A Role for REP Sequences in Regulating Translation
REP sequences are highly structured elements found downstream of ∼500 genes in Escherichia coli that result in extensive stem-loop structures in their mRNAs. However, their physiological role has remained elusive. Here, we show that REP sequences can down-regulate translation, but only if they are w...
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| Veröffentlicht in: | Molecular cell 2015-05, Vol.58 (3), p.431-439 |
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| creator | Liang, Wenxing Rudd, Kenneth E. Deutscher, Murray P. |
| description | REP sequences are highly structured elements found downstream of ∼500 genes in Escherichia coli that result in extensive stem-loop structures in their mRNAs. However, their physiological role has remained elusive. Here, we show that REP sequences can down-regulate translation, but only if they are within 15 nt of a termination codon; a spacing of 16 nt has no effect suggesting that the REP element acts to stall ribosome movement. Ribosome stalling leads to cleavage of the mRNA and induction of the trans-translation process. Using nrdAB as a model, we find that its regulation can be partially reversed by overexpression of RNA helicases, and can be fully overcome upon UV stress, emphasizing the importance of this regulatory process. Since 50% of REP-associated genes have these elements within the critical 15 nt, these findings identify a regulatory mechanism with the potential to affect translation from a large number of genes.
•REP sequences down-regulate translation, but only when within 15 nt of a stop codon•REP-dependent translational regulation requires trans-translation•Overexpression of RNA helicases or UV stress reverse REP-dependent regulation•This work identifies a regulatory process that can alter translation of many genes |
| doi_str_mv | 10.1016/j.molcel.2015.03.019 |
| format | Article |
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•REP sequences down-regulate translation, but only when within 15 nt of a stop codon•REP-dependent translational regulation requires trans-translation•Overexpression of RNA helicases or UV stress reverse REP-dependent regulation•This work identifies a regulatory process that can alter translation of many genes</description><subject>Blotting, Northern</subject><subject>Escherichia coli</subject><subject>Escherichia coli - genetics</subject><subject>Escherichia coli - metabolism</subject><subject>Escherichia coli Proteins - genetics</subject><subject>gene expression regulation</subject><subject>gene overexpression</subject><subject>messenger RNA</subject><subject>Models, Genetic</subject><subject>Protein Biosynthesis</subject><subject>Repetitive Sequences, Nucleic Acid - genetics</subject><subject>Ribonucleoside Diphosphate Reductase - genetics</subject><subject>Ribonucleotide Reductases - genetics</subject><subject>ribosomes</subject><subject>RNA helicases</subject><subject>RNA Stability</subject><subject>RNA, Messenger - genetics</subject><subject>RNA, Messenger - metabolism</subject><subject>stop codon</subject><subject>translation (genetics)</subject><issn>1097-2765</issn><issn>1097-4164</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkVtLxDAQhYMo3v-BSB992ZpJc2lfBBFvICirPoc0na5Zuo0m3QX_vVl2vb3o0wzkzMmc-Qg5ApoDBXk6zWe-s9jljILIaZFTqDbILtBKjThIvrnumZJih-zFOKUUuCirbbLDUgGq-C5h59nYd5i1PmTjy4fsEd_m2FuMmeuzMU7mnRlcP8megunjsvf9AdlqTRfxcF33yfPV5dPFzeju_vr24vxuZIWUw6hmNdbKCFmZVgAVnNctNtAKozitRQmyEVAZlAqglFIwVZrWtsKqwgBXttgnZyvf13k9w8ZiPwTT6dfgZia8a2-c_v3Suxc98QvNOVOCyWRwsjYIPqWKg565mC7WmR79PGrGWNqLCVr9KwVZUkbLgpVJyldSG3yMAduvjYDqJRk91SsyeklG00InMmns-Gear6FPFN9xMd104TDoaN0SReMC2kE33v39wweTNqAs</recordid><startdate>20150507</startdate><enddate>20150507</enddate><creator>Liang, Wenxing</creator><creator>Rudd, Kenneth E.</creator><creator>Deutscher, Murray P.</creator><general>Elsevier Inc</general><scope>6I.</scope><scope>AAFTH</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7S9</scope><scope>L.6</scope><scope>5PM</scope></search><sort><creationdate>20150507</creationdate><title>A Role for REP Sequences in Regulating Translation</title><author>Liang, Wenxing ; Rudd, Kenneth E. ; Deutscher, Murray P.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c566t-b2beb7a569af510544bfed1f5a740b5816d519ae67118665278afcf5c73a147c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Blotting, Northern</topic><topic>Escherichia coli</topic><topic>Escherichia coli - genetics</topic><topic>Escherichia coli - metabolism</topic><topic>Escherichia coli Proteins - genetics</topic><topic>gene expression regulation</topic><topic>gene overexpression</topic><topic>messenger RNA</topic><topic>Models, Genetic</topic><topic>Protein Biosynthesis</topic><topic>Repetitive Sequences, Nucleic Acid - genetics</topic><topic>Ribonucleoside Diphosphate Reductase - genetics</topic><topic>Ribonucleotide Reductases - genetics</topic><topic>ribosomes</topic><topic>RNA helicases</topic><topic>RNA Stability</topic><topic>RNA, Messenger - genetics</topic><topic>RNA, Messenger - metabolism</topic><topic>stop codon</topic><topic>translation (genetics)</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Liang, Wenxing</creatorcontrib><creatorcontrib>Rudd, Kenneth E.</creatorcontrib><creatorcontrib>Deutscher, Murray P.</creatorcontrib><collection>ScienceDirect Open Access Titles</collection><collection>Elsevier:ScienceDirect:Open Access</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>AGRICOLA</collection><collection>AGRICOLA - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Molecular cell</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Liang, Wenxing</au><au>Rudd, Kenneth E.</au><au>Deutscher, Murray P.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>A Role for REP Sequences in Regulating Translation</atitle><jtitle>Molecular cell</jtitle><addtitle>Mol Cell</addtitle><date>2015-05-07</date><risdate>2015</risdate><volume>58</volume><issue>3</issue><spage>431</spage><epage>439</epage><pages>431-439</pages><issn>1097-2765</issn><eissn>1097-4164</eissn><abstract>REP sequences are highly structured elements found downstream of ∼500 genes in Escherichia coli that result in extensive stem-loop structures in their mRNAs. However, their physiological role has remained elusive. Here, we show that REP sequences can down-regulate translation, but only if they are within 15 nt of a termination codon; a spacing of 16 nt has no effect suggesting that the REP element acts to stall ribosome movement. Ribosome stalling leads to cleavage of the mRNA and induction of the trans-translation process. Using nrdAB as a model, we find that its regulation can be partially reversed by overexpression of RNA helicases, and can be fully overcome upon UV stress, emphasizing the importance of this regulatory process. Since 50% of REP-associated genes have these elements within the critical 15 nt, these findings identify a regulatory mechanism with the potential to affect translation from a large number of genes.
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| subjects | Blotting, Northern Escherichia coli Escherichia coli - genetics Escherichia coli - metabolism Escherichia coli Proteins - genetics gene expression regulation gene overexpression messenger RNA Models, Genetic Protein Biosynthesis Repetitive Sequences, Nucleic Acid - genetics Ribonucleoside Diphosphate Reductase - genetics Ribonucleotide Reductases - genetics ribosomes RNA helicases RNA Stability RNA, Messenger - genetics RNA, Messenger - metabolism stop codon translation (genetics) |
| title | A Role for REP Sequences in Regulating Translation |
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