PGfinder, a novel analysis pipeline for the consistent, reproducible and high-resolution structural analysis of bacterial peptidoglycans
PGfinder, a novel analysis pipeline for the consistent, reproducible and high-resolution structural analysis of bacterial peptidoglycans
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PGfinder，一种新颖的分析管道，用于对细菌肽聚糖进行一致、可重复和高分辨率的结构分析
DOI：
10.1101/2021.06.01.446515
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发表时间：
2021
期刊：
影响因子：
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通讯作者：
Patel A
中科院分区：
文献类型：
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作者：
Patel A
许多软件解决方案可用于蛋白质组学和糖组学研究，但没有一个适合用于细菌细胞包膜的基本和主要成分肽聚糖 (PG) 的结构分析。它由聚糖链和肽茎组成，两者都含有不寻常的氨基酸和糖。这迫使该领域不得不依赖手动分析方法，这种方法耗时、费力且容易出错。自动化工具的缺乏阻碍了执行高通量分析的能力，并阻碍了标准方法的采用。在这里，我们描述了一种名为 PGFinder 的新工具，用于分析 PG 结构，并证明它是量化 PG 片段和发现新结构特征的强大工具。我们的分析工作流程依赖于开放获取工具，是对细菌 PG 进行一致且可重复分析的突破。它代表了肽糖组学作为一门成熟学科的重大进步。
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.