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

Datacite citation style:
Koehorst, J.J. (Jasper Jan) (2018): Comparison of 432 Pseudomonas strains through integration of genomic, functional, metabolic and expression data. Version 1. 4TU.ResearchData. dataset. https://doi.org/10.4121/uuid:948c10fe-7ea5-47f3-bdb2-d5b0f908820b
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Wageningen University and Research logo
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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.
history
  • 2018-09-26 first online, published, posted
publisher
4TU.Centre for Research Data
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media types: application/x-gzip, text/plain
organizations
Wageningen University & Research, Department of Agrotechnology and Food Sciences
contributors
  • Martins dos Santos, V.A.P (Vitor) orcid logo
  • Saccenti, E (Edoardo) orcid logo
  • Schaap, P.J. (Peter) orcid logo
  • Suarez Diez, M. (Maria) orcid logo
  • van Dam, J.C.J (Jesse) orcid logo
  • van Heck, R.G.A (Ruben) orcid logo

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