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Translation efficiency is maintained at elevated temperature in Escherichia coli.

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Title: Translation efficiency is maintained at elevated temperature in Escherichia coli.
Authors: Morgan, Gareth J.1, Burkhardt, David H.2, Kelly, Jeffery W.1,3, Powers, Evan T.1 epowers@scripps.edu
Source: Journal of Biological Chemistry. 1/19/2018, Vol. 293 Issue 3, p777-793. 17p.
Subjects: Escherichia coli, Genetic translation, Genetic overexpression, Heat shock factors, High temperatures, Messenger RNA
Abstract: Cellular protein levels are dictated by the balance between gene transcription, mRNAtranslation, and protein degradation, among other factors. Translation requires the interplay of several RNA hybridization processes, which are expected to be temperature-sensitive. We used ribosome profiling to monitor translation in Escherichia coli at 30 °C and to investigate how this changes after 10-20 min of heat shock at 42 °C. Translation efficiencies are robustly maintained after thermal heat shock and after mimicking the heat-shock response transcriptional program at 30 °C by overexpressing the heat shock δ factor encoded by the rpoH gene. We compared translation efficiency, the ratio of ribosome footprint reads to mRNA reads for each gene, to parameters derived from gene sequences. Genes with stable mRNA structures, non-optimal codon use, and those whose gene product is cotranslationally translocated into the inner membrane are generally less highly translated than other genes. Comparison with other published datasets suggests a role for translational elongation in coupling mRNA structures to translation initiation. Genome-wide calculations of the temperature dependence of mRNA structure predict that relatively few mRNAs show a melting transition between 30 and 42 °C, consistent with the observed lack of changes in translation efficiency. We developed a linear model with six parameters that can predict 38% of the variation in translation efficiency between genes, which may be useful in interpreting transcriptome data. [ABSTRACT FROM AUTHOR]
Copyright of Journal of Biological Chemistry is the property of Elsevier B.V. and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
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  Data: Translation efficiency is maintained at elevated temperature in Escherichia coli.
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  Data: <searchLink fieldCode="AR" term="%22Morgan%2C+Gareth+J%2E%22">Morgan, Gareth J.</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Burkhardt%2C+David+H%2E%22">Burkhardt, David H.</searchLink><relatesTo>2</relatesTo><br /><searchLink fieldCode="AR" term="%22Kelly%2C+Jeffery+W%2E%22">Kelly, Jeffery W.</searchLink><relatesTo>1,3</relatesTo><br /><searchLink fieldCode="AR" term="%22Powers%2C+Evan+T%2E%22">Powers, Evan T.</searchLink><relatesTo>1</relatesTo><i> epowers@scripps.edu</i>
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  Data: <searchLink fieldCode="JN" term="%22Journal+of+Biological+Chemistry%22">Journal of Biological Chemistry</searchLink>. 1/19/2018, Vol. 293 Issue 3, p777-793. 17p.
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  Data: <searchLink fieldCode="DE" term="%22Escherichia+coli%22">Escherichia coli</searchLink><br /><searchLink fieldCode="DE" term="%22Genetic+translation%22">Genetic translation</searchLink><br /><searchLink fieldCode="DE" term="%22Genetic+overexpression%22">Genetic overexpression</searchLink><br /><searchLink fieldCode="DE" term="%22Heat+shock+factors%22">Heat shock factors</searchLink><br /><searchLink fieldCode="DE" term="%22High+temperatures%22">High temperatures</searchLink><br /><searchLink fieldCode="DE" term="%22Messenger+RNA%22">Messenger RNA</searchLink>
– Name: Abstract
  Label: Abstract
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  Data: Cellular protein levels are dictated by the balance between gene transcription, mRNAtranslation, and protein degradation, among other factors. Translation requires the interplay of several RNA hybridization processes, which are expected to be temperature-sensitive. We used ribosome profiling to monitor translation in Escherichia coli at 30 °C and to investigate how this changes after 10-20 min of heat shock at 42 °C. Translation efficiencies are robustly maintained after thermal heat shock and after mimicking the heat-shock response transcriptional program at 30 °C by overexpressing the heat shock δ factor encoded by the rpoH gene. We compared translation efficiency, the ratio of ribosome footprint reads to mRNA reads for each gene, to parameters derived from gene sequences. Genes with stable mRNA structures, non-optimal codon use, and those whose gene product is cotranslationally translocated into the inner membrane are generally less highly translated than other genes. Comparison with other published datasets suggests a role for translational elongation in coupling mRNA structures to translation initiation. Genome-wide calculations of the temperature dependence of mRNA structure predict that relatively few mRNAs show a melting transition between 30 and 42 °C, consistent with the observed lack of changes in translation efficiency. We developed a linear model with six parameters that can predict 38% of the variation in translation efficiency between genes, which may be useful in interpreting transcriptome data. [ABSTRACT FROM AUTHOR]
– Name: AbstractSuppliedCopyright
  Label:
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  Data: <i>Copyright of Journal of Biological Chemistry is the property of Elsevier B.V. and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.)
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RecordInfo BibRecord:
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      – Type: doi
        Value: 10.1074/jbc.RA117.000284
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      – Code: eng
        Text: English
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        Type: general
      – SubjectFull: Genetic translation
        Type: general
      – SubjectFull: Genetic overexpression
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      – SubjectFull: Heat shock factors
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      – SubjectFull: High temperatures
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      – SubjectFull: Messenger RNA
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      – TitleFull: Translation efficiency is maintained at elevated temperature in Escherichia coli.
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            NameFull: Burkhardt, David H.
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              M: 01
              Text: 1/19/2018
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