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The morphological shift between mycelial\/yeast phases is crucial for its virulence, but the transcriptional networks implicated in dimorphic transition are still not fully understood. Here, we report the global transcriptomic differences occurring between mould and yeast phases of <jats:italic>S. schenckii<\/jats:italic>, including changes in gene expression profiles associated with these distinct cellular phenotypes. Moreover, we also propose a new genome annotation, which reveals a more complex transcriptional architecture than previously assumed. Using RNA-seq, we identified a total of 17\u200a307 genes, of which 11\u2009217 were classified as protein-encoding genes, whereas 6090 were designated as non-coding RNAs (ncRNAs). Approximately ~71\u200a% of all annotated genes were found to overlap and the different-strand overlapping type was the most common. Gene expression analysis revealed that 8795 genes were differentially regulated among yeast and mould forms. Differential gene expression was also observed for antisense ncRNAs overlapping neighbouring protein-encoding genes. The release of transcriptome-wide data and the establishment of the Sporothrix Genome DataBase (<jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/sporothrixgenomedatabase.unime.it\" xlink:type=\"simple\">http:\/\/sporothrixgenomedatabase.unime.it<\/jats:ext-link>) represent an important milestone for <jats:italic>Sporothrix<\/jats:italic> research, because they provide a strong basis for future studies on the molecular pathways involved in numerous biological processes.<\/jats:p>","DOI":"10.1099\/mgen.0.000445","type":"journal-article","created":{"date-parts":[[2020,10,9]],"date-time":"2020-10-09T14:20:23Z","timestamp":1602253223000},"source":"Crossref","is-referenced-by-count":6,"title":["Transcriptome-wide expression profiling of Sporothrix schenckii yeast and mycelial forms and the establishment of the Sporothrix Genome 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