Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation
Codon usage biases are found in all genomes and influence protein expression levels. The codon usage effect on protein expression was thought to be mainly due to its impact on translation. Here, we show that transcription termination is an important driving force for codon usage bias in eukaryotes....
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doaj-a4e2c0fdd33d43e3a47b504de9bb67382021-05-05T15:44:15ZengeLife Sciences Publications LtdeLife2050-084X2018-03-01710.7554/eLife.33569Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylationZhipeng Zhou0https://orcid.org/0000-0002-8449-7194Yunkun Dang1Mian Zhou2Haiyan Yuan3Yi Liu4https://orcid.org/0000-0002-8801-9317Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, United StatesState Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan University, Kunming, China; Center for Life Science, School of Life Sciences, Yunnan University, Kunming, ChinaState Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai, ChinaDepartment of Physiology, The University of Texas Southwestern Medical Center, Dallas, United StatesDepartment of Physiology, The University of Texas Southwestern Medical Center, Dallas, United StatesCodon usage biases are found in all genomes and influence protein expression levels. The codon usage effect on protein expression was thought to be mainly due to its impact on translation. Here, we show that transcription termination is an important driving force for codon usage bias in eukaryotes. Using Neurospora crassa as a model organism, we demonstrated that introduction of rare codons results in premature transcription termination (PTT) within open reading frames and abolishment of full-length mRNA. PTT is a wide-spread phenomenon in Neurospora, and there is a strong negative correlation between codon usage bias and PTT events. Rare codons lead to the formation of putative poly(A) signals and PTT. A similar role for codon usage bias was also observed in mouse cells. Together, these results suggest that codon usage biases co-evolve with the transcription termination machinery to suppress premature termination of transcription and thus allow for optimal gene expression.https://elifesciences.org/articles/33569codon usagetranscription terminationNeurospora |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Zhipeng Zhou Yunkun Dang Mian Zhou Haiyan Yuan Yi Liu |
spellingShingle |
Zhipeng Zhou Yunkun Dang Mian Zhou Haiyan Yuan Yi Liu Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation eLife codon usage transcription termination Neurospora |
author_facet |
Zhipeng Zhou Yunkun Dang Mian Zhou Haiyan Yuan Yi Liu |
author_sort |
Zhipeng Zhou |
title |
Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation |
title_short |
Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation |
title_full |
Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation |
title_fullStr |
Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation |
title_full_unstemmed |
Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation |
title_sort |
codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation |
publisher |
eLife Sciences Publications Ltd |
series |
eLife |
issn |
2050-084X |
publishDate |
2018-03-01 |
description |
Codon usage biases are found in all genomes and influence protein expression levels. The codon usage effect on protein expression was thought to be mainly due to its impact on translation. Here, we show that transcription termination is an important driving force for codon usage bias in eukaryotes. Using Neurospora crassa as a model organism, we demonstrated that introduction of rare codons results in premature transcription termination (PTT) within open reading frames and abolishment of full-length mRNA. PTT is a wide-spread phenomenon in Neurospora, and there is a strong negative correlation between codon usage bias and PTT events. Rare codons lead to the formation of putative poly(A) signals and PTT. A similar role for codon usage bias was also observed in mouse cells. Together, these results suggest that codon usage biases co-evolve with the transcription termination machinery to suppress premature termination of transcription and thus allow for optimal gene expression. |
topic |
codon usage transcription termination Neurospora |
url |
https://elifesciences.org/articles/33569 |
work_keys_str_mv |
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1721459931609038848 |