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


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.


PubMed ID: 27922098

Projects: EmPowerPutida

Publication type: Journal

Journal: Sci Rep

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

Date Published: 6th Dec 2016

Registered Mode: Not specified

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

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Views: 4199

Created: 19th Apr 2017 at 10:03

Last updated: 28th Jul 2020 at 11:17

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