Benchmarking methods for measuring biosynthetic gene cluster similarity and determination of gene cluster families.

ABSTRACT:

Motivation

Natural products are often produced by a set of biosynthetic enzymes that are encoded by genes clustered together in the producer's genome, referred to as a biosynthetic gene cluster (BGC). The ability to compare and cluster BGCs is essential for several applications, including predicting which bacteria will make a known product and assessing the potential diversity of natural products produced by a set of bacteria. There are multiple methods for comparing and clustering BGCs based on their similarity, but there has been a lack of investigation into how strongly BGC similarity relates to product structural similarity and how these methods perform relative to each other.

Results

Using publicly available databases, we developed a benchmark dataset to assess how well

SUBMITTER: Oyedele AS 

PROVIDER: S-EPMC12701797 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature