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11 results on '"de Jong, Jan F."'

4. Post-genomic insights into the plant polysaccharide degradation potential of Aspergillus nidulans and comparison to Aspergillus niger and Aspergillus oryzae

Author

Coutinho, Pedro M, Andersen, Mikael R, Kolenova, Katarina, vanKuyk, Patricia A, Benoit, Isabelle, Gruben, Birgit S, Trejo-Aguilar, Blanca, Visser, Hans, van Solingen, Piet, Pakula, Tiina, Seiboth, Bernard, Battaglia, Evy, Aguilar-Osorio, Guillermo, de Jong, Jan F, Ohm, Robin A, Aguilar, Mariana, Henrissat, Bernard, Nielsen, Jens, Stålbrand, Henrik, and de Vries, Ronald P

Subjects
Genome, Aspergillus oryzae, Gene Expression Profiling, Genes, Fungal, Molecular Sequence Data, Computational Biology, Aspergillus nidulans, Enzymes, Substrate Specificity, Open Reading Frames, Polysaccharides, Amino Acid Sequence, Aspergillus niger, Promoter Regions, Genetic
Abstract

The plant polysaccharide degradative potential of Aspergillus nidulans was analysed in detail and compared to that of Aspergillus niger and Aspergillus oryzae using a combination of bioinformatics, physiology and transcriptomics. Manual verification indicated that 28.4% of the A. nidulans ORFs analysed in this study do not contain a secretion signal, of which 40% may be secreted through a non-classical method.While significant differences were found between the species in the numbers of ORFs assigned to the relevant CAZy families, no significant difference was observed in growth on polysaccharides. Growth differences were observed between the Aspergilli and Podospora anserina, which has a more different genomic potential for polysaccharide degradation, suggesting that large genomic differences are required to cause growth differences on polysaccharides. Differences were also detected between the Aspergilli in the presence of putative regulatory sequences in the promoters of the ORFs of this study and correlation of the presence of putative XlnR binding sites to induction by xylose was detected for A. niger. These data demonstrate differences at genome content, substrate specificity of the enzymes and gene regulation in these three Aspergilli, which likely reflect their individual adaptation to their natural biotope.

Published
2009

6. Genome sequence of the model mushroom Schizophyllum commune

Author

Ohm, Robin A, primary, de Jong, Jan F, additional, Lugones, Luis G, additional, Aerts, Andrea, additional, Kothe, Erika, additional, Stajich, Jason E, additional, de Vries, Ronald P, additional, Record, Eric, additional, Levasseur, Anthony, additional, Baker, Scott E, additional, Bartholomew, Kirk A, additional, Coutinho, Pedro M, additional, Erdmann, Susann, additional, Fowler, Thomas J, additional, Gathman, Allen C, additional, Lombard, Vincent, additional, Henrissat, Bernard, additional, Knabe, Nicole, additional, Kües, Ursula, additional, Lilly, Walt W, additional, Lindquist, Erika, additional, Lucas, Susan, additional, Magnuson, Jon K, additional, Piumi, François, additional, Raudaskoski, Marjatta, additional, Salamov, Asaf, additional, Schmutz, Jeremy, additional, Schwarze, Francis W M R, additional, vanKuyk, Patricia A, additional, Horton, J Stephen, additional, Grigoriev, Igor V, additional, and Wösten, Han A B, additional

Published
2010
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11. Post-genomic insights into the plant polysaccharide degradation potential of Aspergillus nidulans and comparison to Aspergillus niger and Aspergillus oryzae.

Author

Coutinho PM, Andersen MR, Kolenova K, vanKuyk PA, Benoit I, Gruben BS, Trejo-Aguilar B, Visser H, van Solingen P, Pakula T, Seiboth B, Battaglia E, Aguilar-Osorio G, de Jong JF, Ohm RA, Aguilar M, Henrissat B, Nielsen J, Stålbrand H, and de Vries RP

Subjects
Amino Acid Sequence, Aspergillus nidulans growth & development, Aspergillus nidulans metabolism, Aspergillus niger growth & development, Aspergillus niger metabolism, Aspergillus oryzae growth & development, Aspergillus oryzae metabolism, Computational Biology, Gene Expression Profiling, Genes, Fungal, Genome, Molecular Sequence Data, Open Reading Frames, Promoter Regions, Genetic genetics, Substrate Specificity, Aspergillus nidulans genetics, Aspergillus niger genetics, Aspergillus oryzae genetics, Enzymes genetics, Polysaccharides metabolism
Abstract

The plant polysaccharide degradative potential of Aspergillus nidulans was analysed in detail and compared to that of Aspergillus niger and Aspergillus oryzae using a combination of bioinformatics, physiology and transcriptomics. Manual verification indicated that 28.4% of the A. nidulans ORFs analysed in this study do not contain a secretion signal, of which 40% may be secreted through a non-classical method.While significant differences were found between the species in the numbers of ORFs assigned to the relevant CAZy families, no significant difference was observed in growth on polysaccharides. Growth differences were observed between the Aspergilli and Podospora anserina, which has a more different genomic potential for polysaccharide degradation, suggesting that large genomic differences are required to cause growth differences on polysaccharides. Differences were also detected between the Aspergilli in the presence of putative regulatory sequences in the promoters of the ORFs of this study and correlation of the presence of putative XlnR binding sites to induction by xylose was detected for A. niger. These data demonstrate differences at genome content, substrate specificity of the enzymes and gene regulation in these three Aspergilli, which likely reflect their individual adaptation to their natural biotope.

Published
2009
Full Text
View/download PDF

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