plantiSMASH allows the rapid genome-wide identification, annotation and analysis of secondary metabolite biosynthesis gene clusters across the plant kingdom. It is a specialized extension of the widely used antiSMASH tool, tailored specifically to target plant genomes.
plantiSMASH is powered by several open source tools: NCBI BLAST+, Diamond, HMMer 3, Muscle 3, GlimmerHMM, CD-HIT, PySVG, JQuery SVG, JQuery DataTables, InCHlib, and vis.js.
plantiSMASH is the product of a collaborative effort between the Bioinformatics Group of Wageningen University & Research, the Department of Informatics Engineering at the Lampung University, the Novo Nordisk Foundation Center for Biosustainability at the Technical University of Denmark, and the Department of Metabolic Biology of the John Innes Centre, Norwich.
plantiSMASH is collaboratively supported by the Graduate School for Experimental Plant Sciences (EPS), VENI Grant (#863.15.002) from The Netherlands Organization for Scientific Research (NWO), a Novo Nordisk Foundation Grant, UK Biotechnological and Biological Sciences Research Council (BBSRC) Institute Strategic Programme Grant "Understanding and Exploiting Plant and Microbial Metabolism" (BB/J004561/1), the John Innes Foundation, the joint Engineering and Physical Sciences Research Council/ BBSRC-funded OpenPlant Synthetic Biology Research Centre grant BB/L014130/1 and a National Institutes of Health Genome to Natural Products Network award U101GM110699.
If you have found plantiSMASH useful, please cite:
plantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters.
Satria A. Kautsar, Hernando G Suarez Duran, Kai Blin, Anne Osbourn & Marnix H. Medema
Nucleic Acids Research, 45(W1), W55-W63. (2017) https://doi.org/10.1093/nar/gkx305
