Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translation
Abstract Nonsense‐mediated mRNA decay (NMD) is a surveillance system that eliminates transcripts with premature termination codons. In this study, we show that mRNAs targeted by NMD are also suppressed at the translational level. The low translational efficiency (TE) is a consequence of multiple fea...
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| Format: | Article |
| Language: | English |
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Springer Nature
2010-12-01
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| Series: | Molecular Systems Biology |
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| Online Access: | https://doi.org/10.1038/msb.2010.101 |
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| author | Zhenguo Zhang Li Zhou Landian Hu Yufei Zhu Heng Xu Yang Liu Xianfen Chen Xianfu Yi Xiangyin Kong Laurence D Hurst |
| author_facet | Zhenguo Zhang Li Zhou Landian Hu Yufei Zhu Heng Xu Yang Liu Xianfen Chen Xianfu Yi Xiangyin Kong Laurence D Hurst |
| author_sort | Zhenguo Zhang |
| collection | DOAJ |
| description | Abstract Nonsense‐mediated mRNA decay (NMD) is a surveillance system that eliminates transcripts with premature termination codons. In this study, we show that mRNAs targeted by NMD are also suppressed at the translational level. The low translational efficiency (TE) is a consequence of multiple features acting in concert, including low translation initiation rate, mediated by 5′ secondary structure and by use of weak initiation sites, and low translation elongation speed, mediated by low codon usage bias. Despite low elongation rates, NMD transcripts show low ribosome density in the coding sequence, probably owing to low initiation rates, high abortion rates or rapid transit of the ribosome following initiation failure. The low TE is observed in the absence of NMD and is not explained by low transcript abundance. Translational inefficiency is flexible, such that NMD targets have increased TE upon starvation. We propose that the low TE predisposes to NMD and/or that it is part of a mechanism for regulation of NMD transcripts. |
| format | Article |
| id | doaj-art-78deea994d15422eb71e4347c033e8f8 |
| institution | Kabale University |
| issn | 1744-4292 |
| language | English |
| publishDate | 2010-12-01 |
| publisher | Springer Nature |
| record_format | Article |
| series | Molecular Systems Biology |
| spelling | doaj-art-78deea994d15422eb71e4347c033e8f82025-08-24T12:00:49ZengSpringer NatureMolecular Systems Biology1744-42922010-12-01611910.1038/msb.2010.101Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translationZhenguo Zhang0Li Zhou1Landian Hu2Yufei Zhu3Heng Xu4Yang Liu5Xianfen Chen6Xianfu Yi7Xiangyin Kong8Laurence D Hurst9The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM)Department of Biology and Biochemistry, University of BathAbstract Nonsense‐mediated mRNA decay (NMD) is a surveillance system that eliminates transcripts with premature termination codons. In this study, we show that mRNAs targeted by NMD are also suppressed at the translational level. The low translational efficiency (TE) is a consequence of multiple features acting in concert, including low translation initiation rate, mediated by 5′ secondary structure and by use of weak initiation sites, and low translation elongation speed, mediated by low codon usage bias. Despite low elongation rates, NMD transcripts show low ribosome density in the coding sequence, probably owing to low initiation rates, high abortion rates or rapid transit of the ribosome following initiation failure. The low TE is observed in the absence of NMD and is not explained by low transcript abundance. Translational inefficiency is flexible, such that NMD targets have increased TE upon starvation. We propose that the low TE predisposes to NMD and/or that it is part of a mechanism for regulation of NMD transcripts.https://doi.org/10.1038/msb.2010.101nonsense‐mediated mRNA decaytranslation efficiencytranslation repression |
| spellingShingle | Zhenguo Zhang Li Zhou Landian Hu Yufei Zhu Heng Xu Yang Liu Xianfen Chen Xianfu Yi Xiangyin Kong Laurence D Hurst Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translation Molecular Systems Biology nonsense‐mediated mRNA decay translation efficiency translation repression |
| title | Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translation |
| title_full | Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translation |
| title_fullStr | Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translation |
| title_full_unstemmed | Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translation |
| title_short | Nonsense‐mediated decay targets have multiple sequence‐related features that can inhibit translation |
| title_sort | nonsense mediated decay targets have multiple sequence related features that can inhibit translation |
| topic | nonsense‐mediated mRNA decay translation efficiency translation repression |
| url | https://doi.org/10.1038/msb.2010.101 |
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