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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-Hua
dc.contributor.author van Noort, Vera
dc.contributor.author Lluch-Senar, Maria 1982-
dc.contributor.author Hennrich, Marco L.
dc.contributor.author Wodke, Judith A.H.
dc.contributor.author Yus, Eva
dc.contributor.author Alibés, Andreu
dc.contributor.author Roma, Guglielmo
dc.contributor.author Mende, Daniel R.
dc.contributor.author Pesavento, Christina
dc.contributor.author Typas, Athanasios
dc.contributor.author Gavin, Anne-Claude
dc.contributor.author Serrano Pubull, Luis, 1982-
dc.date.accessioned 2016-06-02T16:17:46Z
dc.date.available 2016-06-02T16:17:46Z
dc.date.issued 2016
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/gkw004
dc.identifier.issn 1759-6653
dc.identifier.uri http://hdl.handle.net/10230/26807
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.
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/pdf
dc.language.iso eng
dc.publisher Oxford University Press
dc.relation.ispartof Nucleic Acids Research. 2016; 44(3): 1192-1202
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.
dc.rights.uri http://creativecommons.org/licenses/by-nc/4.0/
dc.title Integration of multi-omics data of a genome-reduced bacterium: Prevalence of post-transcriptional regulation and its correlation with protein abundances
dc.type info:eu-repo/semantics/article
dc.identifier.doi http://dx.doi.org/10.1093/nar/gkw004
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.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion


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