Predicting secondary metabolite biosynthetic gene clusters is a routine analysis performed for each newly sequenced fungal genome. Yet, the usefulness of such predictions remains restricted as they provide total numbers of biosynthetic pathways with only very limited biological significance. In this chapter, we describe a workflow to predict and analyze biosynthetic gene clusters in fungal genomes. It relies on similarity networking and phylogeny to perform genetic dereplication and to prioritize candidate gene clusters that potentially produce new compounds. This basic workflow includes the generation of high-quality figures for publication.
Keywords: Comparative genomics; Genome mining; Natural products; Phylogeny; Secondary metabolites; Similarity networks.
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.