<jats:p> This study reports the draft genome sequence of the endophytic <jats:named-content content-type="genus-species">Streptomyces cavourensis</jats:named-content> strain YBQ59, produces the antibiotics bafilomycin D, nonactic acid, prelactone B, and 5,11-epoxy-10-cadinanol. The draft genome sequence comprises ∼10.2 Mb, with a GC content of 64% and 8,958 predicted protein-coding genes, of which 14 gene clusters were found to associate with antibiotic biosynthetic pathways.