The complete genome, comparative and functional analysis of Stenotrophomonas maltophilia reveals an organism heavily shielded by drug resistance determinants

Lisa C Crossman¹ , Virginia C Gould² , J Maxwell Dow³ , Georgios S Vernikos¹ , Aki Okazaki² , Mohammed Sebaihia¹ , David Saunders¹ , Claire Arrowsmith¹ , Tim Carver¹ , Nicholas Peters¹ , Ellen Adlem¹ , Arnaud Kerhornou¹ , Angela Lord¹ , Lee Murphy¹ , Katharine Seeger¹ , Robert Squares¹ , Simon Rutter¹ , Michael A Quail¹ , Mari-Adele Rajandream¹ , David Harris¹ , Carol Churcher¹ , Stephen D Bentley¹ , Julian Parkhill¹ , Nicholas R Thomson¹ and Matthew B Avison²

¹Pathogen Sequencing Unit, The Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK

²Department of Cellular and Molecular Medicine, University of Bristol, School of Medical Sciences, University Walk, Bristol, BS8 1TD, UK

³Biomerit Research Centre, Department of Microbiology, Biosciences Institute, National University of Ireland, Cork, Ireland

author email corresponding author email

Genome Biology 2008, 9:R74doi:10.1186/gb-2008-9-4-r74


Published:	17 April 2008

Subject areas: Genome studies, Microbiology and parasitology, Medicine

Abstract

Background

Stenotrophomonas maltophilia is a nosocomial opportunistic pathogen of the Xanthomonadaceae. The organism has been isolated from both clinical and soil environments in addition to the sputum of cystic fibrosis patients and the immunocompromised. Whilst relatively distant phylogenetically, the closest sequenced relatives of S. maltophilia are the plant pathogenic xanthomonads.

Results

The genome of the bacteremia-associated isolate S. maltophilia K279a is 4,851,126 bp and of high G+C content. The sequence reveals an organism with a remarkable capacity for drug and heavy metal resistance. In addition to a number of genes conferring resistance to antimicrobial drugs of different classes via alternative mechanisms, nine resistance-nodulation-division (RND)-type putative antimicrobial efflux systems are present. Functional genomic analysis confirms a role in drug resistance for several of the novel RND efflux pumps. S. maltophilia possesses potentially mobile regions of DNA and encodes a number of pili and fimbriae likely to be involved in adhesion and biofilm formation that may also contribute to increased antimicrobial drug resistance.

Conclusion

The panoply of antimicrobial drug resistance genes and mobile genetic elements found suggests that the organism can act as a reservoir of antimicrobial drug resistance determinants in a clinical environment, which is an issue of considerable concern.