Genome-Wide Subtraction Analysis and Reverse Vaccinology to Detect Novel Drug Targets and Potential Vaccine Candidates Against Ehrlichia chaffeensis

Sabzi, Samira; Shahbazi, Sepideh; Goodarzi, Narjes Noori; Jouriani, Fatemeh Haririzadeh; Habibi, Mehri; Bolourchi, Negin; Mirzaie, Amir; Badmasti, Farzad

doi:10.1007/s12010-022-04116-y

Cited by 11 publications

(6 citation statements)

References 66 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Reverse vaccinology has been used to identify such antigens as those used in the MenB vaccine against Neisseria meningitidis which represents a milestone in new vaccinology approaches ( Masignani et al., 2019 ). Reverse vaccinology has been used extensively to identify antigens from obligate intracellular bacteria and has identified components of secretion systems and their secreted effector proteins as novel antigens ( Khan et al., 2023 ; Sabzi et al., 2023 ). We are now in the era of rational vaccine design, which builds on reverse vaccinology with the addition of machine learning algorithms to identify antibody and T cell epitopes.…”

Section: Antigen Selectionmentioning

confidence: 99%

Section: Ehrlichia Spp Vaccinesmentioning

confidence: 99%

“…Another recent study used subtractive genomics and reverse vaccinology to identify surface exposed proteins with linear B cell epitopes ( Sabzi et al., 2023 ). A multi-epitope vaccine was designed and used in a C-ImmSim immunoreactivity simulation to demonstrate a strong Th1 response, however, this would also have to be demonstrated in animal models ( Sabzi et al., 2023 ). The influx of genome sequences for different E. chaffeensis strains will help in identifying antigens using subtractive genetics and reverse vaccinology to develop a safe and efficacious vaccine.…”

Section: Ehrlichia Spp Vaccinesmentioning

confidence: 99%

See 2 more Smart Citations

Vaccine development: obligate intracellular bacteria new tools, old pathogens: the current state of vaccines against obligate intracellular bacteria

van Schaik,

Fratzke,

Gregory

et al. 2024

Front. Cell. Infect. Microbiol.

View full text Add to dashboard Cite

Obligate intracellular bacteria have remained those for which effective vaccines are unavailable, mostly because protection does not solely rely on an antibody response. Effective antibody-based vaccines, however, have been developed against extracellular bacteria pathogens or toxins. Additionally, obligate intracellular bacteria have evolved many mechanisms to subvert the immune response, making vaccine development complex. Much of what we know about protective immunity for these pathogens has been determined using infection-resolved cases and animal models that mimic disease. These studies have laid the groundwork for antigen discovery, which, combined with recent advances in vaccinology, should allow for the development of safe and efficacious vaccines. Successful vaccines against obligate intracellular bacteria should elicit potent T cell memory responses, in addition to humoral responses. Furthermore, they ought to be designed to specifically induce strong cytotoxic CD8+ T cell responses for protective immunity. This review will describe what we know about the potentially protective immune responses to this group of bacteria. Additionally, we will argue that the novel delivery platforms used during the Sars-CoV-2 pandemic should be excellent candidates to produce protective immunity once antigens are discovered. We will then look more specifically into the vaccine development for Rickettsiaceae, Coxiella burnetti, and Anaplasmataceae from infancy until today. We have not included Chlamydia trachomatis in this review because of the many vaccine related reviews that have been written in recent years.

show abstract

Section: Antigen Selectionmentioning

confidence: 99%

Section: Ehrlichia Spp Vaccinesmentioning

confidence: 99%

Section: Ehrlichia Spp Vaccinesmentioning

confidence: 99%

See 1 more Smart Citation

Vaccine development: obligate intracellular bacteria new tools, old pathogens: the current state of vaccines against obligate intracellular bacteria

van Schaik,

Fratzke,

Gregory

et al. 2024

Front. Cell. Infect. Microbiol.

View full text Add to dashboard Cite

show abstract

“…In contrast to previous studies limited to one (Mandal and Sinha, 2021; Dineshkumar and Antony, 2022), or two computational methods (Subramanian et al, 2022), the present study employs a consensus approach from eight distinct computational tools, including Arti cial Intelligence (AI) and deep learning, to enhance the precision of protein location prediction. Recognizing the signi cance of cytoplasmic proteins as suitable targets for pathogens (Almeida et al, 2023;Sabzi et al, 2023), only proteins predicted to reside in the cytoplasm, as indicated by the consensus, were considered for subsequent analysis.…”

Section: Target Prioritization Protein Localization Predictionmentioning

confidence: 99%

Comparative Omics Analysis for Novel Target Discovery in Plant Pathogens: A Case Study for Magnaporthe oryzae

Luthfi,

Piapukiew,

Pandey

et al. 2023

Preprint

View full text Add to dashboard Cite

The central concern surrounding chemical pesticide application is its potential adverse effects on non-target organisms. For fungal pathogens, the search for specific targets has been complicated by the similarities in pathways shared between these pathogens and humans. We present a comprehensive strategy, integrating comparative omics and bioinformatics, to pinpoint precise targets for fungicides effective against the fungal pathogen Magnaporthe oryzae(M. oryzae), responsible for rice blast disease. Our approach involves subtractive metabolic pathways, homology screening and target prioritization. Through subtractive metabolic analysis, we identified three unique M. oryzaepathways, distinct from human and rice. Non-redundant protein sequences were subsequently subjected to BLASTP screening against human and rice, as well as other databases from diverse organisms. Target subcellular localization was predicted using eight tools, including Artificial Intelligence and a deep learning method. A comprehensive examination of biological processes was conducted, including gene expression, protein-protein interactions, network enrichment, broad-spectrum activity, and physicochemical analysis. Glutamate 5-kinase (G5K) emerged as the prime candidate for targeted fungicide development, promising progress in precision-oriented solutions.

show abstract

“…There has been a significant amount of research dedicated to the advancement of potent antimicrobial agents that can effectively combat the challenge of drug resistance in biofilms. These efforts involve various strategies, such as insilico drug design, the use of herbal compounds, the application of antimicrobial peptides, and the utilization of nanomaterial-based methods [10][11][12][13]. There are new treatments being developed for drug-resistant bacteria, and some of them involve using metallic and metal oxide nanoparticles (NPs), silver NPs (Ag NPs), gold NPs (Au NPs), and zinc oxide NPs (ZnO NPs) are among the most promising options [14,15].…”

Section: Introductionmentioning

confidence: 99%

Investigating the effects of zinc oxide and titanium dioxide nanoparticles on the formation of biofilm and persister cells in Klebsiella pneumoniae

Pourmehdiabadi,

Nobakht,

Hajjam Balajorshari

et al. 2023

J Basic Microbiol

View full text Add to dashboard Cite

The biofilm formation in klebsiella pneumoniae isolates poses a significant problem as it can result in treatment failure and the development of chronic infections. These biofilms act as protective barriers, rendering the bacteria resistant to antibiotics. Additionally, persister cells, which make up a small fraction of the bacterial population, have the ability to enter a dormant state after treatment with high doses of antibiotics. These persister cells play a crucial role in the high level of biofilm‐mediated tolerance to antibiotics. The present study aimed to investigate the impact of Zinc oxide (ZnO) and titanium dioxide (TiO2) nanoparticles on the formation of biofilm and persister cells in K. pneumoniae. The minimum inhibitory concentration (MIC) of colistin in K. pneumoniae ATCC 13883 was determined using the microdilution method. The formation of persister cells was evaluated by introducing sub‐MIC of colistin. Subsequently, the MIC of ZnO NPs and TiO2 NPs in these persister cells was assessed using the microdilution method. Furthermore, the effects of nanoparticles on the expression levels of biofilm‐associated genes were analyzed using real‐time polymer chain reaction (PCR). The MIC values for colistin, ZnO, and TiO2 were determined at 2, 12.5, and 6.25 μg/mL, respectively. In the presence of nanoparticles, biofilm formation decreased. Real‐time PCR results showed the messenger RNA (mRNA) level of mrkH and fimH were decreased and the expression of luxS and mazF were increased. Biofilm formation of K. pneumoniae ATCC 1383 was inhibited in response to nanoparticles. According to the results of the present study use of nanoparticles may help control multidrug‐resistant (MDR) infections in hospitalized patients.

show abstract

Genome-Wide Subtraction Analysis and Reverse Vaccinology to Detect Novel Drug Targets and Potential Vaccine Candidates Against Ehrlichia chaffeensis

Cited by 11 publications

References 66 publications

Vaccine development: obligate intracellular bacteria new tools, old pathogens: the current state of vaccines against obligate intracellular bacteria

Vaccine development: obligate intracellular bacteria new tools, old pathogens: the current state of vaccines against obligate intracellular bacteria

Comparative Omics Analysis for Novel Target Discovery in Plant Pathogens: A Case Study for Magnaporthe oryzae

Investigating the effects of zinc oxide and titanium dioxide nanoparticles on the formation of biofilm and persister cells in Klebsiella pneumoniae

Contact Info

Product

Resources

About