Systems Approaches to Predict the Functions of Glycoside Hydrolases during the Life Cycle of <i>Aspergillus niger</i> Using Developmental Mutants ∆<i>brlA</i> and ∆<i>flbA</i>

<div><p>Background</p><p>The filamentous fungus <i>Aspergillus niger</i> encounters carbon starvation in nature as well as during industrial fermentations. In response, regulatory networks initiate and control autolysis and sporulation. Carbohydrate-active enzymes play an important role in these processes, for example by modifying cell walls during spore cell wall biogenesis or in cell wall degradation connected to autolysis.</p><p>Results</p><p>In this study, we used developmental mutants (<i>ΔflbA</i> and <i>ΔbrlA</i>) which are characterized by an aconidial phenotype when grown on a plate, but also in bioreactor-controlled submerged cultivations during carbon starvation. By comparing the transcriptomes, proteomes, enzyme activities and the fungal cell wall compositions of a wild type <i>A. niger</i> strain and these developmental mutants during carbon starvation, a global overview of the function of carbohydrate-active enzymes is provided. Seven genes encoding carbohydrate-active enzymes, including <i>cfcA</i>, were expressed during starvation in all strains; they may encode enzymes involved in cell wall recycling. Genes expressed in the wild-type during starvation, but not in the developmental mutants are likely involved in conidiogenesis. Eighteen of such genes were identified, including characterized sporulation-specific chitinases and An15g02350, member of the recently identified carbohydrate-active enzyme family AA11. Eight of the eighteen genes were also expressed, independent of FlbA or BrlA, in vegetative mycelium, indicating that they also have a role during vegetative growth. The <i>ΔflbA</i> strain had a reduced specific growth rate, an increased chitin content of the cell wall and specific expression of genes that are induced in response to cell wall stress, indicating that integrity of the cell wall of strain <i>ΔflbA</i> is reduced.</p><p>Conclusion</p><p>The combination of the developmental mutants <i>ΔflbA</i> and <i>ΔbrlA</i> resulted in the identification of enzymes involved in cell wall recycling and sporulation-specific cell wall modification, which contributes to understanding cell wall remodeling mechanisms during development.</p>