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PLoS One. 2015 Oct 27;10(10):e0140398. doi: 10.1371/journal.pone.0140398. eCollection 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.

Author information

1
Department of Genetics & Molecular Biology in Botany, Institute of Botany, Christian-Albrechts-University at Kiel, Kiel, Germany.
2
Architecture et Fonction des Macromolécules Biologiques, Aix-Marseille Université, 13288 Marseille, France; Centre National de la Recherche Scientifique, CNRS UMR 7257, 13288 Marseille, France.
3
VTT Technical Research Centre of Finland Ltd, Tietotie 2, FI-02044 VTT, Espoo, Finland.
4
VTT Technical Research Centre of Finland Ltd, Tietotie 2, FI-02044 VTT, Espoo, Finland; Biocomputing Platforms Ltd, Tekniikantie 14, FI-02150, Espoo, Finland.
5
Holzforschung München, TUM School of Life Sciences Weihenstephan, Technische Universität München, Hans-Carl-von-Carlowitz-Platz 2, Freising, Germany.
6
Department of Chemistry and Bioscience, Aalborg University, Niels Bohrs Vej 8, DK-6700 Esbjerg, Denmark.
7
INRA, UMR1163 Biotechnologie des Champignons Filamenteux, Aix-Marseille Université, Polytech Marseille, 163 avenue de Luminy, CP 925, 13288 Marseille Cedex 09, France; Aix-Marseille Université, INRA, UMR1163 Biotechnologie des Champignons Filamenteux, Faculté des Sciences de Luminy-Polytech, CP 925, 13288 Marseille Cedex 09, France.
8
Institute of Microbiology and Genetics, Department of Genetics of Eukaryotic Microorganisms, Georg-August University, Göttingen, Germany.

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.

PMID:
26505484
PMCID:
PMC4624724
DOI:
10.1371/journal.pone.0140398
[Indexed for MEDLINE]
Free PMC Article

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