DOI: 10.5061/dryad.k44f0
title: Data from: Pangenome and immuno-proteomics analysis of Acinetobacter baumannii strains revealed the core peptide vaccine targets

description: Background: Acinetobacter baumannii has emerged as a significant
 nosocomial pathogen during the last few years, exhibiting resistance to
 almost all major classes of antibiotics. Alternative treatment options
 such as vaccines tend to be most promising and cost effective approaches
 against this resistant pathogen. In the current study, we have explored
 the pan-genome of A. baumannii followed by immune-proteomics and reverse
 vaccinology approaches to identify potential core vaccine targets.
 Results: The pan-genome of all available A. baumannii strains (30 complete
 genomes) is estimated to contain 7,606 gene families and the core genome
 consists of 2,445 gene families (~32 % of the pan-genome). Phylogenetic
 tree, comparative genomic and proteomic analysis revealed both intra- and
 inter genomic similarities and evolutionary relationships. Among the
 conserved core genome, thirteen proteins, including P pilus assembly
 protein, pili assembly chaperone, AdeK, PonA, OmpA, general secretion
 pathway protein D, FhuE receptor, Type VI secretion system OmpA/MotB, TonB
 dependent siderophore receptor, general secretion pathway protein D, outer
 membrane protein, peptidoglycan associated lipoprotein and peptidyl-prolyl
 cis-trans isomerase are identified as highly antigenic. Epitope mapping of
 the target proteins revealed the presence of antigenic surface exposed
 9-mer T-cell epitopes. Protein-protein interaction and functional
 annotation have shown their involvement in significant biological and
 molecular processes. The pipeline is validated by predicting already known
 immunogenic targets against Gram negative pathogen Helicobacter pylori as
 a positive control. Conclusion: The study, based upon combinatorial
 approach of pan-genomics, core genomics, proteomics and reverse
 vaccinology led us to find out potential vaccine candidates against A.
 baumannii. The comprehensive analysis of all the completely sequenced
 genomes revealed thirteen putative antigens which could elicit substantial
 immune response. The integration of computational vaccinology strategies
 would facilitate in tackling the rapid dissemination of resistant
 A.baumannii strains. The scarcity of effective antibiotics and the global
 expansion of sequencing data making this approach desirable in the
 development of effective vaccines against A. baumannii and other bacterial
 pathogens.
description: Evolutionary
 relationship of the Acinetobacter baumannii strains based on 16SrRNA
 sequences.The evolutionary history
 was inferred using the Neighbor joining method. 1000 bootstrap
 re-samplings were done to estimate the consensus tree. The optimal tree
 with a sum of branch length = 0.5833 is shown. The tree is drawn to scale
 with branch lengths in same units as those of evolutionary distances used
 to infer the phylogenetic tree. The evolutionary distances were computed
 using the maximum composite likelihood method and are in the units of the
 number of base substitutions per site. A) Illustrates the complete
 phylogenetic tree of all the included strains and B) shows the enhanced
 view of the selected clads. The strains like A. baumannii AYE, A.
 baumannii A1, A. baumannii 307-0294 all belonging to IC I fall in the same
 clade, indicating phylogenetically closeness to their clonal strains. A.
 baumannii D1279779 expressed as a separate branch of the tree, validating
 the unique properties of this strain in between IC I and IC II. Similarly
 strains belonging to IC II appeared in single clad, showing their close
 phylogenetic relationships.Figure
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