A trispecies Aspergillus microarray: Comparative transcriptomics of three Aspergillus species

Mikael Rørdam Andersen, Wanwipa Vongsangnak, Gianni Panagiotou, Margarita Pena Salazar, Linda Olkjær Lehmann, Jens Nielsen

    Research output: Contribution to journalJournal articleResearchpeer-review


    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 XInR-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.
    Original languageEnglish
    JournalProceedings of the National Academy of Sciences of the United States of America
    Issue number11
    Pages (from-to)4387-4392
    Publication statusPublished - 2008


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