Jingxuan Qiu

• Tongji University

Background Norovirus (NoVs) is a foodborne pathogen that causes acute gastroenteritis. The diversity of its principal antigenic protein poses a significant challenge to vaccine development and the prevention of large-scale outbreaks globally. Currently, no licensed vaccines against norovirus have been approved. Methods We developed a novel pipelin...

Nuclear receptors (NRs) are a class of essential proteins that regulate the expression of specific genes and are associated with multiple diseases. In silico methods for prescreening potential NR binders with predictive binding ability are highly desired for NR-related drug development but are rarely reported. Here, we present the PbsNRs (Predictin...

Vaccine development is one of the most promising fields, and multi-epitope vaccine, which does not need laborious culture processes, is an attractive alternative to classical vaccines with the advantage of safety, and efficiency. The rapid development of algorithms and the accumulation of immune data have facilitated the advancement of computer-aid...

Phages can specifically recognize and kill bacteria, which lead to important application value of bacteriophage in bacterial identification and typing, livestock aquaculture and treatment of human bacterial infection. Considering the variety of human-infected bacteria and the continuous discovery of numerous pathogenic bacteria, screening suitable...

Bacteriophages can help the treatment of bacterial infections yet require in-silico models to deal with the great genetic diversity between phages and bacteria. Despite the tolerable prediction performance, the application scope of current approaches is limited to the prediction at the species level, which cannot accurately predict the relationship...

In this work, Co3Fe-MMOF nanoparticles with regular nanodiamond morphology were synthesized by a solvothermal method, and glutathione (GSH) was detected by a colorimetric method. By optimizing the Co3Fe-MMOF oxide mimetic enzyme system for the detection of GSH to determine the detection limit and anti-interference ability with a detection time of 1...

An efficient electrochemical sensor for the detection of chloramphenicol was prepared by using [email protected]@AuNPs composite. The electrochemical properties of [email protected]@AuNPs were evaluated by cyclic voltammetry and differential pulse voltammetry methods. Under the best conditions, the detection range of [email protected]@AuNPs was wid...

The rapid mutations on hemagglutinin (HA) of influenza A virus (IAV) can lead to significant antigenic variance and consequent immune mismatch of vaccine strains. Thus, rapid antigenicity evaluation is highly desired. The subtype-specific antigenicity models have been widely used for common subtypes such as H1 and H3. However, the continuous emergi...

In this work, a new oxidase mimic Ce-MOF was synthesized for the detection of H2O2. The Ce-MOF nanosphere as the oxidase mimic shows the highly catalytic chromogenic activity toward 3,3,5,5-tetramethylbenzidine. It was used instead of peroxidase mimics and H2O2 system for the colorimetric reaction, and this work provides a new highly sensitive and...

It is important to detect foodborne pathogens in food and water, such as Listeria monocytogenes (L.monocytrogenes), which can cause foodborne illness in people with compromised immune systems. Volatile organic compounds (VOC) and 3‑hydroxy-2-butanone (3H-2B) produced by L.monocytrogenes can be used as biomarkers for indirect detection of microbial...

This work is carried out by the synergy of Co/Ni-Bio-MOF and noble metal Au-doped coral-like ZrO2. A novel electrochemical aptamer sensor (aptasensor) for measuring kanamycin (Kan) was developed by using ZrO2@Au as an amplification platform for electrochemical aptasensors. ZrO2@Au was strategically used to significantly reduce the Differential Puls...

In the present work, a simple and sensitive colorimetric sensing strategy based on Cu-MOF nanosheet for the detection of cysteine (Cys) is developed. Cu-MOF can catalyze the color change of the H2O2-TMB detection system from colorless to blue, and produce an obvious UV absorption peak at 652 nm. In the presence of Cys, it can effectively inhibit th...

An effective matrix is very important for impact laser desorption/ionization mass spectrometry (LDI-MS), and the physicochemical properties of the matrix nanostructures can impact the LDI-MS performance. In this study, a simple and efficient single-nozzle electrospinning strategy using polystyrene (PS) spheres and polyvinyl pyrrolidone (PVP) to con...

A mesoporous In2O3@Au nanofiber was proposed for the electrochemical aptasensor for the detection of ampicillin (AMP). In this sensor, Au-modified In2O3 (In2O3@Au) was incubated with an aptamer (Apta), and the resulting electrode modification was integrated on the surface of the working electrode. Cyclic Voltammetry (CV), Differential Pulse Voltamm...

In this paper, mesoporous ZnO nanosheets were synthesized by the hydrothermal method using polystyrene-polyacrylic acid (PS-PAA) as the template. The morphology, structure, and composition of the samples were characterized by SEM, TEM, XRD, and XPS, and the physical properties of the samples were tested by N2 adsorption–desorption curve. The result...

The mixed semiconductor metal oxides as the gas sensor can enhance the sensitivity compared with the metal oxide respectively. In this study, the mesoporous ZnO@Co 3 O 4 nanosphere was prepared through the simple hydrothermal synthesis method of ZIF-L-Zn@Co, the cage construction of mesoporous ZnO@Co 3 O 4 nanosphere was remained unchanged after th...

In this work, the Staphylococcus aureus (S. aureus) was firstly used as a template coupled with PVP in electrospinning experiments, Sn²⁺ bonded with S. aureus and PVP to form nanofiber through electrospinning. Finally, we got the hierarchical mesoporous SnO2 nanotube after calcination of the nanofiber. The hierarchical mesoporous SnO2 nanotube as a...

In this paper, an electrochemical sensing platform based on gold nanoparticle modified carbon nanofiber ([email protected]) as working electrode is proposed for the high sensitivity and selective determination of metronidazole. Meanwhile, the sensor has a large linear response range from 0.1 to 2000 μM, the limit of detection for metronidazole (MNZ...

To overcome obstacles such as low response and poor selectivity of pure ZnO and SnO2 gas sensors, the ZnO@SnO2 sensor was synthesized by hydrothermal synthesis. The samples were characterized by XRD, XPS, SEM, HRTEM, N2 adsorption-desorption and other techniques. The results show that ZnO@SnO2 forms an n-n-type heterostructure and presents a double...

Drug-resistant cases of human immunodeficiency virus (HIV) nucleoside reverse transcriptase inhibitors (NRTI) are constantly accumulating due to the frequent mutations of the reverse transcriptase (RT). Predicting the potential drug resistance of HIV-1 NRTIs could provide instructions for the proper clinical use of available drugs. In this study, a...

Attenuated Listeria monocytogenes could be a potential vaccine vector for the immunotherapy of tumors or pathogens. However, the lack of reliable promoters has limited its ability to express foreign antigens. In the present study, 21 promoters were identified from Listeria monocytogenes through RNA-seq analysis under two pH conditions of pH 7.4 and...

In this work, we firstly developed a new method for the synthesis of hierarchical mesoporous hollow Ce-MOF nanosphere templated by diblock copolymer. The hierarchical hollow mesoporous Ce-MOF nanosphere as the oxidase mimic shows highly catalytic chromogenic activity toward 3,3,5,5-tetramethylbenzidine (TMB) without the presence of H2O2, and it can...

Since Helicobacter pylori (H. pylori) resistance to antibiotic regimens is increased, vaccination is becoming an increasingly important alternative therapy to control H. pylori infection. UreB, FlaA, AlpB, SabA, and HpaA proteins of H. pylori were previously proved to be used as candidate vaccine antigens. Here, we developed an engineered antigen b...

Attenuated Listeria monocytogenes ( L. monocytogenes ) could be used as a vaccine vector for immunotherapy of tumors or pathogens. However, the lack of reliable promoters limits its ability to express foreign antigens. In this work, 21 promoters from L. monocytogenes were identified by RNA-seq analysis under two conditions of pH 7.4 and pH 5.5. Bas...

Understanding the metabolic interactions between bacteria in natural habitat at the single-cell level and the contribution of individual cell to their functions is essential for exploring the dark matter of uncultured bacteria. The combination of Raman-activated cell sorting (RACS) and single-cell Raman spectra (SCRS) with unique fingerprint charac...

Rapid detection of food-borne pathogens in early food contamination is a permanent topic to ensure food safety and prevent public health problems. Raman spectroscopy, a label-free, highly sensitive and dependable technology has attracted more and more attention in the field of diagnosing food-borne pathogens in recent years. In the research, 15890...

Helicobacter pylori (H. pylori) is a gram-negative spiral bacterium that caused infections in half of the world’s population and had been identified as type I carcinogen by the World Health Organization. Compared with antibiotic treatment which could result in drug resistance, the vaccine therapy is becoming a promising immunotherapy option against...

In this study, a simple and efficient strategy for the construction of hydrangea-like mesoporous WO3 nanoflowers templated using diblock copolymer PS119-PtBA129 was developed. The nanoflower shows good gas sensing properties, especially for 3-hydroxy-2-butanone (3H-2B), which is the signature metabolite of Listeria monocytogenes (L. monocytogenes)....

In the present study, surface-enhanced Raman scattering-based lateral flow assay (SERS-LFA) strips were applied to promptly and sensitively detect Escherichia coli O157:H7 (E. coli O157:H7) to ensure food safety. The SERS nanotags were prepared by connecting peculiar monoclonal antibody (McAb) against E. coli O157:H7 directly onto the surfaces of g...

Attenuated Listeria monocytogenes (L. monocytogenes), which has unique advantages in presenting foreign antigens, was widely used in tumor immunotherapy research. As a live vaccine vector, attenuated L. monocytogenes was required to not only have certain invasiveness but also ensure safety, while the lack of different virulence factors may cause L....

Antigenicity measurement plays a fundamental role in vaccine design, which requires antigen selection from a large number of mutants. To augment traditional cross-reactivity experiments, computational approaches for predicting the antigenic distance between multiple protein antigens are highly valuable. The performance of in silico models relies he...

In this study, we have developed a simple and efficient single‐nozzle electrospinning strategy involving the phase separation of polystyrene and poly(vinylpyrrolidone) to construct cable‐like core–shell mesoporous SnO2 nanofibers. Compared with traditional multi‐axial electrospinning approaches to the synthesis of core–shell nanofibers, the single‐...

In this study, a simple and efficient strategy to prepare peanut-like mesoporous tungsten oxide using o-nonylic acid and triblock copolymer PtBA45PS92PEO117 as synergistic templates was developed. Compared to traditional methods for the synthesis of highly ordered mesoporous metal oxides using PS-PEO as a single template, synergistic templates can...

This paper was to investigate the interactions among Salmonella enteritidis, Lactobacillus plantarum, and Pseudomonas aeruginosa at four combinations of initial concentration. Firstly, fitting the growth curves to obtain growth parameters—lag time (λ), maximal growth rate ( μmax), initial concentration (N0), and maximum population density (Nmax) fo...

Listeria monocytogenes (LM) is a gram-positive facultative intracellular pathogen that could stimulate host to produce inflammatory response, cell-mediated immunity, and humoral immunity. In this study, an attenuated live vector vaccine for Aeromonas hydrophila (AH) named EGDeABdd-dat-ompW was successfully constructed using an attenuated vector nam...

Foodborne Staphylococcus aureus, including methicillin-resistant S. aureus (MRSA), is increasingly threatening human health. Pooled prevalence rates of S. aureus contamination have been extensively studied in retail food products in mainland China, but data regarding antibiotic resistance rates of S. aureus remain scattered. This study was designed...

In predictive microbiology, the study of the microbial lag phase, i.e., the time needed for bacteria to adapt to a new environment before multiplying, has received a great deal of attention in the research literature. The microbial lag phase is more difficult to estimate than the specific growth rate because the lag phase is impacted by the previou...

The Co3Fe-MMOF nanoparticles with regular nanodiamond morphology were synthesized by solvothermal method. Compared with the single metal MOF materials, the Co3Fe-MMOF nanoparticles shows the obviously peroxidase-like activity that can catalyze 3,3′,5,5′-tetramethyl-benzidine (TMB) to produce a yellow chromogenic reaction in the presence of H2O2. Po...

Foot-and-mouth disease virus (FMDV) is an antigenic-variable RNA virus that is responsible for the recurrence of foot-and-mouth disease in livestock and can be prevented and controlled using a vaccine with broad-spectrum protection. Current anti-genicity evaluation methods, which involve animal immunity experiments and serum preparation, are unable...

Emerging or re-emerging dengue virus (DENV) causes dengue fever epidemics globally. Current DENV serotypes are defined based on genetic clustering, while discrepancies are frequently observed between the genetic clustering and the antigenicity experiments. Rapid antigenicity determination of DENV mutants in high-throughput way is critical for vacci...

Major challenges in vaccine development include rapidly selecting or designing immunogens for raising cross-protective immunity against different intra-or inter-subtypic pathogens, especially for the newly emerging varieties. Here we propose a computational method, Conformational Epitope (CE)-BLAST, for calculating the antigenic similarity among di...

Nuclear receptors (NR) are a class of proteins that are responsible for sensing steroid and thyroid hormones and certain other molecules. In that case, NR have the ability to regulate the expression of specific genes and associated with various diseases, which make it essential drug targets. Approaches which can predict the inhibition ability of co...

Therapeutic antibodies are widely used for disease detection and specific treatments. However, as an exogenous protein, these antibodies can be detected by the human immune system and elicit a response that can lead to serious illnesses. Therapeutic antibodies can be engineered through antibody humanization, which aims to maintain the specificity a...

The rapid and consistent mutation of influenza requires frequent evaluation of antigenicity variation among newly emerged strains, during which several in-silico methods have been reported to facilitate the assays. In this paper, we designed a structure-based antigenicity scoring model instead of those sequence-based previously published. Protein s...

As an extension of the conventional quantitative structure activity relationship models, proteochemometric (PCM) modelling is a computational method that can predict the bioactivity relations between multiple ligands and multiple targets. Traditional PCM modelling includes three essential elements: descriptors (including target descriptors, ligand...

Mutations of the influenza virus lead to antigenic changes that cause recurrent epidemics and vaccine resistance. Preventive measures would benefit greatly from the ability to predict the potential distribution of new antigenic sites in future strains. By leveraging the extensive historical records of HA sequences for 90 years, we designed a comput...

Despite the high specificity between antigen and antibody binding, similar epitopes can be recognized or cross-neutralized by paratopes of antibody with different binding affinities. How to accurately characterize this slight variation which may or may not change the antigen-antibody binding affinity is a key issue in this area. In this report, by...

Spatial Epitope Prediction server for Protein Antigens (SEPPA) has received lots of feedback since being published in 2009. In this improved version, relative ASA preference of unit patch and consolidated amino acid index were added as further classification parameters in addition to unit-triangle propensity and clustering coefficient which were pr...