In the model fungus Aspergillus nidulans, asexual development is induced from vegetative hyphae by a set of early regulators including the bZIP-type transcription factor FlbB. To determine the range of genes under the influence of the transcriptional activity of FlbB and to characterize their role in fungal development, we sequenced and compared the transcriptomes of a DflbB mutant and its isogenic wild-type strain at different developmental stages. Results confirmed the activating role of FlbB on downstream regulators of conidiation such as flbD and brlA. However, FlbB has additional functions beyond the induction of asexual development. Among the changes observed, absence of a functional FlbB caused induction of the dba cluster and synthesis of a secondary metabolite with bactericidal properties. In addition, a new transcriptional target of FlbB was unveiled, urdA, that codes for a putative transcription factor that represses premature sexual development. Taken together, our results indicate that the activators of asexual development simultaneously exert a role on other cellular functions, including an inhibitory effect on the sexual cycle, and reinforce the hypothesis that mutually exclusive metabolic and cellular patterns are associated with different morphogenetic programs.KEYWORDS Aspergillus nidulans; mRNA sequencing; transcriptional regulation; development; secondary metabolite cluster C ELLULAR morphogenesis can be defined as programmed gene expression changes that lead to the development of specialized cell types. Basic eukaryotic morphogenetic mechanisms are commonly studied using fungi as models. Aspergillus nidulans is a nonpathogenic fungus that is phylogenetically related to clinically important species (A. fumigatus) as well as species with economical or industrial value such as A. niger and A. oryzae. In addition, A. nidulans is the main reference organism in basic studies of asexual development (Etxebeste et al. 2010a;Park and Yu 2012). The production of asexual spores (conidia) is induced in nonspecialized cells called vegetative hyphae and involves the biogenesis of a succession of cell types that results in the generation of structures called conidiophores (Mims et al. 1988).A significant number of genes involved in asexual development have been identified and characterized (Etxebeste et al. 2010a;Ni et al. 2010;Park and Yu 2012). Some of them are specific to the morphogenetic process and control the later stages leading to conidia production. brlA, the first development-specific transcription factor; abaA; and wetA constitute the backbone of the central developmental pathway (CDP) and regulate the expression of genes involved in the correct spatiotemporal formation of the conidiophore cell types (Park and Yu 2012).The specialization of vegetative hyphae into asexual reproductive structures is induced by exogenous and endogenous stimuli (Fischer and Kües 2006). This requires the existence of an efficient genetic mechanism to guarantee that these cues are correctly transduced into si...