Comprehensive methylome characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at single-base resolution

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  • dc.contributor.author Lluch-Senar, Maria 1982-ca
  • dc.contributor.author Luong, Khaica
  • dc.contributor.author Lloréns Rico, Verónica, 1989-ca
  • dc.contributor.author Delgado Blanco, Javierca
  • dc.contributor.author Fang, Gangca
  • dc.contributor.author Spittle, Kristica
  • dc.contributor.author Clark, Tyson A.ca
  • dc.contributor.author Schadt, Ericca
  • dc.contributor.author Turner, Stephen W.ca
  • dc.contributor.author Korlach, Jonasca
  • dc.contributor.author Serrano Pubull, Luis, 1982-ca
  • dc.date.accessioned 2014-04-29T09:46:14Z
  • dc.date.available 2014-04-29T09:46:14Z
  • dc.date.issued 2013ca
  • dc.description.abstract In the bacterial world, methylation is most commonly associated with restriction-modification systems that provide a defense mechanism against invading foreign genomes. In addition, it is known that methylation plays functionally important roles, including timing of DNA replication, chromosome partitioning, DNA repair, and regulation of gene expression. However, full DNA methylome analyses are scarce due to a lack of a simple methodology for rapid and sensitive detection of common epigenetic marks (ie N(6)-methyladenine (6 mA) and N(4)-methylcytosine (4 mC)), in these organisms. Here, we use Single-Molecule Real-Time (SMRT) sequencing to determine the methylomes of two related human pathogen species, Mycoplasma genitalium G-37 and Mycoplasma pneumoniae M129, with single-base resolution. Our analysis identified two new methylation motifs not previously described in bacteria: a widespread 6 mA methylation motif common to both bacteria (5'-CTAT-3'), as well as a more complex Type I m6A sequence motif in M. pneumoniae (5'-GAN(7)TAY-3'/3'-CTN(7)ATR-5'). We identify the methyltransferase responsible for the common motif and suggest the one involved in M. pneumoniae only. Analysis of the distribution of methylation sites across the genome of M. pneumoniae suggests a potential role for methylation in regulating the cell cycle, as well as in regulation of gene expression. To our knowledge, this is one of the first direct methylome profiling studies with single-base resolution from a bacterial organism.
  • dc.description.sponsorship This work was supported in part by National Institutes of Health grants 1RC2HG005618-01 (NHGRI) and 1RC2GM092602-01 (NIGMS). The LS group was supported by the European Research Council (ERC) advanced grant, the Fundación Marcelino Botin, and the Spanish Ministry of Research and Innovation to the ICREA researcher LS. VL-R was funded by the Fundacio´n La Caixa
  • dc.format.mimetype application/pdfca
  • dc.identifier.citation Lluch-Senar M, Luong K, Lloréns-Rico V, Delgado J, Fang G, Spittle K et al. Comprehensive methylome characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at single-base resolution. PLoS Genet. 2013; 9(1): e1003191. DOI: 10.1371/journal.pgen.1003191ca
  • dc.identifier.doi http://dx.doi.org/10.1371/journal.pgen.1003191
  • dc.identifier.issn 1553-7390ca
  • dc.identifier.uri http://hdl.handle.net/10230/22231
  • dc.language.iso engca
  • dc.publisher Public Library of Science (PLoS)ca
  • dc.relation.ispartof PLoS Genetics. 2013;9(1):e1003191
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/232913
  • dc.rights © 2013 Lluch-Senar et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits/nunrestricted use, distribution, and reproduction in any medium, provided the original author and source are creditedca
  • dc.rights.accessRights info:eu-repo/semantics/openAccessca
  • dc.rights.uri http://creativecommons.org/licenses/by/2.5/
  • dc.subject.other Genètica
  • dc.subject.other Metilació
  • dc.subject.other Micoplasmes
  • dc.title Comprehensive methylome characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at single-base resolutionca
  • dc.type info:eu-repo/semantics/articleca
  • dc.type.version info:eu-repo/semantics/publishedVersion

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