Mining metagenomes for natural product biosynthetic gene clusters: unlocking new potential with ultrafast techniques thumbnail
Mining metagenomes for natural product biosynthetic gene clusters: unlocking new potential with ultrafast techniques
www.biorxiv.org
We downloaded all genomes with an assembly status of “Complete genome” or “Chromosome” or “Scaffold” generated by the HMP from the GenBank database The Wilcoxon rank-sum tests (two-sided) to assess the significance of the differentiations between metagenomes from different groups (i.e., water layers
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  • We downloaded all genomes with an assembly status of “Complete genome” or “Chromosome” or “Scaffold” generated by the HMP from the GenBank database
  • The Wilcoxon rank-sum tests (two-sided) to assess the significance of the differentiations between metagenomes from different groups (i.e., water layers or body sites), were performed with the wilcox.test function from the R package stats
  • Capitalizing on the fact that BGC domains can be readily annotated in unassembled metagenomic data, and used to identify the different natural product BGC classes, we developed BiG-MEx
  • Biosynthetic Gene cluster MEtagenomic eXploration toolbox (BiG-MEx)
  • abundance profile of natural product BGC classes in metagenomic data.

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