Draft genome sequence of Xanthomonas fragariaereveals reductive evolution and distinct virulence-related gene content

BMC Genomics

Research Article

Paul De Vos¹  Martine Maes²  Bart Cottyn²  Steve Baeyen²  Joachim Vandroemme³ 

[1] Laboratory of Microbiology, Ghent University, K. L. Ledeganckstraat 35, 9000, Ghent, Belgium;Plant Sciences Unit - Crop Protection, Institute for Agricultural and Fisheries Research (ILVO), Merelbeke, Belgium;Plant Sciences Unit - Crop Protection, Institute for Agricultural and Fisheries Research (ILVO), Merelbeke, Belgium;Laboratory of Microbiology, Ghent University, K. L. Ledeganckstraat 35, 9000, Ghent, Belgium;

关键词: Draft Genome;    Draft Genome Sequence;    Cluster Regularly Interspaced Short Palindromic Repeat;    Strawberry Plant;    Genome Reduction;   

DOI  :  10.1186/1471-2164-14-829

 received in 2012-11-28, accepted in 2013-11-20,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundXanthomonas fragariae (Xf) is a bacterial strawberry pathogen and an A2 quarantine organism on strawberry planting stock in the EU. It is taxonomically and metabolically distinct within the genus Xanthomonas, and known for its host specificity. As part of a broader pathogenicity study, the genome of a Belgian, virulent Xf strain (LMG 25863) was assembled to draft status and examined for its pathogenicity related gene content.ResultsThe Xf draft genome (4.2 Mb) was considerably smaller than most known Xanthomonas genomes (~5 Mb). Only half of the genes coding for TonB-dependent transporters and cell-wall degrading enzymes that are typically present in other Xanthomonas genomes, were found in Xf. Other missing genes/regions with a possible impact on its plant-host interaction were: i) the three loci for xylan degradation and metabolism, ii) a locus coding for a ß-ketoadipate phenolics catabolism pathway, iii) xcs, one of two Type II Secretion System coding regions in Xanthomonas, and iv) the genes coding for the glyoxylate shunt pathway. Conversely, the Xf genome revealed a high content of externally derived DNA and several uncommon, possibly virulence-related features: a Type VI Secretion System, a second Type IV Secretion System and a distinct Type III Secretion System effector repertoire comprised of multiple rare effectors and several putative new ones.ConclusionsThe draft genome sequence of LMG 25863 confirms the distinct phylogenetic position of Xf within the genus Xanthomonas and reveals a patchwork of both lost and newly acquired genomic features. These features may help explain the specific, mostly endophytic association of Xf with the strawberry plant.

【 授权许可】

Unknown   
© Vandroemme et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.