biostudies-literatureUnknown2025Khwathisi AProkaryotic organisms rely on a limited array of metabolites for survival, which varies according to their natural environment. For example, soil-borne bacteria produce diverse metabolites, such as antibiotics, to thrive in their competitive surroundings, inhibiting the growth of nearby competing bacteria. The structural diversity of these compounds offers great analytical challenges, since there is no universal acquisition setting that can be applied to achieve their comprehensive coverage. Therefore, the use of a single experimental setup inevitably hinders the comprehensive metabolite coverage, which would affect the outputs. To address this, we propose employing a design of experiment (DoE) approach through the central composite design (CCD) to enhance the metabolite detection and broaInternational journal of microbiology4388417https://www.ebi.ac.uk/biostudies/studies/S-EPMC12303636biostudies-literatureMultiparametric Optimization of Data-Dependent Acquisition Towards More Holistic Bacterial Metabolite Coverage Through Molecular Networking.PMC12303636Samie AKhwathisi AMadala NETraore ANfalseMultiparametric Optimization of Data-Dependent Acquisition Towards More Holistic Bacterial Metabolite Coverage Through Molecular Networking.Prokaryotic organisms rely on a limited array of metabolites for survival, which varies according to their natural environment. For example, soil-borne bacteria produce diverse metabolites, such as antibiotics, to thrive in their competitive surroundings, inhibiting the growth of nearby competing bacteria. The structural diversity of these compounds offers great analytical challenges, since there is no universal acquisition setting that can be applied to achieve their comprehensive coverage. Therefore, the use of a single experimental setup inevitably hinders the comprehensive metabolite coverage, which would affect the outputs. To address this, we propose employing a design of experiment (DoE) approach through the central composite design (CCD) to enhance the metabolite detection and broa2025-01-01T00:00:00Z20252026-03-27T16:08:06.633Z2025-08-30T03:05:19.148ZS-EPMC123036364072730510.1155/ijm/4388417