Literature DB >> 30105929

Poor codon optimality as a signal to degrade transcripts with frameshifts.

Miquel Àngel Schikora-Tamarit1, Lucas B Carey1.   

Abstract

Frameshifting errors are common and mRNA quality control pathways, such as nonsense-mediated decay (NMD), exist to degrade these aberrant transcripts. Recent work has shown the existence of a genetic link between NMD and codon-usage mediated mRNA decay. Here we present computational evidence that these pathways are synergic for removing frameshifts.

Keywords:  Nonsense-mediated decay; codon bias; frameshifts; mRNA quality; translation

Mesh：

Substances：

Year:  2018        PMID： 30105929      PMCID： PMC6150615          DOI： 10.1080/21541264.2018.1511676

Source DB:  PubMed          Journal:  Transcription        ISSN： 2154-1272


  32 in total

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Authors:  Nadia Amrani; Robin Ganesan; Stephanie Kervestin; David A Mangus; Shubhendu Ghosh; Allan Jacobson
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2.  The transcriptional landscape of the yeast genome defined by RNA sequencing.

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Journal:  Science       Date:  2008-05-01       Impact factor: 47.728

Review 3.  Translational selection and molecular evolution.

Authors:  H Akashi; A Eyre-Walker
Journal:  Curr Opin Genet Dev       Date:  1998-12       Impact factor: 5.578

Review 4.  Speeding with control: codon usage, tRNAs, and ribosomes.

Authors:  Eva Maria Novoa; Lluís Ribas de Pouplana
Journal:  Trends Genet       Date:  2012-08-23       Impact factor: 11.639

5.  Codon usage of highly expressed genes affects proteome-wide translation efficiency.

Authors:  Idan Frumkin; Marc J Lajoie; Christopher J Gregg; Gil Hornung; George M Church; Yitzhak Pilpel
Journal:  Proc Natl Acad Sci U S A       Date:  2018-05-07       Impact factor: 11.205

6.  Codon optimization of xylanase gene xynB from the thermophilic bacterium Dictyoglomus thermophilum for expression in the filamentous fungus Trichoderma reesei.

Authors:  V S Te'o; A E Cziferszky; P L Bergquist; K M Nevalainen
Journal:  FEMS Microbiol Lett       Date:  2000-09-01       Impact factor: 2.742

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Authors:  J Zhang; X Sun; Y Qian; J P LaDuca; L E Maquat
Journal:  Mol Cell Biol       Date:  1998-09       Impact factor: 4.272

8.  Codon Usage and 3' UTR Length Determine Maternal mRNA Stability in Zebrafish.

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Journal:  Mol Cell       Date:  2016-03-17       Impact factor: 17.970

9.  Saccharomyces Genome Database: the genomics resource of budding yeast.

Authors:  J Michael Cherry; Eurie L Hong; Craig Amundsen; Rama Balakrishnan; Gail Binkley; Esther T Chan; Karen R Christie; Maria C Costanzo; Selina S Dwight; Stacia R Engel; Dianna G Fisk; Jodi E Hirschman; Benjamin C Hitz; Kalpana Karra; Cynthia J Krieger; Stuart R Miyasato; Rob S Nash; Julie Park; Marek S Skrzypek; Matt Simison; Shuai Weng; Edith D Wong
Journal:  Nucleic Acids Res       Date:  2011-11-21       Impact factor: 16.971

10.  RNA polymerase errors cause splicing defects and can be regulated by differential expression of RNA polymerase subunits.

Authors:  Lucas B Carey
Journal:  Elife       Date:  2015-12-10       Impact factor: 8.140
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  1 in total

1.  Translation affects mRNA stability in a codon-dependent manner in human cells.

Authors:  Qiushuang Wu; Santiago Gerardo Medina; Gopal Kushawah; Michelle Lynn DeVore; Luciana A Castellano; Jacqelyn M Hand; Matthew Wright; Ariel Alejandro Bazzini
Journal:  Elife       Date:  2019-04-23       Impact factor: 8.140
  1 in total

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