Banca de QUALIFICAÇÃO: TAYNÁ DA SILVA FIÚZA

Uma banca de QUALIFICAÇÃO de DOUTORADO foi cadastrada pelo programa.
STUDENT : TAYNÁ DA SILVA FIÚZA
DATE: 28/02/2022
TIME: 16:00
LOCAL: Google Meet
TITLE:

Computational Analysis of Prokaryote Epitope Conservation on IEDB

KEY WORDS:

Epitope conservation, bacteria, immunoinformatics

PAGES: 40
BIG AREA: Ciências Biológicas
AREA: Biologia Geral
SUMMARY:

The Immune Epitope Database (IEDB) gathers thousands of sequences corresponding to peptide and non-peptide epitopes cured from scientific publications. This gold-standard bank is used to validate computational methodologies around the world and contains sequences from more than four thousand species which are differently represented according to the bias of available studies. The combination of reverse vaccinology and pangenomics (or panproteomics) strategies exploits the selection of immunogenic peptides shared by different strains or species, enabling the generation of a protective immune response against a greater number of pathogens. To better interpret the results obtained by such approaches, it is necessary to analyze the degree of conservation of the curated and deposited epitopes in the IEDB. In this work we focused on the peptide sequences of epitopes of the fifteen best represented prokaryotic species in the immune bank. For this, a total of 951,749 epitopes were obtained from the IEDB, among which only those linear epitopes without chemical modifications in the amino acids were selected. After ranking according to the species of origin, we continued working with the following species: Mycobacterium tuberculosis (27204 epitopes), Streptococcus pyogenes (7470), Francisella tularensis (2688), Escherichia coli (1885), Bacillus anthracis (1828), Helicobacter pylori (1176), Clostridium tetani (1143), Bordetella pertussis (1035), Mycobacterium avium (825), Staphylococcus aureus (804), Burkholderia pseudomallei (770), Shigella flexneri (745), Chlamydia trachomatis (695), Borreliella burgdorferi (694), Listeria monocytogenes (642). The epitopes of each species were aligned against the proteomes of the respective lineages available at the National [American] Center for Biotechnology Information (NCBI) and those found in at least one protein of each lineage (identity >= 70%) had their proteins grouped, based on sequence similarity using the Pipeline for Pan-Genome Analysis (PGAP). The clusters generated are being analyzed for size, composition and distribution compared between those generated from epitopes cured as positive or negative by the IEDB.

BANKING MEMBERS:
Presidente - 1267860 - GUSTAVO ANTONIO DE SOUZA
Interno - 059.501.268-07 - JOSÉ MIGUEL ORTEGA - UFMG
Interno - 1507794 - RODRIGO JULIANI SIQUEIRA DALMOLIN