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DOI	10.1073/pnas.2022590118
	Genome-wide role of codon usage on transcription and identification of potential regulators
	Zhao F.; Zhou Z.; Dang Y.; Na H.; Adam C.; Lipzen A.; Ng V.; Grigoriev I.V.; Liu Y.
发表日期	2021
ISSN	00278424
卷号	118 期号:6
英文摘要	Codon usage bias is a fundamental feature of all genomes and plays an important role in determining gene expression levels. The codon usage was thought to influence gene expression mainly due to its impact on translation. Recently, however, codon usage was shown to affect transcription of fungal and mammalian genes, indicating the existence of a gene regulatory phenomenon with unknown mechanism. In Neurospora, codon usage biases strongly correlate with mRNA levels genome-wide, and here we show that the correlation between codon usage and RNA levels is maintained in the nucleus. In addition, codon optimality is tightly correlated with both total and nuclear RNA levels, suggesting that codon usage broadly influences mRNA levels through transcription in a translation-independent manner. A large-scale RNA sequencing-based genetic screen in Neurospora identified 18 candidate factors that when deleted decreased the genome-wide correlation between codon usage and RNA levels and reduced the codon usage effect on gene expression. Most of these factors, such as the H3K36 methyltransferase, are chromatin regulators or transcription factors. Together, our results suggest that the transcriptional effect of codon usage is mediated by multiple transcriptional regulatory mechanisms. © 2021 National Academy of Sciences. All rights reserved.
英文关键词	Codon usage; H3K36 methyltransferase; Neurospora; Transcription; Translation
语种	英语
来源期刊	Proceedings of the National Academy of Sciences of the United States of America
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/180710
作者单位	Department of Physiology, University of Texas, Southwestern Medical Center, Dallas, TX 75390, United States; State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, Hubei, 430070, China; State Key Laboratory for Conservation and Utilization of Bio-Resources, Center for Life Science, School of Life Sciences, Yunnan University, Kunming, Yunnan, 650091, China; US Department of Energy, Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, United States; Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, United States
推荐引用方式 GB/T 7714	Zhao F.,Zhou Z.,Dang Y.,et al. Genome-wide role of codon usage on transcription and identification of potential regulators[J],2021,118(6).
APA	Zhao F..,Zhou Z..,Dang Y..,Na H..,Adam C..,...&Liu Y..(2021).Genome-wide role of codon usage on transcription and identification of potential regulators.Proceedings of the National Academy of Sciences of the United States of America,118(6).
MLA	Zhao F.,et al."Genome-wide role of codon usage on transcription and identification of potential regulators".Proceedings of the National Academy of Sciences of the United States of America 118.6(2021).