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PMID: 18332432 Published · ppublish English Comparative Study Journal Article Research Support, Non-U.S. Gov't

A trispecies Aspergillus microarray: comparative transcriptomics of three Aspergillus species.

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 105 ·No. 11 ·2008-03-18 ·Pages 4387-92

Andersen MR, Vongsangnak W, Panagiotou G, Salazar MP, Lehmann L, Nielsen J

Abstract

The full-genome sequencing of the filamentous fungi Aspergillus nidulans, Aspergillus niger, and Aspergillus oryzae has opened possibilities for studying the cellular physiology of these fungi on a systemic level. As a tool to explore this, we are making available 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 was used to validate the performance of the microarray. Gene comparisons of all three species and cross-analysis with the expression data identified 23 genes to be a conserved response across Aspergillus sp., including the xylose transcriptional activator XlnR. A promoter analysis of the up-regulated genes in all three species indicates the conserved XlnR-binding site to be 5'-GGNTAAA-3'. The composition of the conserved gene-set suggests that xylose acts as a molecule, indicating the presence of complex carbohydrates such as hemicellulose, and triggers an array of degrading enzymes. With this case example, we present a validated tool for transcriptome analysis of three Aspergillus species and a methodology for conducting cross-species evolutionary studies within a genus using comparative transcriptomics.

MeSH Terms
Aspergillus/classification,genetics,metabolism Down-Regulation Fungal Proteins/genetics,metabolism Gene Expression Profiling Gene Expression Regulation, Fungal Oligonucleotide Array Sequence Analysis Trans-Activators/genetics,metabolism Up-Regulation
Chemicals
Fungal Proteins Trans-Activators XlnR protein, Aspergillus
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Andersen Mikael R
Center for Microbial Biotechnology, BioCentrum-DTU, Technical University of Denmark, DK-2800 Kgs Lyngby, Denmark.
Vongsangnak Wanwipa
Panagiotou Gianni
Salazar Margarita P
Lehmann Linda
Nielsen Jens
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
1091-6490
DOI
10.1073/pnas.0709964105
Published
2008-03-18
Epub
2008-00-10
Pages
4387-92
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC2393752
Subset
IM
Databases
GEO
GSE9298
External Links
PubMed source DOI: 10.1073/pnas.0709964105 PMC Full Text View journal details
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