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BADASS: BActeriocin-Diversity ASsessment Software.

Sávio S Costa1, Gislenne da Silva Moia2, Artur Silva3

  • 1Parque de Ciência e Tecnologia Guamá, Laboratório de Engenharia Biológica, Belém, Pará, Brazil. savscosta@gmail.com.

BMC Bioinformatics
|January 20, 2023
PubMed
Summary

BADASS software analyzes bacteriocin diversity in whole-metagenome shotgun sequencing data. It identifies and quantifies bacteriocins, revealing lantibiotics as the most abundant type in tested datasets.

Keywords:
Antimicrobial peptidesBacteriocinMetagenome miningSoftware development

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Area of Science:

  • Microbiology
  • Bioinformatics

Background:

  • Bacteriocins are bacterial antimicrobial peptides with broad applications in medicine and food preservation.
  • Despite their potential, bacteriocins remain understudied.
  • Whole-metagenome shotgun sequencing (WMS) offers a powerful approach to explore microbial diversity.

Purpose of the Study:

  • To introduce BADASS, a user-friendly software for identifying and analyzing bacteriocin diversity in WMS data.
  • To provide a comprehensive pipeline for bacteriocin prospecting from raw sequencing reads.

Main Methods:

  • BADASS utilizes BLAST or DIAMOND with the BAGEL4 database for bacteriocin sequence identification.
  • Abundance is determined by comparing bacteriocin reads to 16S rRNA gene reads (SILVA database).
  • The software includes quality assessment and automated generation of richness and abundance plots.

Main Results:

  • BADASS successfully processed four WMS datasets using default parameters.
  • Lantibiotics were identified as the most abundant bacteriocin class across all datasets.
  • The results indicate Streptomyces species as common producers of lantibiotics.

Conclusions:

  • BADASS is an effective tool for bacteriocin discovery in WMS data due to its graphical interface and complete pipeline.
  • The software facilitates the exploration of bacteriocin diversity and abundance.
  • BADASS is publicly available for research use.