Editor: Bernardo González
Comparative genomics and functional analysis of niche-specific adaptation in Pseudomonas putida
Version of Record online: 2 AUG 2010
Journal compilation © 2010 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. No claim to original US government works
FEMS Microbiology Reviews
Volume 35, Issue 2, pages 299–323, March 2011
How to Cite
Wu, X., Monchy, S., Taghavi, S., Zhu, W., Ramos, J. and van der Lelie, D. (2011), Comparative genomics and functional analysis of niche-specific adaptation in Pseudomonas putida. FEMS Microbiology Reviews, 35: 299–323. doi: 10.1111/j.1574-6976.2010.00249.x
- Issue online: 1 FEB 2011
- Version of Record online: 2 AUG 2010
- Accepted manuscript online: 2 AUG 2010 12:00AM EST
- Received 27 February 2010; revised 7 July 2010; accepted 19 July 2010., Final version published online 26 August 2010.
- Pseudomonas putida;
- comparative genomics;
Pseudomonas putida is a gram-negative rod-shaped gammaproteobacterium that is found throughout various environments. Members of the species P. putida show a diverse spectrum of metabolic activities, which is indicative of their adaptation to various niches, which includes the ability to live in soils and sediments contaminated with high concentrations of heavy metals and organic contaminants. Pseudomonas putida strains are also found as plant growth-promoting rhizospheric and endophytic bacteria. The genome sequences of several P. putida species have become available and provide a unique tool to study the specific niche adaptation of the various P. putida strains. In this review, we compare the genomes of four P. putida strains: the rhizospheric strain KT2440, the endophytic strain W619, the aromatic hydrocarbon-degrading strain F1 and the manganese-oxidizing strain GB-1. Comparative genomics provided a powerful tool to gain new insights into the adaptation of P. putida to specific lifestyles and environmental niches, and clearly demonstrated that horizontal gene transfer played a key role in this adaptation process, as many of the niche-specific functions were found to be encoded on clearly defined genomic islands.