|
| Status |
Public on Feb 15, 2008 |
| Title |
A tri-species Aspergillus array (niger arrays) |
| Platform organisms |
Aspergillus niger; Aspergillus oryzae; Aspergillus nidulans |
| Sample organism |
Aspergillus niger |
| Experiment type |
Expression profiling by array
|
| Summary |
The full genome sequencing of the filamentous fungi Aspergillus nidulans, Aspergillus niger and Aspergillus oryzae has opened the possibilities for studying the cellular physiology of these fungi on a systemic level. As a tool to explore this, we are presenting an Affymetrix GeneChip developed for transcriptome analysis of any of the three above-mentioned aspergilli. Transcriptome analysis of triplicate batch cultivations of all three aspergilli on glucose-and xylose media has been performed, and used to validate the performance of the micro array. By doing gene comparisons of all three species, and cross-analysing this with the expression data, 23 genes, including the xylose transcriptional activator XlnR, have been identified to be a conserved response across the Aspergillus sp. Promoter analysis of the upregulated genes in all three species suggest the XlnR-binding site to be 5’-GGNTAAA-3’. We are thus presenting a validated tool for transcription analysis of three Aspergillus species and a methodology for comparative transcriptomics.
Keywords: Physiological response
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| |
|
| Overall design |
Two conditions (glucose and xylose) and three biological replicates
|
| |
|
| Contributor(s) |
Andersen MR, Wongsangnak W, Panagiotou G, Salazar MP, Lehmann L, Nielsen J |
| Citation(s) |
18332432 |
| |
| Submission date |
Oct 09, 2007 |
| Last update date |
Mar 19, 2012 |
| Contact name |
Mikael R Andersen |
| E-mail(s) |
mr@bio.dtu.dk
|
| Organization name |
Technical University of Denmark
|
| Department |
BioCentrum-DTU
|
| Lab |
Center for Microbial Biotechnology
|
| Street address |
Søltofts plads, bygn 223
|
| City |
Kgs. Lyngby |
| ZIP/Postal code |
2800 |
| Country |
Denmark |
| |
|
| Platforms (1) |
| GPL5975 |
[AsprgDTUa520520F] Custom Affymetrix Aspergillus Chip DTU_3Aspergillus_45K_v1.0 |
|
| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE9298 |
A tri-species Aspergillus array |
|
| Relations |
| BioProject |
PRJNA105259 |
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