Comparative genomics of type VI secretion systems in strains of Pantoea ananatis from different environments

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dc.contributor.author Shyntum, Divine Yufetar
dc.contributor.author Venter, S.N. (Stephanus Nicolaas)
dc.contributor.author Moleleki, Lucy N.
dc.contributor.author Toth, Ian K.
dc.contributor.author Coutinho, Teresa A.
dc.date.accessioned 2014-09-04T07:46:06Z
dc.date.available 2014-09-04T07:46:06Z
dc.date.issued 2014-02-26
dc.description.abstract BACKGROUND: The Type VI secretion system (T6SS) has been identified in several different bacteria, including the plant pathogenPantoea ananatis. Previous in silico analyses described three different T6SS loci present in the pathogenic strain of P. ananatis LMG 20103. This initial investigation has been extended to include an additional seven sequenced strains of P. ananatis together with 39 strains from different ecological niches. Comparative and phylogenetic analyses were used to investigate the distribution, evolution, intra-strain variability and operon structure of the T6SS in the sequenced strains. RESULTS: Three different T6SS loci were identified in P. ananatis strain LMG 20103 and designated PA T6SS 1-3. PA T6SS-1 was present in all sequenced strains of P. ananatis and in all 39 additional strains examined in this study. In addition, PA T6SS-1 included all 13 core T6SS genes required for synthesis of a functional T6SS. The plasmid-borne PA T6SS-2 also included all 13 core T6SS genes but was restricted to only 33% (15/46) of the strains examined. In addition, PA T6SS-2 was restricted to strains of P. ananatis isolated from symptomatic plant material. This finding raises the possibility of an association between PA T6SS-2 and either pathogenicity or host specificity. The third cluster PA T6SS-3 was present in all strains analyzed in this study but lacked 11 of the 13 core T6SS genes suggesting it may not encoded a functional T6SS. Inter-strain variability was also associated with hcp and vgrG islands, which are associated with the T6SS and encode a variable number of proteins usually of unknown function. These proteins may play a role in the fitness of different strains in a variety of ecological niches or as candidate T6SS effectors. Phylogenetic analysis indicated that PA T6SS-1 and PA T6SS-2 are evolutionarily distinct. CONCLUSION: Our analysis indicates that the three T6SSs of P. ananatis appear to have been independently acquired and may play different roles relating to pathogenicity, host range determination and/or niche adaptation. Future work will be directed toward understanding the roles that these T6SSs play in the biology of P. ananatis. en_US
dc.description.librarian am2014 en_US
dc.description.sponsorship The University of Pretoria, the National Research Foundation (NRF), the Forestry and Agricultural Biotechnology Institute (FABI), the Tree Protection Co-operative Programme (TPCP), the NRF/Department of Science and Technology Centre of Excellence in Tree Health Biotechnology (CTHB), and the THRIP support program of the Department of Trade and Industry, South Africa. en_US
dc.description.uri http://www.biomedcentral.com/bmcgenomics/ en_US
dc.identifier.citation Shyntum, DY, Venter, SN, Moleleki, LN, Toth, I & Coutinho, TA 2014, 'Comparative genomics of type VI secretion systems in strains of Pantoea ananatis from different environments', BMC Genomics, vol. 15, art. 163, pp. 1-15. en_US
dc.identifier.issn 1471-2164
dc.identifier.other 10.1186/1471-2164-15-163
dc.identifier.uri http://hdl.handle.net/2263/41909
dc.language.iso en en_US
dc.publisher BioMed Central en_US
dc.rights © 2014 Shyntum et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License. en_US
dc.subject Pantoea ananatis en_US
dc.subject Type VI secretion system (T6SS) en_US
dc.subject Phytopathogen en_US
dc.title Comparative genomics of type VI secretion systems in strains of Pantoea ananatis from different environments en_US
dc.type Article en_US


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