Bioinformatics Tools for the Discovery of New Nonribosomal Peptides

Valérie Leclère, Tilmann Weber, Philippe Jacques, Maude Pupin

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

Abstract

This chapter helps in the use of bioinformatics tools relevant to the discovery of new nonribosomal peptides (NRPs) produced by microorganisms. The strategy described can be applied to draft or fully assembled genome sequences. It relies on the identification of the synthetase genes and the deciphering of the domain architecture of the nonribosomal peptide synthetases (NRPSs). In the next step, candidate peptides synthesized by these NRPSs are predicted in silico, considering the specificity of incorporated monomers together with their isomery. To assess their novelty, the two-dimensional structure of the peptides can be compared with the structural patterns of all known NRPs. The presented workflow leads to an efficient and rapid screening of genomic data generated by high throughput technologies. The exploration of such sequenced genomes may lead to the discovery of new drugs (i.e., antibiotics against multi-resistant pathogens or anti-tumors).
Original languageEnglish
Title of host publicationNonribosomal Peptide and Polyketide Biosynthesis : Methods and Protocols
Number of pages24
Volume1401
PublisherSpringer
Publication date2016
Pages209-232
Chapter14
ISBN (Print)978-1-4939-3373-0
ISBN (Electronic)978-1-4939-3375-4
DOIs
Publication statusPublished - 2016
SeriesMethods in Molecular Biology
ISSN1064-3745

Keywords

  • Antibiotic
  • Bioinformatics tools
  • Drug discovery
  • Genome mining
  • Nonribosomal
  • Peptide

Cite this

Leclère, V., Weber, T., Jacques, P., & Pupin, M. (2016). Bioinformatics Tools for the Discovery of New Nonribosomal Peptides. In Nonribosomal Peptide and Polyketide Biosynthesis: Methods and Protocols (Vol. 1401, pp. 209-232). Springer. Methods in Molecular Biology https://doi.org/10.1007/978-1-4939-3375-4_14