Stannius Rune Overlund, Dunlap Christopher A, Morvan Estelle, Berbon Mélanie, Lecomte Sophie, Loquet Antoine, Kovács Ákos T
DTU Bioengineering, Technical University of Denmark, Kongens Lyngby, Denmark.
Institute of Biology Leiden, Leiden University, Leiden, Netherlands.
mSystems. 2025 Jul 22;10(7):e0075925. doi: 10.1128/msystems.00759-25. Epub 2025 Jul 3.
is widely studied in the microbial secondary metabolite (SM) field due to its rich variety of important natural products and genetic tractability. We report a pigment observed in soil isolate MB9_B4 on certain media. We characterize the conditions where this pigment is produced and identify the corresponding biosynthetic gene cluster (BGC) using a comparative genomic approach exploiting our strain collection containing other isolates with pigment production ability. The responsible BGC carried several genes, which were annotated as parts of the tryptophan biosynthesis pathway, possibly originating from duplication and divergence of originally primary metabolism. Identification of the pigment gene cluster additionally led to the discovery of additional pigment BGC carrier isolates, some of which were described at the earliest in 1896 under the name , referring to a characteristic dark pigmentation (the Latin "aterrimus" meaning very black). In addition, we employed solid-state nuclear magnetic resonance and Fourier transform infrared spectroscopies to characterize the chemical groups of the pigment. This study describes the chemical and biological features of a new class of SM BGC, which we hope will serve to improve the current BGC discovery pipelines in .IMPORTANCEIdentification of novel microbial secondary metabolites (SMs) and their biosynthetic gene cluster (BGC) has become increasingly difficult, especially in , as the tools for screening and genome mining are dependent on clear function or similarity to already known BGCs. Pigments are SMs identified by their absorption of visible light, resulting in a certain color perceived by our eyes at sufficient concentrations. Thereby, pigments provide evidence of a BGC without knowing the sequence or function. Expanding the known repertoire of SM BGCs with novel BGCs will further reinforce the identification of a broader set of BGCs by mining tools such as antiSMASH.
由于其丰富多样的重要天然产物和遗传易处理性,在微生物次级代谢产物(SM)领域得到了广泛研究。我们报告了在特定培养基上土壤分离株MB9_B4中观察到的一种色素。我们表征了产生这种色素的条件,并使用比较基因组方法鉴定了相应的生物合成基因簇(BGC),该方法利用了我们包含其他具有色素产生能力的分离株的菌株库。负责的BGC携带了几个基因,这些基因被注释为色氨酸生物合成途径的一部分,可能起源于原始初级代谢的复制和分化。色素基因簇的鉴定还导致发现了其他色素BGC载体分离株,其中一些最早在1896年以 之名被描述,指的是一种特征性的深色色素沉着(拉丁语“aterrimus”意为非常黑)。此外,我们采用固态核磁共振和傅里叶变换红外光谱来表征色素的化学基团。本研究描述了一类新型SM BGC的化学和生物学特征,我们希望这将有助于改进当前 的BGC发现流程。重要性鉴定新型微生物次级代谢产物(SMs)及其生物合成基因簇(BGC)变得越来越困难,尤其是在 ,因为筛选和基因组挖掘工具依赖于与已知BGC的明确功能或相似性。色素是通过吸收可见光来识别的SMs,在足够浓度下会使我们的眼睛感知到某种颜色。因此,色素在不知道序列或功能的情况下提供了BGC的证据。用新型BGC扩展已知的SM BGC库将进一步加强通过antiSMASH等挖掘工具对更广泛的BGC集的鉴定。