Retapamulin-assisted ribosome profiling reveals the alternative bacterial proteome

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dc.contributor.author Meydan, Sezen
dc.contributor.author Marks, James
dc.contributor.author Klepacki, Dorota
dc.contributor.author Sharma, Virag
dc.contributor.author Baranov, Pavel V.
dc.contributor.author Firth, Andrew E.
dc.contributor.author Margus, Tonu
dc.contributor.author Kefi, Amira
dc.contributor.author Vázquez-Laslop, Nora
dc.contributor.author Mankin, Alexander S.
dc.date.accessioned 2019-05-20T08:59:19Z
dc.date.available 2019-05-20T08:59:19Z
dc.date.issued 2019-03-20
dc.identifier.citation Meydan, S., Marks, J., Klepacki, D., Sharma, V., Baranov, P. V., Firth, A. E., Margus, T., Kefi, A., Vázquez-Laslop, N. and Mankin, A. S. (2019) 'Retapamulin-assisted ribosome profiling reveals the alternative bacterial proteome', Molecular Cell, 74(3), pp. 481-493. doi: 10.1016/j.molcel.2019.02.017 en
dc.identifier.volume 74 en
dc.identifier.issued 3 en
dc.identifier.startpage 481 en
dc.identifier.endpage 493 en
dc.identifier.issn 1097-2765
dc.identifier.uri http://hdl.handle.net/10468/7933
dc.identifier.doi 10.1016/j.molcel.2019.02.017 en
dc.description.abstract The use of alternative translation initiation sites enables production of more than one protein from a single gene, thereby expanding the cellular proteome. Although several such examples have been serendipitously found in bacteria, genome-wide mapping of alternative translation start sites has been unattainable. We found that the antibiotic retapamulin specifically arrests initiating ribosomes at start codons of the genes. Retapamulin-enhanced Ribo-seq analysis (Ribo-RET) not only allowed mapping of conventional initiation sites at the beginning of the genes, but strikingly, it also revealed putative internal start sites in a number of Escherichia coli genes. Experiments demonstrated that the internal start codons can be recognized by the ribosomes and direct translation initiation in vitro and in vivo. Proteins, whose synthesis is initiated at internal in-frame and out-of-frame start sites, can be functionally important and contribute to the “alternative” bacterial proteome. The internal start sites may also play regulatory roles in gene expression. en
dc.description.sponsorship National Science Foundation (MCB 1615851); SFI-HRB-Wellcome Trust Biomedical Research Partnership (210692/Z/18/Z); Wellcome Trust (106207) en
dc.format.mimetype application/pdf en
dc.language.iso en en
dc.publisher Elsevier Inc. en
dc.relation.uri http://www.sciencedirect.com/science/article/pii/S1097276519301078
dc.rights © 2019, Elsevier Inc. All rights reserved. This manuscript version is made available under the CC BY-NC-ND 4.0 license. en
dc.rights.uri https://creativecommons.org/licenses/by-nc-nd/4.0/ en
dc.subject Ribosome profiling en
dc.subject Translation initiation en
dc.subject Retapamulin en
dc.subject Alternative initiation en
dc.subject Internal genes en
dc.title Retapamulin-assisted ribosome profiling reveals the alternative bacterial proteome en
dc.type Article (peer-reviewed) en
dc.internal.authorcontactother Pavel Baranov, School Of Biochemistry & Cell Biology, University College Cork, Cork, Ireland. +353-21-490-3000 Email: p.baranov@ucc.ie en
dc.internal.availability Full text available en
dc.check.info Access to this article is restricted until 12 months after publication by request of the publisher. en
dc.check.date 2020-03-20
dc.date.updated 2019-05-20T08:35:46Z
dc.description.version Accepted Version en
dc.internal.rssid 485924216
dc.contributor.funder National Science Foundation en
dc.contributor.funder Science Foundation Ireland en
dc.contributor.funder Health Research Board en
dc.contributor.funder Wellcome Trust en
dc.description.status Peer reviewed en
dc.identifier.journaltitle Molecular Cell en
dc.internal.copyrightchecked Yes
dc.internal.licenseacceptance Yes en
dc.internal.IRISemailaddress p.baranov@ucc.ie en
dc.identifier.eissn 1097-4164


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© 2019, Elsevier Inc. All rights reserved. This manuscript version is made available under the CC BY-NC-ND 4.0 license. Except where otherwise noted, this item's license is described as © 2019, Elsevier Inc. All rights reserved. This manuscript version is made available under the CC BY-NC-ND 4.0 license.
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