Dereplication and de novo sequencing of nonribosomal peptides

peer-reviewed · Nature Methods · 2009

peer-reviewed · Nature Methods · 2009. Julio Ng et al. Nonribosomal peptides (NRPs) are of great pharmacological importance, but there is currently no technology…
Date 2009-08-01
Type peer-reviewed
Venue Nature Methods
Publisher Springer Science and Business Media LLC
Contribution algorithm
DOI 10.1038/nmeth.1350
Citations (OpenAlex) 85
Venue 2-year citedness 22.29

Abstract

Nonribosomal peptides (NRPs) are of great pharmacological importance, but there is currently no technology for high-throughput NRP ‘dereplication’ and sequencing. We used multistage mass spectrometry followed by spectral alignment algorithms for sequencing of cyclic NRPs. We also developed an algorithm for comparative NRP dereplication that establishes similarities between newly isolated and previously identified similar but nonidentical NRPs, substantially reducing dereplication efforts.

Authors

  1. Julio Ng · University of California San Diego
  2. Nuno Bandeira · University of California San Diego, University of California System
  3. Wei-Ting Liu · University of California San Diego
  4. Majid Ghassemian · University of California San Diego
  5. Thomas L Simmons · University of California San Diego
  6. William H Gerwick · University of California San Diego
  7. Roger Linington · University of California Santa Cruz
  8. Pieter C. Dorrestein · Scripps Institution of Oceanography, University of California San Diego, University of California System
  9. Pavel A. Pevzner · Max Planck Institute of Molecular Cell Biology and Genetics, Saint Petersburg Academic University, St Petersburg University, St. Petersburg State University, University of California San Diego, University of Southern California

Methods and tools

  • NRP dereplication and sequencing: Sequences cyclic nonribosomal peptides from multistage mass spectrometry by spectral alignment, and dereplicates them comparatively against known NRPs. The first high-throughput route to a compound class with no genome to search and considerable pharmacological interest.

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