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Kasuga, T.* ; Townsend, J.P.* ; Tian, C.* ; Gilbert, L.B.* ; Mannhaupt, G. ; Taylor, J.W.* ; Glass, N.L.*

Long-oligomer microarray profiling in Neurospora crassa reveals the transcriptional program underlying biochemical and physiological events of conidial germination.

Nucleic Acids Res. 33, 6469-6485 (2005)
Publ. Version/Full Text Volltext DOI PMC
Open Access Gold
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To test the inferences of spotted microarray technology against a biochemically well-studied process, we performed transcriptional profiling of conidial germination in the filamentous fungus, Neurospora crassa. We first constructed a 70 base oligomer microarray that assays 3366 predicted genes. To estimate the relative gene expression levels and changes in gene expression during conidial germination, we analyzed a circuit design of competitive hybridizations throughout a time course using a Bayesian analysis of gene expression level. Remarkable consistency of mRNA profiles with previously published northern data was observed. Genes were hierarchically clustered into groups with respect to their expression profiles over the time course of conidial germination. A functional classification database was employed to characterize the global picture of gene expression. Consensus motif searches identified a putative regulatory component associated with genes involved in ribosomal biogenesis. Our transcriptional profiling data correlate well with biochemical and physiological processes associated with conidial germination and will facilitate functional predictions of novel genes in N.crassa and other filamentous ascomycete species. Furthermore, our dataset on conidial germination allowed comparisons to transcriptional mechanisms associated with germination processes of diverse propagules, such as teliospores of the phytopathogenic fungus Ustilago maydis and spores of the social amoeba Dictyostelium discoideum.
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Publication type Article: Journal article
Document type Scientific Article
Corresponding Author
Keywords SPOTTED DNA MICROARRAYS; GENE-EXPRESSION; RIBOSOMAL-PROTEIN; GENOME SEQUENCE; CDNA MICROARRAY; SACCHAROMYCES-CEREVISIAE; ASPERGILLUS-NIDULANS; MOLECULAR CHAPERONE; FILAMENTOUS FUNGUS; SPORE GERMINATION
ISSN (print) / ISBN 0305-1048
e-ISSN 1362-4962
Journal Nucleic Acids Research
Quellenangaben Volume: 33, Issue: 20, Pages: 6469-6485 Article Number: , Supplement: ,
Publisher Oxford University Press
Non-patent literature Publications
Reviewing status Peer reviewed
Institute(s) Institute of Bioinformatics and Systems Biology (IBIS)