Integration of multi-omics data of a genome-reduced bacterium: Prevalence of post-transcriptional regulation and its correlation with protein abundances

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  • dc.contributor.author Chen, Wei-Huaca
  • dc.contributor.author van Noort, Veraca
  • dc.contributor.author Lluch-Senar, Maria 1982-ca
  • dc.contributor.author Hennrich, Marco L.ca
  • dc.contributor.author Wodke, Judith A.H.ca
  • dc.contributor.author Yus, Evaca
  • dc.contributor.author Alibés, Andreuca
  • dc.contributor.author Roma, Guglielmoca
  • dc.contributor.author Mende, Daniel R.ca
  • dc.contributor.author Pesavento, Christinaca
  • dc.contributor.author Typas, Athanasiosca
  • dc.contributor.author Gavin, Anne-Claudeca
  • dc.contributor.author Serrano Pubull, Luis, 1982-ca
  • dc.date.accessioned 2016-06-02T16:17:46Z
  • dc.date.available 2016-06-02T16:17:46Z
  • dc.date.issued 2016
  • dc.description.abstract We developed a comprehensive resource for the genome-reduced bacterium Mycoplasma pneumoniae comprising 1748 consistently generated '-omics' data sets, and used it to quantify the power of antisense non-coding RNAs (ncRNAs), lysine acetylation, and protein phosphorylation in predicting protein abundance (11%, 24% and 8%, respectively). These factors taken together are four times more predictive of the proteome abundance than of mRNA abundance. In bacteria, post-translational modifications (PTMs) and ncRNA transcription were both found to increase with decreasing genomic GC-content and genome size. Thus, the evolutionary forces constraining genome size and GC-content modify the relative contributions of the different regulatory layers to proteome homeostasis, and impact more genomic and genetic features than previously appreciated. Indeed, these scaling principles will enable us to develop more informed approaches when engineering minimal synthetic genomes.ca
  • dc.description.sponsorship The research leading to these results has received funding from the European Research Council under the European Union's Seventh Framework Programme (FP7/2007–2013)/ERC Grant Agreement No. 232913. We acknowledge support from the Spanish Ministry of Economy and Competitiveness, ‘Centro de Excelencia Severo Ochoa 2013–2017’, SEV-2012–0208. This project has received funding from the European Union's Horizon 2020 research and innovation program under Grant Agreement No. 634942. Funding for open access charge: European Research council (ERC) advanced Grant Agreement No. 232913, the Fundación Marcelino Botin, the Spanish Ministerio de Economía y Competitividad BIO2007-61762, the ISCIII, Subdirección General de evaluación y fomento de la investigación PI10/01702 to the ICREA researcher L.S.
  • dc.format.mimetype application/pdfca
  • dc.identifier.citation Chen WH, van Noort V, Lluch-Senar M, Hennrich ML, H Wodke JA, Yus E et al. Integration of multi-omics data of a genome-reduced bacterium: Prevalence of post-transcriptional regulation and its correlation with protein abundances. Nucleic Acids Research. 2016; 44(3): 1192-1202. DOI 10.1093/nar/gkw004ca
  • dc.identifier.doi http://dx.doi.org/10.1093/nar/gkw004
  • dc.identifier.issn 1759-6653
  • dc.identifier.uri http://hdl.handle.net/10230/26807
  • dc.language.iso engca
  • dc.publisher Oxford University Pressca
  • dc.relation.ispartof Nucleic Acids Research. 2016; 44(3): 1192-1202
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/3PN/SEV-2012–0208
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/232913
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/634942
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/2PN/BIO2007-61762
  • dc.rights © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research./nThis is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited.ca
  • dc.rights.accessRights info:eu-repo/semantics/openAccessca
  • dc.rights.uri http://creativecommons.org/licenses/by-nc/4.0/ca
  • dc.title Integration of multi-omics data of a genome-reduced bacterium: Prevalence of post-transcriptional regulation and its correlation with protein abundancesca
  • dc.type info:eu-repo/semantics/articleca
  • dc.type.version info:eu-repo/semantics/publishedVersionca

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