Phylum-wide comparative genomics unravel the diversity of secondary metabolism in Cyanobacteria

BMC Genomics

Muriel Gugger³  Jörn Piel²  Kaarina Sivonen⁵  Cheryl A Kerfeld⁴  Jouni Jokela⁵  Thierry Laurent³  Thérèse Coursin³  Amel Latifi⁶  David P Fewer⁵  Alexandra Calteau¹ 

[1] Commissariat à l’Energie Atomique et aux Energies Alternatives (CEA), Genoscope & CNRS, UMR 8030, Laboratoire d’Analyse Bioinformatique en Génomique et Métabolisme, Evry, France;Institute of Microbiology, Eidgenoessiche Technische Hochschule (ETH), Zurich, Switzerland;Institut Pasteur, Collection des Cyanobactéries, Paris, France;DOE Plant Research Center, Michigan State University, Michigan, MI, USA;Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland;Aix-Marseille University, Centre National de la Recherche Scientifique (CNRS), Marseille, France

关键词: Evolution;    Diversity;    PKS;    NRPS;    Secondary metabolite;    Cyanobacteria;   

Others  :  1092494
DOI  :  10.1186/1471-2164-15-977

 received in 2014-07-25, accepted in 2014-10-30,  发布年份 2014

【 摘 要 】

Background

Cyanobacteria are an ancient lineage of photosynthetic bacteria from which hundreds of natural products have been described, including many notorious toxins but also potent natural products of interest to the pharmaceutical and biotechnological industries. Many of these compounds are the products of non-ribosomal peptide synthetase (NRPS) or polyketide synthase (PKS) pathways. However, current understanding of the diversification of these pathways is largely based on the chemical structure of the bioactive compounds, while the evolutionary forces driving their remarkable chemical diversity are poorly understood.

Results

We carried out a phylum-wide investigation of genetic diversification of the cyanobacterial NRPS and PKS pathways for the production of bioactive compounds. 452 NRPS and PKS gene clusters were identified from 89 cyanobacterial genomes, revealing a clear burst in late-branching lineages. Our genomic analysis further grouped the clusters into 286 highly diversified cluster families (CF) of pathways. Some CFs appeared vertically inherited, while others presented a more complex evolutionary history. Only a few horizontal gene transfers were evidenced amongst strongly conserved CFs in the phylum, while several others have undergone drastic gene shuffling events, which could result in the observed diversification of the pathways.

Conclusions

Therefore, in addition to toxin production, several NRPS and PKS gene clusters are devoted to important cellular processes of these bacteria such as nitrogen fixation and iron uptake. The majority of the biosynthetic clusters identified here have unknown end products, highlighting the power of genome mining for the discovery of new natural products.

【 授权许可】

   
2014 Calteau et al.; licensee BioMed Central Ltd.

【 图 表 】

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