PGFinder, a novel analysis pipeline for the consistent, reproducible, and high-resolution structural analysis of bacterial peptidoglycans

Ankur V. Patel, Robert D. Turner, Aline Rifflet, Adelina E. Acosta-Martin, Andrew Nichols, Milena M. Awad, Dena Lyras, Ivo Gomperts Boneca, Marshall Bern, Mark O. Collins, Stéphane Mesnage

Research output: Contribution to journalArticleResearchpeer-review

3 Citations (Scopus)

Abstract

Many software solutions are available for proteomics and glycomics studies, but none are ideal for the structural analysis of peptidoglycan (PG), the essential and major component of bacterial cell envelopes. It icomprises glycan chains and peptide stems, both containing unusual amino acids and sugars. This has forced the field to rely on manual analysis approaches, which are time-consuming, labour-intensive, and prone to error. The lack of automated tools has hampered the ability to perform high-throughput analyses and prevented the adoption of a standard methodology. Here, we describe a novel tool called PGFinder for the analysis of PG structure and demonstrate that it represents a powerful tool to quantify PG fragments and discover novel structural features. Our analysis workflow, which relies on open-access tools, is a breakthrough towards a consistent and reproducible analysis of bacterial PGs. It represents a significant advance towards peptidoglycomics as a full-fledged discipline.

Original languageEnglish
Article numbere70597
Number of pages22
JournaleLife
Volume10
DOIs
Publication statusPublished - Sept 2021

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