Université de Lille, Université de Liège, UMRt BioEcoAgro 1158-INRAE, Métabolites Secondaires d'Origine Microbienne, Charles Viollette Institute, Lille, France.
Agence de la transition écologique (ADEME), Angers, France.
Microbiol Spectr. 2022 Dec 21;10(6):e0145622. doi: 10.1128/spectrum.01456-22. Epub 2022 Oct 26.
Pseudomonas spp. colonize diverse aquatic and terrestrial habitats and produce a wide variety of secondary metabolites, including lipopeptides. However, previous studies have often examined a limited number of lipopeptide-producing strains. In this study, we performed a systematic analysis of lipopeptide production across a wide data set of strains of the Pseudomonas syringae complex (724) by using a combined bioinformatics, mass spectrometry, and phylogenetics approach. The large P. syringae complex, which is composed of 13 phylogroups, is known to produce factins (including syringafactin-like lipopeptides), mycins (including syringomycin-like lipopeptides), and peptins (such as syringopeptins). We found that 80.8% of P. syringae strains produced lipopeptides and that factins were the most frequently produced (by 96% of the producing strains). P. syringae strains were either factin monoproducers or factin, mycin, and peptin coproducers or lipopeptide nonproducers in relation to their phylogenetic group. Our analyses led to the discovery of 42 new lipopeptides, bringing the number of lipopeptides identified in the P. syringae complex to 75. We also highlighted that factins have high structural resemblance and are widely distributed among the P. syringae complex, while mycins and peptins are highly structurally diverse and patchily distributed. This study provides an insight into the P. syringae metabolome that emphasizes the high diversity of lipopeptides produced within the P. syringae complex. The production profiles of strains are closely related to their phylogenetic classification, indicating that structural diversification of lipopeptides parallels the phylogeny of this bacterial complex, thereby further illustrating the inherent importance of lipopeptides in the ecology of this group of bacteria throughout its evolutionary history. Furthermore, this overview of P. syringae lipopeptides led us to propose a refined classification that could be extended to the lipopeptides produced by other bacterial groups.
铜绿假单胞菌定殖于多种水生和陆生栖息地，并产生多种次生代谢物，包括脂肽。然而，以前的研究通常只检查了有限数量的产脂肽菌株。在这项研究中，我们通过使用生物信息学、质谱和系统发育学相结合的方法，对铜绿假单胞菌复合体（724 株）的广泛菌株数据集中的脂肽产生进行了系统分析。由 13 个谱系组成的大型铜绿假单胞菌复合体已知会产生类物（包括 syringafactin 样脂肽）、霉素（包括 syringomycin 样脂肽）和肽（如 syringopeptins）。我们发现 80.8%的铜绿假单胞菌菌株产生脂肽，而类物是最常产生的（产生的菌株中有 96%）。铜绿假单胞菌菌株根据其系统发育群与类物单产菌、类物、霉素和肽共产菌或脂肽非产菌有关。我们的分析导致发现了 42 种新的脂肽，使铜绿假单胞菌复合体中鉴定的脂肽数量达到 75 种。我们还强调，类物在结构上具有高度相似性，广泛分布于铜绿假单胞菌复合体中，而霉素和肽在结构上高度多样化且分布不均。 这项研究深入了解了铜绿假单胞菌的代谢组学，强调了铜绿假单胞菌复合体中产生的脂肽的高度多样性。菌株的产生谱与其系统发育分类密切相关，表明脂肽的结构多样化与该细菌复合体的系统发育平行，从而进一步说明了脂肽在该细菌群整个进化历史中的生态中的固有重要性。此外，对铜绿假单胞菌脂肽的概述使我们提出了一个可以扩展到其他细菌群产生的脂肽的精细分类。
