The global transcriptional response of the chytridiomycete Blastocladiella emersonii to environmental stress conditions was explored by sequencing a large number of expressed sequence tags (ESTs) from three distinct cDNA libraries, constructed with mRNA extracted from cells exposed to heat shock and different concentrations of cadmium chloride. A total of 6,350 high-quality EST sequences were obtained and assembled into 2,326 putative unigenes, 51% of them not previously described in B. emersonii. To approximately 59% of the unigenes it was possible to assign an orthologue in another organism, whereas 41% of them remained without a putative identification, with transcripts related to protein folding and antioxidant activity being highly enriched in the stress libraries. A microarray chip was constructed encompassing 3,773 distinct ESTs from the B. emersonii transcriptome presently available, which correspond to a wide range of biological processes. Global gene expression analysis of B. emersonii cells exposed to stress conditions revealed a large number of differentially expressed genes: 122 up-and 60 downregulated genes during heat shock and 189 up-and 110 downregulated genes during exposure to cadmium. The main functional categories represented among the upregulated genes were protein folding and proteolysis, proteins with antioxidant properties, and cellular transport. Interestingly, in response to cadmium stress, B. emersonii cells induced genes encoding six different glutathione S-transferases and six distinct metacaspases, as well as genes coding for several proteins of sulfur amino acid metabolism, indicating that cadmium causes oxidative stress and apoptosis in this fungus.Living organisms possess notable properties of adaptation to physiological changes or to adverse conditions. Unicellular organisms, in particular, must contend with fluctuations in nutrients, pH, temperature, and external osmolarity, as well as exposure to a range of potentially toxic environmental compounds. The cellular response to these environmental challenges involves drastic changes in gene expression. This reprogramming of gene transcription can be unveiled using high-throughput technologies such as expressed sequence tag (EST) sequencing and DNA microarrays, which provide valuable information about the expression patterns of the cells under determined conditions. Characterization of environmentally triggered gene expression changes provides insights into when and how each gene is expressed and offers a glimpse at the physiological response of the cells to variations in their surroundings.ESTs have historically provided data for gene discovery (18, 51), tissue-or stage-specific gene expression (3,7,14), and alternative splicing (27, 63). In fact, EST sequencing is likely to make its greatest impact on understudied genomes where little prior sequence data exist and where full genome sequencing projects may not be undertaken in the near future (36). DNA microarray technology created in the 1990s, using either whole-genome informat...