PXD002130 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization |
Description | Degradation of plant biomass to fermentable sugars is of critical importance for the use of plant materials for biofuels. Filamentous fungi are ubiquitous organisms and major plant biomass degraders. Single colonies of some fungal species can colonize massive areas as large as five soccer stadia.During growth, the mycelium encounters heterogeneous carbon sources. Here we assessed whether substrate heterogeneity is a major determinant of spatial gene expression in colonies of Aspergillus niger. We analyzed whole-genome gene expression in five concentric zones of 5-day-old colonies utilizing sugar beet pulp as a complex carbon source. Growth, protein production and secretion occurred throughout the colony. Genes involved in carbon catabolism and nitrate utilization were expressed uniformly from the centre to the periphery whereas genes encoding plant biomass degrading enzymes were expressed differentially across the colony. A combined adaptive response of carbon-catabolism and enzyme production to locally available monosaccharides was observed. Finally, our results demonstrate a fine-tuning of the different enzymatic tools available in A. niger and reveal how this fungus adapts as it colonizes complex environments. |
HostingRepository | PRIDE |
AnnounceDate | 2015-09-09 |
AnnouncementXML | Submission_2015-09-09_06:36:00.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Harm Post |
SpeciesList | scientific name: Aspergillus niger; NCBI TaxID: 5061; |
ModificationList | monohydroxylated residue; carbamoylated residue |
Instrument | LTQ Orbitrap |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2015-04-30 08:16:55 | ID requested | |
⏵ 1 | 2015-09-09 06:36:01 | announced | |
Publication List
Benoit I, Zhou M, Vivas Duarte A, Downes DJ, Todd RB, Kloezen W, Post H, Heck AJ, Maarten Altelaar AF, de Vries RP, Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization. Sci Rep, 5():13592(2015) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: Aspergillus niger, plant biomass degrading enzymes, spatial gene expression, heterogeneity |
sugar beet pulp |
Contact List
Ronald Peter de Vries |
contact affiliation | Fungal Physiology, CBS-KNAW Fungal Biodiversity Centre Institute of the Royal Netherlands Academy of Arts and Sciences(KNAW) Fungal Molecular Physiology, Utrecht University, The Netherlands |
contact email | r.devries@cbs.knaw.nl |
lab head | |
Harm Post |
contact affiliation | Biomolecular Mass Spectrometry and Proteomics Group |
contact email | h.post@uu.nl |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD002130
- Label: PRIDE project
- Name: Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization