless, because a wide variety of foods contain significant amount of ADP and/or AMP due to the degradation of ATP, the ATP+ADP+AMP (A3) test is preferred for detecting food debris. Hence, the A3 test may be valuable in screening food debris that may contain residual allergens. In this study, the detection limits of the A3 test for 40 foods that are regulated in several countries as allergenic were compared with those of the other hygiene monitoring tests used on-site: the conventional ATP test with similar sensitivity for ATP, the protein swab test that detects as little as 50 μg of protein, and the lateral flow immunoassay (LFI). The A3 test demonstrated lower detection limits than did the ATP test. The detection sensitivity of the A3 test was greater than that of the protein swab test except for its use on gelatin (extracted protein). The cleaning validation performance using a stainless steel model in fish and meat revealed that the A3 test is efficient in verifying the levels of remaining food debris. Although LFI displayed the best sensitivities for 10 of 14 foods, it is not commercially available for some specific allergens; however, the A3 test can detect such food debris. Moreover, the detection limits of the A3 test were preferable or comparable to those of LFI for crustacean shellfish and for processed grains, with the exception of wheat flour and buckwheat. A field study in a food processing plant demonstrated that the amount of both A3 and milk protein (enzyme-linked immunosorbent assay) considerably decreased as the cleaning steps progressed. Therefore, the A3 test is effective in detecting the risk for allergen cross-contact after inadequate cleaning.

HIGHLIGHTS

Human fecal contamination of water, soil, and surfaces in households sharing poor-quality sanitation facilities in Maputo, Mozambique

Identifying the origin of fecal contamination can support more effective interventions to interrupt enteric pathogen transmission. Microbial source tracking (MST) assays may help to identify environmental routes of pathogen transmission although these assays have performed poorly in highly contaminated domestic settings, highlighting the importance of both diagnostic validation and understanding the context-specific ecological, physical, and sociodemographic factors driving the spread of fecal contamination. We assessed fecal contamination of compounds (clusters of 2-10 households that share sanitation facilities) in low-income neighborhoods of urban Maputo, Mozambique, using a set of MST assays that were validated with animal stool and latrine sludge from study compounds. We sampled five environmental compartments involved in fecal microbe transmission and exposure: compound water source, household stored water and food preparation surfaces, and soil from the entrance to the compound latrine and the entrances to each household. Each sample was analyzed by culture for the general fecal indicator Escherichia coli (cEC) and by real-time PCR for the E. coli molecular marker EC23S857, human-associated markers HF183/BacR287 and Mnif, and GFD, an avian-associated marker. We collected 366 samples from 94 households in 58 compounds. At least one microbial target (indicator organism or marker gene) was detected in 96% of samples (353/366), with both E. coli targets present in the majority of samples (78%). Human targets were frequently detected in soils (59%) and occasionally in stored water (17%) but seldom in source water or on food surfaces. The avian target GFD was rarely detected in any sample type but was most common in soils (4%). To identify risk factors of fecal contamination, we estimated associations with sociodemographic, meteorological, and physical sample characteristics for each microbial target and sample type combination using Bayesian censored regression for target concentration responses and Bayesian logistic regression for target detection status. Associations with risk factors were generally weak and often differed in direction between different targets and sample types, though relationships were somewhat more consistent for physical sample characteristics. Wet soils were associated with elevated concentrations of cEC and EC23S857 and odds of detecting HF183. Water storage container characteristics that expose the contents to potential contact with hands and other objects were weakly associated with human target detection. Our results describe a setting impacted by pervasive domestic fecal contamination, including from human sources, that was largely disconnected from the observed variation in socioeconomic and sanitary conditions. This pattern suggests that in such highly contaminated settings, transformational changes to the community environment may be required before meaningful impacts on fecal contamination can be realized.

Detection of toxic fluoride ion via chromogenic and fluorogenic sensing. A comprehensive review of the year 2015-2019

Fluoride ion (F^-) contamination can be accumulated along the water and the food chain and cause serious risk to public health. It is of the greatest importance that selects the suitable chromophores and fluorophores for the design and synthesis of outstanding selective, sensitive chromogenic and fluorogenic probes for detection of fluoride ion. In this review is mainly focused on the current progress of fluoride ion detection according to their receptors into several categories like anthracene, azo, benzothiazole, BODIPY, calixarene, coumarin, imidazole, diketopyrrolopyrrole, hydrazone, imidazole, naphthalene, naphthalimide, quantum dots, Schiff base and urea group sensing in the year 2015-2019.

Antipyrine based Schiff's base as a reversible fluorescence turn "off-on-off" chemosensor for sequential recognition of Al3+ and F- ions: A theoretical and experimental perspective

A Schiff's base probe (L) based on antipyrine has been intended, synthesized and assessed as a turn "off-on-off" probe for successive recognition of Al³⁺ and F^-. The probe L act out as a turn "on" fluorescence probe towards Al³⁺ in methanol at pH 6 which turned "off" by F^- at 433 nm. The 1:1 binding stoichiometry of L + Al³⁺ complex was revealed by Job's plot and approved by ESI-HRMS data. The binding constant and limit of detection of probe L for Al³⁺ were found to be 2.951 × 10⁷ M^-1 and 0.61 × 10^-7 M respectively, which is lesser than the acceptable limit (0.74 × 10^-7 M) in drinking water. The proposed binding sites and the mode of interaction of probe L was studied and validated by ¹H NMR titration and ²⁷Al NMR spectroscopic studies. To get detailed vision into binding mechanism and optimized structure of receptor L and L + Al³⁺, L + Al³⁺ + F^- complex, theoretical calculations using DFT/DND and TDDFT method were performed. Furthermore, probe L can mimic INHIBIT logic function using Al³⁺ and F^- being logic inputs and examining the fluorescence maxima at 433 nm as output.

An automated system for predicting detection limit and precision profile from a chromatogram

This paper presents a basic model of an automated system for predicting the detection limit and precision profile (plot of relative standard deviation (RSD) of measurements against concentration) in chromatography. The fundamental assumption is that the major source of response errors at low sample concentrations is background noise and at high concentrations, it is the volumes injected into an HPLC system by a sample injector. The noise is approximated by the mixed random processes of the first order autoregressive process AR(1) and white noise. The research procedures are: (1) the description of the standard deviation (SD) of measurements in terms of the parameters of the mixed random processes; (2) the algorithm for the parameter estimation of the mixed processes from actual background noise; (3) the mathematical distinction between noise and signal in a chromatogram. When compounds are chromatographically separated, each obtained signal is given the detection limit and precision profile on laboratory-made software. A file of a chromatogram is the only requirement for the theoretical prediction of measurement uncertainty and therefore the repeated measurements of real samples can be dispensed with. The theoretically predicted RSDs are verified by comparing them with the statistical RSDs obtained by repeated measurements. Signal shapes on noise are illustrated at the detection limit and quantitation limit, the signal-to-noise ratios of which are close to the widely adopted values, 3 and 10, respectively.