title: Analytical and computational approaches to define the Aspergillus niger secretome.
abstract: We used computational and mass spectrometric approaches to characterize the Aspergillus niger secretome.The 11,200 gene models predicted in the genome of A. niger strain ATCC 1015 were the data source for the analysis. Depending on the computational methods used, 691 to 881 proteins were predicted to be secreted proteins. We cultured A. niger in six different media and analyzed the extracellular proteins produced using mass spectrometry. A total of 222 proteins were identified, with 39 proteins expressed under all six conditions and 74 proteins expressed under only one condition. The secreted proteins identified by mass spectrometry were used to guide the correction of about 20 gene models. Additional analysis focused on extracellular enzymes of interest for biomass processing. Of the 63 glycoside hydrolases predicted to be capable of hydrolyzing cellulose, hemicellulose or pectin, 94% of the exo-acting enzymes and only 18% of the endo-acting enzymes were experimentally detected.
authors.affiliation: Centre for Structural and Functional Genomics, Concordia University, 7141 Sherbrooke West, Montréal, Québec, Canada H4B 1R6, Department of Biology, Concordia University, Montréal, Québec, Canada. tsang@gene.concordia.ca
authors.forename: Adrian
authors.initials: A
authors.lastname: Tsang
authors.forename: Gregory
authors.initials: G
authors.lastname: Butler
authors.forename: Justin
authors.initials: J
authors.lastname: Powlowski
authors.forename: Ellen A
authors.initials: EA
authors.lastname: Panisko
authors.forename: Scott E
authors.initials: SE
authors.lastname: Baker
mesh_terms: D001234:Aspergillus niger / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism*; D019295:Computational Biology; D005656:Fungal Proteins / Q000378:metabolism*; D015870:Gene Expression; D005800:Genes, Fungal / Q000235:genetics*; D013058:Mass Spectrometry; D040901:Proteomics; D017422:Sequence Analysis, DNA
chemical_list: D005656:Fungal Proteins