Comparative genomic analysis of Ralstonia solanacearum reveals candidate genes for host specificity

BMC Genomics

Philippe Prior¹  Caitilyn Allen³  David Roche²  Gilles Cellier⁴  Tiffany Lowe³  Florent Ailloud⁴ 

[1] Département de Santé des Plantes et Environnement, (SPE) Inra, Paris, France;Institut de Génomique, Genoscope, Commissariat à l’Energie Atomique (CEA), Evry, Paris, France;Department of Plant Pathology, University of Wisconsin-Madison, Madison, WI, USA;Anses - Plant Health Laboratory, Saint-Pierre, F-97410, La Réunion, France

关键词: Host adaptation;    Comparative genomics;    Ralstonia solanacearum;   

Others  :  1174036
DOI  :  10.1186/s12864-015-1474-8

 received in 2014-11-26, accepted in 2015-03-20,  发布年份 2015

【 摘 要 】

Background

Ralstonia solanacearum is a vascular soil-borne plant pathogen with an unusually broad host range. This economically destructive and globally distributed bacterium has thousands of distinct lineages within a heterogeneous and taxonomically disputed species complex. Some lineages include highly host-adapted strains (ecotypes), such as the banana Moko disease-causing strains, the cold-tolerant potato brown rot strains (also known as R3bv2) and the recently emerged Not Pathogenic to Banana (NPB) strains.

Results

These distinct ecotypes offer a robust model to study host adaptation and the emergence of ecotypes because the polyphyletic Moko strains include lineages that are phylogenetically close to the monophyletic brown rot and NPB strains. Draft genomes of eight new strains belonging to these three model ecotypes were produced to complement the eleven publicly available R. solanacearum genomes. Using a suite of bioinformatics methods, we searched for genetic and evolutionary features that distinguish ecotypes and propose specific hypotheses concerning mechanisms of host adaptation in the R. solanacearum species complex. Genome-wide, few differences were identified, but gene loss events, non-synonymous polymorphisms, and horizontal gene transfer were identified among type III effectors and were associated with host range differences.

Conclusions

This extensive comparative genomics analysis uncovered relatively few divergent features among closely related strains with contrasting biological characteristics; however, several virulence factors were associated with the emergence of Moko, NPB and brown rot and could explain host adaptation.

【 授权许可】

   
2015 Ailloud et al.; licensee BioMed Central.

【 图 表 】

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