PdPANA: phagemid display as peptide array for neutralizing antibodies, an engineered in silico vaccine candidate against COVID-19 DOI Creative Commons

Javier Uzcátegui,

Khaleel Mullah,

Daniel Buvat de Virgini

et al.

Frontiers in Systems Biology, Journal Year: 2024, Volume and Issue: 4

Published: June 17, 2024

The COVID-19 pandemic has tested the technical, scientific, and industrial resources of all countries worldwide. Faced with absence pharmacological strategies against disease, an effective plan for vaccinating SARS-CoV-2 been essential. Due to lack production means necessary infrastructure, only a few nations could adequately confront this pathogen production, storage, distribution scheme in place. This disease become endemic many countries, especially those that are developing, thus necessitating solutions tailored their reality. In paper, we propose silico method guide design towards thermally stable, universal, efficient, safe vaccine candidate using bioinformatics, immunoinformatics, molecular modeling approaches selection antigens higher immunogenic potential, incorporating them into surface M13 phage. Our work focused on phagemid display as peptide array neutralizing antibodies (PdPANA). alternative approach might be useful during development process, since it bring improvements terms cost-effectiveness durability, ease under less stringent thermal conditions compared existing methods. results suggest heavily glycosylated region Spike protein (aa 344–583), from its inter-glycosylated regions, antigenic peptides can obtained used system. PdPANA, our proposed overcome classic shortcoming posed by phage-display technique (i.e., time-consuming task vitro screening through great sized libraries non-useful recombinant proteins) obtain most ideal proteins purposes.

Language: Английский

A Comprehensive Review on Phage Therapy and Phage-Based Drug Development DOI Creative Commons
Longzhu Cui, Shinya Watanabe, Kazuhiko Miyanaga

et al.

Antibiotics, Journal Year: 2024, Volume and Issue: 13(9), P. 870 - 870

Published: Sept. 11, 2024

Phage therapy, the use of bacteriophages (phages) to treat bacterial infections, is regaining momentum as a promising weapon against rising threat multidrug-resistant (MDR) bacteria. This comprehensive review explores historical context, modern resurgence phage and phage-facilitated advancements in medical technological fields. It details mechanisms action applications phages treating MDR particularly those associated with biofilms intracellular pathogens. The further highlights innovative uses vaccine development, cancer gene delivery vectors. Despite its targeted efficient approach, therapy faces challenges related stability, immune response, regulatory approval. By examining these areas detail, this underscores immense potential remaining hurdles integrating phage-based therapies into practices.

Language: Английский

Citations

16
Phage-based delivery systems: engineering, applications, and challenges in nanomedicines DOI Creative Commons
Hui Wang, Ying Yang,

Yan Xu

et al.

Journal of Nanobiotechnology, Journal Year: 2024, Volume and Issue: 22(1)

Published: June 25, 2024

Abstract Bacteriophages (phages) represent a unique category of viruses with remarkable ability to selectively infect host bacteria, characterized by their assembly from proteins and nucleic acids. Leveraging exceptional biological properties modifiable characteristics, phages emerge as innovative, safe, efficient delivery vectors. The potential drawbacks associated conventional nanocarriers in the realms drug gene include lack cell-specific targeting, cytotoxicity, diminished vivo transfection efficiency. In contrast, engineered phages, when employed cargo vectors, hold promise surmount these limitations attain enhanced efficacy. This review comprehensively outlines current strategies for engineering delineates principal types utilized delivery, explores application phage-based systems disease therapy. Additionally, an incisive analysis is provided, critically examining challenges confronted within domain nanotechnology. primary objective this article furnish theoretical reference that contributes reasoned design development potent systems. Graphical abstract

Language: Английский

Citations

12
Identification of Natural Lead Compounds against Hemagglutinin-Esterase Surface Glycoprotein in Human Coronaviruses Investigated via MD Simulation, Principal Component Analysis, Cross-Correlation, H-Bond Plot and MMGBSA DOI Creative Commons
Iqra Ali, Muhammad Asif Rasheed, Simona Cavalu

et al.

Biomedicines, Journal Year: 2023, Volume and Issue: 11(3), P. 793 - 793

Published: March 6, 2023

The pandemic outbreak of human coronavirus is a global health concern that affects people all ages and genders, but there currently still no effective, approved potential drug against coronavirus, as many other vaccines have serious side effects while the development small antiviral inhibitors has gained tremendous attention. For this research, HE was used therapeutic target, spike protein displays high binding affinity for both host ACE2 viral glycoprotein. Molecular docking, pharmacophore modelling virtual screening 38,000 natural compounds were employed to find out best inhibitor coronaviruses with more efficiency fewer further evaluated via MD simulation, PCA, DCCR MMGBSA. lead compound 'Calceolarioside B' identified on basis pharmacophoric features which depict favorable (ΔGbind -37.6799 kcal/mol) HE(5N11) receptor describes positive correlation movements in active site residues better stability, robust H-bond network, compactness reliable ADMET properties. Fraxinus sieboldiana Blume plant containing Calceolarioside B could be shows higher efficacy potency effects. This research work will aid investigators testing identification chemicals are effective useful coronavirus.

Language: Английский

Citations

21
Advances and optimization strategies in bacteriophage therapy for treating inflammatory bowel disease DOI Creative Commons
Li Yang,

Xiao-meng Li,

Hao-yu Duan

et al.

Frontiers in Immunology, Journal Year: 2024, Volume and Issue: 15

Published: May 8, 2024

In the advancement of Inflammatory Bowel Disease (IBD) treatment, existing therapeutic methods exhibit limitations; they do not offer a complete cure for IBD and can trigger adverse side effects. Consequently, exploration novel therapies multifaceted treatment strategies provides patients with broader range options. Within framework IBD, gut microbiota plays pivotal role in disease onset through diverse mechanisms. Bacteriophages, as natural microbial regulators, demonstrate remarkable specificity by accurately identifying eliminating specific pathogens, thus holding promise. Although clinical trials have affirmed safety phage therapy, its efficacy is prone to external influences during storage transport, which may affect infectivity regulatory roles within microbiota. Improving stability precise dosage control bacteriophages—ensuring robustness consistent dosing, targeted delivery infection sites—is crucial. This review thoroughly explores latest developments inherent challenges, focusing on interaction between bacteriophages. It highlights bacteriophages’ potential microbiome modulators offering detailed insights into research bacteriophage encapsulation Particular attention paid functionality various carrier systems, especially regarding their protective properties ability colon-specific delivery. aims provide theoretical foundation using bacteriophages paving way enhanced regulation intestinal

Language: Английский

Citations

6
Bacteriophages in nature: recent advances in research tools and diverse environmental and biotechnological applications DOI
Monish Bisen,

Kusum Kharga,

Sakshi Mehta

et al.

Environmental Science and Pollution Research, Journal Year: 2024, Volume and Issue: 31(15), P. 22199 - 22242

Published: Feb. 27, 2024

Language: Английский

Citations

4
The Gut Virome and Human Health: From Diversity to Personalized Medicine DOI Creative Commons

Rahul Harikumar Lathakumari,

K.V. Leela,

Anusha Gopinathan

et al.

Engineering Microbiology, Journal Year: 2025, Volume and Issue: unknown, P. 100191 - 100191

Published: Feb. 1, 2025

Language: Английский

Citations

0
Characterisation of a colourimetric biosensor SapYZUM13@Mn3O4-NH2 reveals the mechanisms underlying its rapid and sensitive detection of viable Staphylococcus aureus in food DOI

Yeling Han,

Wenyuan Zhou,

Yuhong Wu

et al.

Food Chemistry, Journal Year: 2024, Volume and Issue: 457, P. 140189 - 140189

Published: June 22, 2024

Language: Английский

Citations

3
Interaction of Laurusides 1 and 2 with the 3C-like Protease (Mpro) from Wild-Type and Omicron Variant of SARS-CoV-2: A Molecular Dynamics Study DOI Open Access
Ida Autiero, Giovanni N. Roviello

International Journal of Molecular Sciences, Journal Year: 2023, Volume and Issue: 24(6), P. 5511 - 5511

Published: March 14, 2023

Laurus nobilis (bay laurel) is a natural source of biological compounds, and some its extracts phytocompounds are also endowed with antiviral activity toward the family severe acute respiratory syndrome (SARS)-associated β-coronaviruses. Some glycosidic laurel compounds such as laurusides were proposed inhibitors important protein targets SARS-CoV-2, which clearly recalls their potential anti-COVID-19 drugs. Due to frequent genomic variations β-coronaviruses consequent importance evaluating new drug candidate respect variants target β-coronavirus, we decided investigate at an atomistic level molecular interactions laurel-derived drugs 1 2 (L01 L02, respectively) well-conserved crucial target, 3C-like protease (Mpro), using enzymes both wild-type SARS-CoV-2 more recent Omicron variant. Thus, performed dynamic (MD) simulations laurusides—SARS-CoV-2 complexes deepen knowledge on stability interaction compare effects targeting among two variants. We found that mutation does not significantly impact lauruside binding L02 connects stably L01 in from variants, even though prevalently interact within same pocket. Although purely silico, current study highlights role bay specifically anti-coronavirus research shows Mpro, corroborating commitment functional food disclosing novel scenarios lauruside-based therapies.

Language: Английский

Citations

8
Molecular Understanding of ACE-2 and HLA-Conferred Differential Susceptibility to COVID-19: Host-Directed Insights Opening New Windows in COVID-19 Therapeutics DOI Open Access
Ihtisham Ul Haq, Katarzyna Krukiewicz,

Hamnah Tayyab

et al.

Journal of Clinical Medicine, Journal Year: 2023, Volume and Issue: 12(7), P. 2645 - 2645

Published: April 1, 2023

The genetic variants of HLAs (human leukocyte antigens) play a crucial role in the virus-host interaction and pathology COVID-19. not only influence T cell immune responses but also B by presenting variety peptide fragments invading pathogens. Peptide cocktail vaccines produced using various conserved HLA-A2 epitopes provoke substantial specific CD8+ experimental animals. HLA profiles vary among individuals trigger different cell-mediated COVID-19 infections. Those with HLA-C*01 HLA-B*44 are highly susceptible to disease. However, HLA-A*02:01, HLA-DR*03:01, HLA-Cw*15:02 alleles show resistance SARS infection. Understanding association susceptibility severity is important because it can help studying transmission its physiopathogenesis. B*44 allele pathways be studied gain insight into disease Therefore, integrating testing suggested ongoing pandemic, which will rapid identification populations worldwide possibly acclimate vaccine development. understanding correlation between SARS-CoV-2 critical opening new insights therapeutics, based on previous studies conducted.

Language: Английский

Citations

8
Revolutionizing Treatment Strategies for Autoimmune and Inflammatory Disorders: The Impact of Dipeptidyl-Peptidase 4 Inhibitors DOI Creative Commons
Kashif Rahim, Muhammad Shan, Ihtisham Ul Haq

et al.

Journal of Inflammation Research, Journal Year: 2024, Volume and Issue: Volume 17, P. 1897 - 1917

Published: March 1, 2024

DPP4 (Dipeptidyl-peptidase 4) a versatile protease, emerges as prominent player in soluble and membrane-bound forms.Its heightened expression has been intimately linked to the initiation severity of diverse autoimmune diseases, spanning rheumatoid arthritis, systemic lupus erythematosus, sclerosis (SSc), inflammatory bowel disease, diabetes, even SARS-CoV-2 infection.Operating co-stimulator T cell activity, propels proliferation by binding adenosine deaminase (ADA), thereby augmenting breakdown adenosine-an influential inhibitor proliferation.However, discovery wide range inhibitors shown promise alleviating these diseases' signs, symptoms, severity.The available have demonstrated significant effectiveness blocking activity.Based on characterization their mechanisms, three distinct groups identified: saxagliptin, alogliptin, sitagliptin, each representing different class.Elevated levels angiotensin-converting enzyme 2 (ACE2) are associated with producing various coronavirus peptidases.With its anti-inflammatory properties, Sitagliptin may assist COVID-19 patients preventing managing cytokine storms.This comprehensive review delves into burgeoning realm therapeutic interventions for diseases.With discerning focus efficacy, investigation sheds light remarkable capacity alleviate burdensome signs symptoms intricately conditions.

Language: Английский

Citations

1