July 19, 2019  |  

Genome-wide methylation patterns in Salmonella enterica subsp. enterica serovars.

Authors: Pirone-Davies, Cary and Hoffmann, Maria and Roberts, Richard J and Muruvanda, Tim and Timme, Ruth E and Strain, Errol and Luo, Yan and Payne, Justin and Luong, Khai and Song, Yi and Tsai, Yu-Chih and Boitano, Matthew and Clark, Tyson A and Korlach, Jonas and Evans, Peter S and Allard, Marc W

The methylation of DNA bases plays an important role in numerous biological processes including development, gene expression, and DNA replication. Salmonella is an important foodborne pathogen, and methylation in Salmonella is implicated in virulence. Using single molecule real-time (SMRT) DNA-sequencing, we sequenced and assembled the complete genomes of eleven Salmonella enterica isolates from nine different serovars, and analysed the whole-genome methylation patterns of each genome. We describe 16 distinct N6-methyladenine (m6A) methylated motifs, one N4-methylcytosine (m4C) motif, and one combined m6A-m4C motif. Eight of these motifs are novel, i.e., they have not been previously described. We also identified the methyltransferases (MTases) associated with 13 of the motifs. Some motifs are conserved across all Salmonella serovars tested, while others were found only in a subset of serovars. Eight of the nine serovars contained a unique methylated motif that was not found in any other serovar (most of these motifs were part of Type I restriction modification systems), indicating the high diversity of methylation patterns present in Salmonella.

Journal: PloS one
DOI: 10.1371/journal.pone.0123639
Year: 2015

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