المؤلفون: Olsen, Lars Rønn, Zhang, Guang Lan, Keskin, Derin Benerci, Reinherz, Ellis Leonard, Brusic, Vladimir

مصطلحات موضوعية: antigenic diversity, epitope-based vaccines, immunoinformatics, polyvalent vaccines, reverse vaccinology, vaccine informatics

الوصف: Broad coverage of the pathogen population is particularly important when designing CD8+ T-cell epitope vaccines against viral pathogens. Traditional approaches are based on combinations of highly conserved T-cell epitopes. Peptide block entropy analysis is a novel approach for assembling sets of broadly covering antigens. Since T-cell epitopes are recognized as peptides rather than individual residues, this method is based on calculating the information content of blocks of peptides from a multiple sequence alignment of homologous proteins rather than using the information content of individual residues. The block entropy analysis provides broad coverage of variant antigens. We applied the block entropy analysis method to the proteomes of the four serotypes of dengue virus (DENV) and found 1,551 blocks of 9-mer peptides, which cover 99% of available sequences with five or fewer unique peptides. In contrast, the benchmark study by Khan et al. (2008) resulted in 165 conserved 9-mer peptides. Many of the conserved blocks are located consecutively in the proteins. Connecting these blocks resulted in 78 conserved regions. Of the 1551 blocks of 9-mer peptides 110 comprised predicted HLA binder sets. In total, 457 subunit peptides that encompass the diversity of all sequenced DENV strains of which 333 are T-cell epitope candidates. ; Version of Record

وصف الملف: application/pdf

العلاقة: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3341948/pdfTest/; Frontiers in Immunology; Olsen, Lars Rønn, Guang Lan Zhang, Derin B. Keskin, Ellis L. Reinherz, and Vladimir Brusic. 2011. Conservation analysis of dengue virus T-cell epitope-based vaccine candidates using peptide block entropy. Frontiers in Immunology 2:69.; http://nrs.harvard.edu/urn-3:HUL.InstRepos:10364593Test

الإتاحة: https://doi.org/10.3389/fimmu.2011.00069Test
http://nrs.harvard.edu/urn-3:HUL.InstRepos:10364593Test

المؤلفون: Yongqun He

المصدر: Frontiers in Cellular and Infection Microbiology, Vol 2 (2012)
Frontiers in Cellular and Infection Microbiology

مصطلحات موضوعية: Proteomics, Microbiology (medical), host immunity, Virulence Factors, Immunology, lcsh:QR1-502, Brucella Vaccine, Virulence, Review Article, Brucella, Bioinformatics, Microbiology, lcsh:Microbiology, 03 medical and health sciences, Gene interaction, vaccine, Animals, Humans, 030304 developmental biology, Comparative genomics, Antigens, Bacterial, 0303 health sciences, biology, 030306 microbiology, Intracellular parasite, pathogenesis, Reverse vaccinology, Immunity, Computational Biology, systems biology, Genomics, bioinformatics, biology.organism_classification, bacterial infections and mycoses, Virology, omics, 3. Good health, Infectious Diseases, Transcriptome

الوصف: Brucella is a Gram-negative, facultative intracellular bacterium that causes zoonotic brucellosis in humans and various animals. Out of ten classified Brucella species, B. melitensis, B. abortus, B. suis, and B. canis are pathogenic to humans. In the past decade, the mechanisms of Brucella pathogenesis and host immunity have been extensively investigated using the cutting edge systems biology and bioinformatics approaches. This article provides a comprehensive review of the applications of Omics (including genomics, transcriptomics, and proteomics) and bioinformatics technologies for the analysis of Brucella pathogenesis, host immune responses, and vaccine targets. Based on more than 30 sequenced Brucella genomes, comparative genomics is able to identify gene variations among Brucella strains that help to explain host specificity and virulence differences among Brucella species. Diverse transcriptomics and proteomics gene expression studies have been conducted to analyze gene expression profiles of wild type Brucella strains and mutants under different laboratory conditions. High throughput Omics analyses of host responses to infections with virulent or attenuated Brucella strains have been focused on responses by mouse and cattle macrophages, bovine trophoblastic cells, mouse and boar splenocytes, and ram buffy coat. Differential serum responses in humans and rams to Brucella infections have been analyzed using high throughput serum antibody screening technology. The Vaxign reverse vaccinology has been used to predict many Brucella vaccine targets. More than 180 Brucella virulence factors and their gene interaction networks have been identified using advanced literature mining methods. The recent development of community-based Vaccine Ontology and Brucellosis Ontology provides an efficient way for Brucella data integration, exchange, and computer-assisted automated reasoning.

الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::342013bde5d6f9dd5af7a9996f4251b1Test