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Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation
Transfer RNAs (tRNA) are quintessential in deciphering the genetic code; disseminating nucleic acid triplets into correct amino acid identity. While this decoding function is clear, an emerging theme is that tRNA abundance and functionality can powerfully impact protein production rate, folding, act...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7428014/ https://www.ncbi.nlm.nih.gov/pubmed/32796835 http://dx.doi.org/10.1038/s41467-020-17879-x |
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author | Pinkard, Otis McFarland, Sean Sweet, Thomas Coller, Jeff |
author_facet | Pinkard, Otis McFarland, Sean Sweet, Thomas Coller, Jeff |
author_sort | Pinkard, Otis |
collection | PubMed |
description | Transfer RNAs (tRNA) are quintessential in deciphering the genetic code; disseminating nucleic acid triplets into correct amino acid identity. While this decoding function is clear, an emerging theme is that tRNA abundance and functionality can powerfully impact protein production rate, folding, activity, and messenger RNA stability. Importantly, however, the expression pattern of tRNAs is obliquely known. Here we present Quantitative Mature tRNA sequencing (QuantM-tRNA seq), a technique to monitor tRNA abundance and sequence variants secondary to RNA modifications. With QuantM-tRNA seq, we assess the tRNA transcriptome in mammalian tissues. We observe dramatic distinctions in isodecoder expression and known tRNA modifications between tissues. Remarkably, despite dramatic changes in tRNA isodecoder gene expression, the overall anticodon pool of each tRNA family is similar across tissues. These findings suggest that while anticodon pools appear to be buffered via an unknown mechanism, underlying transcriptomic and epitranscriptomic differences suggest a more complex tRNA regulatory landscape. |
format | Online Article Text |
id | pubmed-7428014 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-74280142020-08-28 Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation Pinkard, Otis McFarland, Sean Sweet, Thomas Coller, Jeff Nat Commun Article Transfer RNAs (tRNA) are quintessential in deciphering the genetic code; disseminating nucleic acid triplets into correct amino acid identity. While this decoding function is clear, an emerging theme is that tRNA abundance and functionality can powerfully impact protein production rate, folding, activity, and messenger RNA stability. Importantly, however, the expression pattern of tRNAs is obliquely known. Here we present Quantitative Mature tRNA sequencing (QuantM-tRNA seq), a technique to monitor tRNA abundance and sequence variants secondary to RNA modifications. With QuantM-tRNA seq, we assess the tRNA transcriptome in mammalian tissues. We observe dramatic distinctions in isodecoder expression and known tRNA modifications between tissues. Remarkably, despite dramatic changes in tRNA isodecoder gene expression, the overall anticodon pool of each tRNA family is similar across tissues. These findings suggest that while anticodon pools appear to be buffered via an unknown mechanism, underlying transcriptomic and epitranscriptomic differences suggest a more complex tRNA regulatory landscape. Nature Publishing Group UK 2020-08-14 /pmc/articles/PMC7428014/ /pubmed/32796835 http://dx.doi.org/10.1038/s41467-020-17879-x Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Pinkard, Otis McFarland, Sean Sweet, Thomas Coller, Jeff Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation |
title | Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation |
title_full | Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation |
title_fullStr | Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation |
title_full_unstemmed | Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation |
title_short | Quantitative tRNA-sequencing uncovers metazoan tissue-specific tRNA regulation |
title_sort | quantitative trna-sequencing uncovers metazoan tissue-specific trna regulation |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7428014/ https://www.ncbi.nlm.nih.gov/pubmed/32796835 http://dx.doi.org/10.1038/s41467-020-17879-x |
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