Conservation analysis of dengue virus T-cell epitope-based vaccine candidates using Peptide block entropy.

Frontiers in Immunology
Lars Rønn OlsenVladimir Brusic

Abstract

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 tha...Continue Reading

Citations

Oct 20, 2012·Applied Microbiology and Biotechnology·Yanping TianZongtao Chen
Jul 22, 2014·BioMed Research International·Guang Lan ZhangVladimir Brusic
Oct 27, 2014·Cancer Immunology, Immunotherapy : CII·Lars Rønn OlsenMads Hald Andersen
Feb 11, 2015·Human Vaccines & Immunotherapeutics·Joseph D ComberRamila Philip
Mar 18, 2015·Journal of Medical Virology·Zhiliang DuanJinsheng Wen
Sep 5, 2013·Journal of Immunological Methods·Lars Rønn OlsenVladimir Brusic
Sep 22, 2020·PLoS Neglected Tropical Diseases·Syed Faraz AhmedMatthew R McKay

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