Monitoring the well-being of vulnerable transit riders using machine learning based sentiment analysis and social media: Lessons from COVID-19.

Using open-source data, we show that despite significant reductions in global public transit during the COVID-19 pandemic, ∼20% of ridership continues during social distancing measures. Current urban transport data collection methods do not account for the distinct behavioural and psychological experiences of the population. Therefore, little is known about the travel experience of vulnerable citizens that continue to rely on public transit and their concerns over risk, safety and other stressors that could negatively affect their health and well-being. We develop a machine learning approach to augment conventional transport data collection methods by curating a population segmented Twitter dataset representing the travel experiences of ∼120,000 transit riders before and during the pandemic in Metro Vancouver, Canada. Results show a heightened increase in negative sentiments, differentiated by age, gender and ethnicity associated with public transit indicating signs of psychological stress among travellers during the first and second waves of COVID-19. Our results provide empirical evidence of existing inequalities and additional risks faced by citizens using public transit during the pandemic, and can help raise awareness of the differential risks faced by travellers. Our data collection methods can help inform more targeted social-distancing measures, public health announcements, and transit monitoring services during times of transport disruptions and closures.

Nanobody affinity improvement: Directed evolution of the anti-ochratoxin A single domain antibody.

The characteristics of single domain and ease of gene manipulation of the single domain antibody (sdAb) make it suitable for affinity maturation in vitro. Since the affinity of antibodies can influence the immunoassays' sensitivity, a nanobody (Nb), the anti-ochratoxin A sdAb (AOA-sdAb), was herein selected as the model antibody to explore feasible approach for improving its affinity. Homology modeling and molecular docking were used to analyze the interaction between OTA and the AOA-sdAb. After alanine scanning verification, Gly53, Met79, Ser102, and Leu149 were determined as the key amino acids of the AOA-sdAb. Two site-directed saturated mutation libraries were constructed by two-site mutation against those four key amino acids. After biopanning and identification, a mutant Nb-G53Q&S102D was obtained with a half maximal inhibition concentration (IC50) of 0.29 ng/mL and a KD value of 52 nM, which is 1.4-fold and 1.36-fold lower than that of the original sdAb, respectively. The computer simulation analysis indicated that the hydrogen bond, hydrophobic interaction, and side chain steric hindrance of amino acid residues are critical for the binding affinity of the AOA-sdAb. Overall, the techniques shown in this study are effective ways at 'identifying residues involved in antigen binding' that can be altered by site-directed mutation.

Nanobody-alkaline phosphatase fusion-mediated phosphate-triggered fluorescence immunoassay for ochratoxin a detection.

Ochratoxin A (OTA) is a kind of mycotoxin that seriously harms the health of humans and animals. In this study, a nanobody-alkaline phosphatase fusion-mediated phosphate-triggered fluorescence immunoassay (Nb-AP-mediated PT-FIA) was developed for detecting OTA. Based on the constructed phosphate-triggered fluorescence sensing system for Nb-AP and the optimal working conditions, the Nb-AP-mediated PT-FIA has a half maximal inhibition concentration (IC50) of 0.46 ng/mL, a limit of detection (IC10) of 0.12 ng/mL, and a linear range (IC20-80) of 0.2-1.26 ng/mL, respectively. The recovery experiment indicated acceptable accuracy and precision of the Nb-AP-mediated PT-FIA, and the results were validated by high performance liquid chromatography with fluorescence detector. Thus this proposed method is applicable to sensitive, rapid, and low-cost detection of OTA and other toxic analytes with low molecular weight in food and environment.

Development of a biotin-streptavidin-amplified nanobody-based ELISA for ochratoxin A in cereal.

A biotin-streptavidin-amplified enzyme-linked immunosorbent assay using a biotinylated nanobody (BA-Nb ELISA) was developed to detect ochratoxin A (OTA) in cereal. The limit of detection (LOD) of the BA-Nb ELISA, which equals to 10% maximal inhibitory concentration, was 0.011 ng/mL for OTA in buffer, and the sensitivity was approximately improved by one order of magnitude compared with the traditional Nb ELISA (LOD = 0.112 ng/mL). Under optimal conditions, the developed assay could be accomplished in 40 min with maximal inhibitory concentration of 0.138 ng/mL and the linear detection range of 0.034-0.460 ng/mL. The average recovery rate of the BA-Nb ELISA ranged from 92.8% to 114%, and the relative standard deviation was in the range of 2.04-9.85%. The developed BA-Nb ELISA was validated by liquid chromatography-tandem mass spectrometry (LC-MS/MS), and the results indicated the reliability of BA-Nb ELISA for the detection of OTA in cereal.

Nanobody-Alkaline Phosphatase Fusion Protein-Based Enzyme-Linked Immunosorbent Assay for One-Step Detection of Ochratoxin A in Rice.

Ochratoxin A (OTA) has become one a focus of public concern because of its multiple toxic effects and widespread contamination. To monitor OTA in rice, a sensitive, selective, and one-step enzyme-linked immunosorbent assay (ELISA) using a nanobody-alkaline phosphatase fusion protein (Nb28-AP) was developed. The Nb28-AP was produced by auto-induction expression and retained an intact antigen-binding capacity and enzymatic activity. It exhibited high thermal stability and organic solvent tolerance. Under the optimal conditions, the developed assay for OTA could be finished in 20 min with a half maximal inhibitory concentration of 0.57 ng mL-1 and a limit of detection of 0.059 ng mL-1, which was 1.1 times and 2.7 times lower than that of the unfused Nb28-based ELISA. The Nb28-AP exhibited a low cross-reactivity (CR) with ochratoxin B (0.92%) and ochratoxin C (6.2%), and an ignorable CR (<0.10%) with other mycotoxins. The developed Nb-AP-based one-step ELISA was validated and compared with a liquid chromatography-tandem mass spectrometry method. The results show the reliability of Nb-AP-based one-step ELISA for the detection of OTA in rice.

Development of a Nanobody-AviTag Fusion Protein and Its Application in a Streptavidin-Biotin-Amplified Enzyme-Linked Immunosorbent Assay for Ochratoxin A in Cereal.

Ochratoxin A (OTA) is a common food contaminant that threatens consumers' safety and health. A sensitive and selective biotin-streptavidin-amplified enzyme-linked immunosorbent assay (BA-ELISA) for OTA using a nanobody-AviTag fusion protein (Nb-AviTag) was developed in this study. The prokaryotic expression vector Nb28-AviTag-pAC6 for Nb-AviTag was constructed, followed by transformation to the AVB101 cells for antibody expression and in vivo biotinylation. The purified Nb28-AviTag was used to establish the BA-ELISA and the procedures for this Nb-AviTag-based BA-ELISA were optimized. The Nb-AviTag-based BA-ELISA exhibited the half maximal inhibitory concentration (IC50) of 0.14 ng mL-1 and the limit of detection (LOD = IC10) of 0.028 ng mL-1 for OTA basing on the optimized experiment parameters. The assay sensitivity was improved 4.6 times and 4.3 times compared to Nb-based ELISA, respectively. This method had LODs of 1.4 µg kg-1 in barley, 0.56 µg kg-1 in oats, and 0.84 µg kg-1 in rice for OTA. The average recovery percent was in a range of 84-137%, and the relative standard derivation percent ranged from 0.64% to 7.8%. The content of OTA in contaminated cereal samples was determined by both the developed Nb-AviTag-based method and liquid chromatography-tandem mass spectrometry (LC-MS/MS). The results demonstrated that the Nb-AviTag was a robust and promising bioreceptor in highly sensitive detection of OTA and other low molecular weight compounds using BA system.