We further identify chromosomal inversion as a molecular mechanism that may shuffle more distant genes into the cluster, so enabling cluster compaction. Antagonistic natural selection pressures are likely involved in shaping the occurrence and maintenance of this BGC. Our work sheds light on the birth...
we uncovered one unidentifiedt1pks-1gene clusters and one unidentifiednrpks-3gene cluster (Fig.4C). To distinguish these clusters, we have named them as “plu00736” and “plu00747,” respectively. The absence of matches in the MIBiG, Known ClusterBlast, and our in-house databases...
Atolypenes, tricyclic bacterial sesterterpenes discovered using a multiplexed in vitro cas9-TAR gene cluster refactoring approach. Kim S-H, Lu W, Ahmadi MK, et al (2019) Atolypenes, Tricyclic Bacterial Sesterterpenes Discovered Using a Multiplexed In Vitro Cas9-TAR Gene Cluster Refactoring Approa...
Since the potential BGC responsible for the biosynthesis of these polyketides could not be identified from the draft genome of A. muelleri DSM 19832 T, the complete genome sequence of the strains was obtained using the MinION platform (Fig. S8). The biosynthetic gene cluster responsible for the...
Biosynthetic gene clusterMetabolic engineeringThioesteraseMaduramicin is the most efficient and possesses the largest market share of all anti-coccidiosis polyether antibiotics (ionophore); however, its biosynthetic gene cluster (BGC) has yet to been identified, and the associated strains have not been ...
FunBGCeX (Fungal Biosynthetic Gene Cluster eXtractor) Overview FunBGCeX is a genome mining tool for fungal natural product discovery, which detects biosynthetic proteins based on our manually curated database of fungal natural product biosynthetic gene clusters (BGCs), FunBGCs. FunBGCeX can extract ...
BiG-SCAPE takes GenBank files from the output ofantiSMASHwith BGC predictions, as well as reference BGCs from theMIBiG repository. As output, BiG-SCAPE generates tab-delimited output files, as well as a rich HTML visualization that includes multi-locus phylogenies of each Gene Cluster Family made...
Here, we introduce the “Minimal Information about a Biosynthetic Gene cluster” (MIBiG) specification as a coherent extension of the GSC's MIxS standards framework. MIBiG provides a comprehensive and standardized specification of BGC annotations and gene cluster–associated metadata that will allow thei...
Fungi are an important source of terpenoids, but many of the corresponding biosynthetic gene clusters (BGCs) are silent in laboratory conditions. Strategies such as homologous activation and heterologous expression were usually used to active a single cluster, making them low efficiency. Here we ...
BiG-SCAPE (Biosynthetic Gene Similarity Clustering and Prospecting Engine) is a software package, written in Python, that constructs sequence similarity networks of Biosynthetic Gene Clusters (BGCs) and groups them into Gene Cluster Families (GCFs). BiG-SCAPE does this by rapidly calculating a distanc...