Mapping the polysaccharide degradation potential of Aspergillus niger

Publication: Research - peer-reviewJournal article – Annual report year: 2012

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Mapping the polysaccharide degradation potential of Aspergillus niger. / Andersen, Mikael Rørdam; Giese, Malene; de Vries, Ronald P.; Nielsen, Jens.

In: B M C Genomics, Vol. 13, 2012.

Publication: Research - peer-reviewJournal article – Annual report year: 2012

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Andersen, Mikael Rørdam; Giese, Malene; de Vries, Ronald P.; Nielsen, Jens / Mapping the polysaccharide degradation potential of Aspergillus niger.

In: B M C Genomics, Vol. 13, 2012.

Publication: Research - peer-reviewJournal article – Annual report year: 2012

Bibtex

@article{a500874388ac48748802729446694304,
title = "Mapping the polysaccharide degradation potential of Aspergillus niger",
publisher = "BioMed Central Ltd.",
author = "Andersen, {Mikael Rørdam} and Malene Giese and {de Vries}, {Ronald P.} and Jens Nielsen",
year = "2012",
doi = "10.1186/1471-2164-13-313",
volume = "13",
journal = "B M C Genomics",
issn = "1471-2164",

}

RIS

TY - JOUR

T1 - Mapping the polysaccharide degradation potential of Aspergillus niger

A1 - Andersen,Mikael Rørdam

A1 - Giese,Malene

A1 - de Vries,Ronald P.

A1 - Nielsen,Jens

AU - Andersen,Mikael Rørdam

AU - Giese,Malene

AU - de Vries,Ronald P.

AU - Nielsen,Jens

PB - BioMed Central Ltd.

PY - 2012

Y1 - 2012

N2 - Background: The degradation of plant materials by enzymes is an industry of increasing importance. For sustainable production of second generation biofuels and other products of industrial biotechnology, efficient degradation of non-edible plant polysaccharides such as hemicellulose is required. For each type of hemicellulose, a complex mixture of enzymes is required for complete conversion to fermentable monosaccharides. In plant-biomass degrading fungi, these enzymes are regulated and released by complex regulatory structures. In this study, we present a methodology for evaluating the potential of a given fungus for polysaccharide degradation. Results: Through the compilation of information from 203 articles, we have systematized knowledge on the structure and degradation of 16 major types of plant polysaccharides to form a graphical overview. As a case example, we have combined this with a list of 188 genes coding for carbohydrate-active enzymes from Aspergillus niger, thus forming an analysis framework, which can be queried. Combination of this information network with gene expression analysis on mono-and polysaccharide substrates has allowed elucidation of concerted gene expression from this organism. One such example is the identification of a full set of extracellular polysaccharide-acting genes for the degradation of oat spelt xylan. Conclusions: The mapping of plant polysaccharide structures along with the corresponding enzymatic activities is a powerful framework for expression analysis of carbohydrate-active enzymes. Applying this network-based approach, we provide the first genome-scale characterization of all genes coding for carbohydrate-active enzymes identified in A. niger.

AB - Background: The degradation of plant materials by enzymes is an industry of increasing importance. For sustainable production of second generation biofuels and other products of industrial biotechnology, efficient degradation of non-edible plant polysaccharides such as hemicellulose is required. For each type of hemicellulose, a complex mixture of enzymes is required for complete conversion to fermentable monosaccharides. In plant-biomass degrading fungi, these enzymes are regulated and released by complex regulatory structures. In this study, we present a methodology for evaluating the potential of a given fungus for polysaccharide degradation. Results: Through the compilation of information from 203 articles, we have systematized knowledge on the structure and degradation of 16 major types of plant polysaccharides to form a graphical overview. As a case example, we have combined this with a list of 188 genes coding for carbohydrate-active enzymes from Aspergillus niger, thus forming an analysis framework, which can be queried. Combination of this information network with gene expression analysis on mono-and polysaccharide substrates has allowed elucidation of concerted gene expression from this organism. One such example is the identification of a full set of extracellular polysaccharide-acting genes for the degradation of oat spelt xylan. Conclusions: The mapping of plant polysaccharide structures along with the corresponding enzymatic activities is a powerful framework for expression analysis of carbohydrate-active enzymes. Applying this network-based approach, we provide the first genome-scale characterization of all genes coding for carbohydrate-active enzymes identified in A. niger.

KW - BIOTECHNOLOGY

KW - GENETICS

KW - ALPHA-L-ARABINOFURANOSIDASE

KW - FAMILY-3 BETA-GLUCOSIDASE

KW - TRANSCRIPTIONAL ACTIVATOR XLNR

KW - CELL-WALL POLYSACCHARIDES

KW - SITE-DIRECTED MUTAGENESIS

KW - PECTIN LYASE-A

KW - ENDO-POLYGALACTURONASE-II

KW - XYLAN DEGRADING ENZYMES

KW - FERULIC ACID ESTERASE

KW - 2 ENDOINULINASE GENES

U2 - 10.1186/1471-2164-13-313

DO - 10.1186/1471-2164-13-313

JO - B M C Genomics

JF - B M C Genomics

SN - 1471-2164

VL - 13

ER -