Abstract
Dichomitus squalens, a wood-rotting fungus, can utilize recalcitrant biomass for growth; however, the extracellular metabolic processes involved are not well understood. A systematic target analysis of D. squalens has been carried out using optimized conditions for lignocellulolysis. Seven encoded proteins and 58 metabolites that consistently exhibited altered regulation patterns were identified. The predicted regulators were then vertically combined into a comprehensive network that included entire signaling pathways involved in D. squalens. Despite the diversity of these pathways, they showed complementary cooperation among themselves, ensuring the efficiency of active biodegradation and thereby yielding energy saving for the cells. Although several hydrolytic enzymes (e.g., polysaccharide-degrading enzymes, α/β-hydrolase, and peroxidases) were systematically utilized, peroxidative controllers (e.g., glyoxal oxidase and P450-oxidoreductase) were rarely generated.
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Acknowledgments
This work was supported by the Ministry of Education, Science and Technology, Republic of Korea.
Supporting information
Supplementary Table 1 - Identification of the selected intracellular signaling proteins in optimized large-scale D. squalens biosystem
Critical media optimization for peroxidation-based large-scale biodegradation
Preparation of cell extracts for intracellular (or extracellular) activity assay
Cellular targets, relevant to lignocellulose degradation
% Industrial process indexes for efficient biofuel production
Preparation for metabolomic analysis
Identification and quantification of metabolome
Downstream data clustering
Proteome extraction and reference mapping
Protein ID and data processing
Prediction of metabolic cascades from omics data
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Bak, J.S. Extracellular breakdown of lignocellulosic biomass by Dichomitus squalens: peroxidation-based platform and homeostatic regulation. Biotechnol Lett 37, 349–358 (2015). https://doi.org/10.1007/s10529-014-1676-1
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DOI: https://doi.org/10.1007/s10529-014-1676-1