Discovery of novel virulence mechanisms in Clostridium botulinum type A3 using genome-wide analysis

• Published in: Gene 2023-06, Vol.869, p.147402-147402, Article 147402
• Main Authors: Roja, B., Saranya, S., Chellapandi, P.
• Format: Article
• Language: English
• Subjects: Base Composition; Clostridium botulinum; Clostridium botulinum - genetics; Comparative genomics; Human botulism; Humans; Phylogenomics; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Systems biology; Virulence - genetics; Virulence mechanisms
• ISSN: 0378-1119; 1879-0038
• DOI: 10.1016/j.gene.2023.147402

•We described evolutionary relationships of Clostridium botulinum type A3 genome.•A3 genome is closely related subtype A1 genome but not shared accessory genes.•We identified 43 unique virulence and host defence genes from type A3 genome.•Extrachromosomal genetic elements contributed to exert virulence to this organism.•This organism has the ability to exert new virulence along with botulism toxin A3. Clostridium botulinum type A is a neurotoxin-producing, spore-forming anaerobic bacterium that causes botulism in humans. The evolutionary genomic context of this organism is not yet known to understand its molecular virulence mechanisms in the human intestinal tract. Hence, this study aimed to investigate the mechanisms underlying virulence and pathogenesis by comparing the genomic contexts across species, serotypes, and subtypes. A comparative genomic approach was used to analyze evolutionary genomic relationships, intergenomic distances, syntenic blocks, replication origins, and gene abundance with phylogenomic neighbors. Type A strains have shown genomic proximity to group I strains with distinct accessory genes and vary even within subtypes. Phylogenomic data showed that type C and D strains were distantly related to a group I and group II strains. Synthetic plots indicated that orthologous genes might have evolved from Clostridial ancestry to subtype A3 strains, whereas syntonic out-paralogs might have emerged between subtypes A3 and A1 through α-events. Gene abundance analysis revealed the key roles of genes involved in biofilm formation, cell–cell communication, human diseases, and drug resistance compared to the pathogenic Clostridia. Moreover, we identified 43 unique genes in the type A3 genome, of which 29 were involved in the pathophysiological processes and other genes contributed to amino acid metabolism. The C. botulinum type A3 genome contains 14 new virulence proteins that can provide the ability to confer antibiotic resistance, virulence exertion and adherence to host cells, the host immune system, and mobility of extrachromosomal genetic elements. The results of our study provide insight into the understanding of new virulence mechanisms to discover new therapeutics for the treatment of human diseases caused by type A3 strains.