De Novo Assembly and Genome Analyses of the Marine-Derived Scopulariopsis brevicaulis Strain LF580 Unravels Life-Style Traits and Anticancerous Scopularide Biosynthetic Gene Cluster - INRAE - Institut national de recherche pour l’agriculture, l’alimentation et l’environnement
Journal Articles PLoS ONE Year : 2015

De Novo Assembly and Genome Analyses of the Marine-Derived Scopulariopsis brevicaulis Strain LF580 Unravels Life-Style Traits and Anticancerous Scopularide Biosynthetic Gene Cluster

Abhishek Kumar
Mikko Arvas
  • Function : Author
Muhammad Fahad Syed
  • Function : Author
Nils Thieme
  • Function : Author
J. Philipp Benz
  • Function : Author
Jens Laurids Sorensen
  • Function : Author
Eric Record
Stefanie Poeggeler
  • Function : Author
Frank Kempken
  • Function : Author

Abstract

The marine-derived Scopulariopsis brevicaulis strain LF580 produces scopularides A and B, which have anticancerous properties. We carried out genome sequencing using three next-generation DNA sequencing methods. De novo hybrid assembly yielded 621 scaffolds with a total size of 32.2 Mb and 16298 putative gene models. We identified a large non-ribosomal peptide synthetase gene (nrps1) and supporting pks2 gene in the same biosynthetic gene cluster. This cluster and the genes within the cluster are functionally active as confirmed by RNA-Seq. Characterization of carbohydrate-active enzymes and major facilitator superfamily (MFS)-type transporters lead to postulate S. brevicaulis originated from a soil fungus, which came into contact with the marine sponge Tethya aurantium. This marine sponge seems to provide shelter to this fungus and micro-environment suitable for its survival in the ocean. This study also builds the platform for further investigations of the role of life-style and secondary metabolites from S. brevicaulis.
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hal-01439026 , version 1 (17-09-2018)

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Abhishek Kumar, Bernard Henrissat, Mikko Arvas, Muhammad Fahad Syed, Nils Thieme, et al.. De Novo Assembly and Genome Analyses of the Marine-Derived Scopulariopsis brevicaulis Strain LF580 Unravels Life-Style Traits and Anticancerous Scopularide Biosynthetic Gene Cluster. PLoS ONE, 2015, 10 (10), ⟨10.1371/journal.pone.0140398⟩. ⟨hal-01439026⟩
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