Comparison of 432 Pseudomonas strains through integration of genomic, functional, metabolic and expression data.

Abstract:

Pseudomonas is a highly versatile genus containing species that can be harmful to humans and plants while others are widely used for bioengineering and bioremediation. We analysed 432 sequenced Pseudomonas strains by integrating results from a large scale functional comparison using protein domains with data from six metabolic models, nearly a thousand transcriptome measurements and four large scale transposon mutagenesis experiments. Through heterogeneous data integration we linked gene essentiality, persistence and expression variability. The pan-genome of Pseudomonas is closed indicating a limited role of horizontal gene transfer in the evolutionary history of this genus. A large fraction of essential genes are highly persistent, still non essential genes represent a considerable fraction of the core-genome. Our results emphasize the power of integrating large scale comparative functional genomics with heterogeneous data for exploring bacterial diversity and versatility.

FAIRDOMHub ID: https://seek.sysmo-db.org/publications/330

PubMed ID: 27922098

Projects: EmPowerPutida

Journal: Sci Rep

Citation: Sci Rep. 2016 Dec 6;6:38699. doi: 10.1038/srep38699.

Date Published: 7th Dec 2016

Authors: J. J. Koehorst, J. C. van Dam, Ruben Van Heck, E. Saccenti, V. A. Dos Santos, M. Suarez-Diez, P. J. Schaap

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Created: 19th Apr 2017 at 10:03

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