Mycobacterium tuberculosis and M. smegmatis form drug-tolerant biofilms through dedicated genetic programs. In support of a stepwise process regulating biofilm production in mycobacteria, it was shown elsewhere that lsr2 participates in intercellular aggregation, while groEL1 was required for biofilm maturation in M. smegmatis. Here, by means of RNA-Seq, we monitored the early steps of biofilm production in M. bovis BCG, to distinguish intercellular aggregation from attachment to a surface. Genes encoding for the transcriptional regulators dosR and BCG0114 (Rv0081) were significantly regulated and responded differently to intercellular aggregation and surface attachment. Moreover, a M. tuberculosis H37Rv deletion mutant in the Rv3134c-dosS-dosR regulon, formed less biofilm than wild type M. tuberculosis, a phenotype reverted upon reintroduction of this operon into the mutant. Combining RT-qPCR with microbiological assays (colony and surface pellicle morphologies, biofilm quantification, Ziehl-Neelsen staining, growth curve and replication of planktonic cells), we found that BCG0642c affected biofilm production and replication of planktonic BcG, whereas ethR affected only phenotypes linked to planktonic cells despite its downregulation at the intercellular aggregation step. our results provide evidence for a stage-dependent expression of genes that contribute to biofilm production in slow-growing mycobacteria. In nature, microbial species are often found within a matrix, forming multicellular communities that attach to surfaces or air-liquid interfaces, called biofilms 1. Biofilms are relevant to human health, as a majority of bacterial pathogens employ these structures to modify the host response 2 contributing to persistence 3. In this regard, a link exists between in vitro biofilm production and in vivo persistence for BCG 4 and M. tuberculosis 5. Biofilm formation occurs via a series of well-defined steps. These include the attachment of single-cell planktonic microbes onto a substratum; aggregation and growth of the adherent cells into three-dimensionally organized structures; and encapsulation of the structures by a self-produced matrix of extracellular polymeric substance 1 .