生长速率在稳态和非稳态下控制mRNA周转。
Growth rate controls mRNA turnover in steady and non-steady states.
作者信息
García-Martínez José, Troulé Kevin, Chávez Sebastián, Pérez-Ortín José E
机构信息
a Departamento de Genética and E.R.I. Biotecmed , Universitat de València , Burjassot , Spain.
b Departamento de Bioquımica y Biologia Molecular and E.R.I. Biotecmed, Universitat de València , Burjassot , Spain.
出版信息
RNA Biol. 2016 Dec;13(12):1175-1181. doi: 10.1080/15476286.2016.1236171. Epub 2016 Sep 20.
Abstract
Gene expression has been investigated in relation with growth rate in the yeast Saccharomyces cerevisiae, following different experimental strategies. The expression of some specific gene functional categories increases or decreases with growth rate. Our recently published results have unveiled that these changes in mRNA concentration with growth depend on the relative alteration of mRNA synthesis and decay, and that, in addition to this gene-specific transcriptomic signature of growth, global mRNA turnover increases with growth rate. We discuss here these results in relation with other previous and concurrent publications, and we add new evidence which indicates that growth rate controls mRNA turnover even under non-steady-state conditions.
摘要
人们采用不同的实验策略，研究了酿酒酵母中基因表达与生长速率的关系。某些特定基因功能类别的表达会随着生长速率的增加或减少。我们最近发表的结果表明，mRNA浓度随生长的这些变化取决于mRNA合成和降解的相对变化，并且，除了这种生长的基因特异性转录组特征外，整体mRNA周转率也随生长速率增加。我们在此结合之前和同期的其他出版物讨论这些结果，并补充新的证据，表明即使在非稳态条件下，生长速率也能控制mRNA周转率。
相似文献
1
Growth rate controls mRNA turnover in steady and non-steady states.生长速率在稳态和非稳态下控制mRNA周转。
RNA Biol. 2016 Dec;13(12):1175-1181. doi: 10.1080/15476286.2016.1236171. Epub 2016 Sep 20.
2
Imaging single mRNAs to study dynamics of mRNA export in the yeast Saccharomyces cerevisiae.对单个信使核糖核酸进行成像以研究酿酒酵母中信使核糖核酸输出的动力学。
Methods. 2016 Apr 1;98:104-114. doi: 10.1016/j.ymeth.2016.01.006. Epub 2016 Jan 16.
3
The transcriptional inhibitor thiolutin blocks mRNA degradation in yeast.转录抑制剂硫藤黄素可阻断酵母中的mRNA降解。
Yeast. 2008 Feb;25(2):85-92. doi: 10.1002/yea.1548.
4
Method for measuring mRNA decay rate in Saccharomyces cerevisiae.测量酿酒酵母中mRNA衰减率的方法。
Methods Enzymol. 2013;530:137-55. doi: 10.1016/B978-0-12-420037-1.00007-5.
5
There is a steady-state transcriptome in exponentially growing yeast cells.在指数生长的酵母细胞中存在一个稳定的转录组。
Yeast. 2010 Jul;27(7):413-22. doi: 10.1002/yea.1768.
6
The mating response cascade does not modulate changes in the steady-state level of target mRNAs through control of mRNA stability.交配反应级联不会通过控制mRNA稳定性来调节靶mRNA稳态水平的变化。
Yeast. 2009 May;26(5):261-72. doi: 10.1002/yea.1661.
7
Absolute transcript levels of thioredoxin- and glutathione-dependent redox systems in Saccharomyces cerevisiae: response to stress and modulation with growth.酿酒酵母中硫氧还蛋白和谷胱甘肽依赖性氧化还原系统的绝对转录水平：对压力的响应及随生长的调节
Biochem J. 2004 Oct 1;383(Pt 1):139-47. doi: 10.1042/BJ20040851.
8
Measurement of mRNA decay rates in Saccharomyces cerevisiae using rpb1-1 strains.使用rpb1-1菌株测量酿酒酵母中的mRNA衰减率。
J Vis Exp. 2014 Dec 13(94):52240. doi: 10.3791/52240.
9
Dynamic profiling of mRNA turnover reveals gene-specific and system-wide regulation of mRNA decay.动态 mRNA 周转率分析揭示了 mRNA 降解的基因特异性和系统范围调节。
Mol Biol Cell. 2011 Aug 1;22(15):2787-95. doi: 10.1091/mbc.E11-01-0028. Epub 2011 Jun 16.
10
Genomics of mRNA turnover.mRNA 周转的基因组学
Brief Funct Genomic Proteomic. 2007 Dec;6(4):282-91. doi: 10.1093/bfgp/elm029. Epub 2008 Jan 22.
引用本文的文献
1
The zinc-finger transcription factor Sfp1 imprints specific classes of mRNAs and links their synthesis to cytoplasmic decay.锌指转录因子Sfp1标记特定类别的mRNA，并将它们的合成与细胞质降解联系起来。
Elife. 2024 Oct 2;12:RP90766. doi: 10.7554/eLife.90766.
2
Decoupled transcript and protein concentrations ensure histone homeostasis in different nutrients.在不同营养条件下，解偶联的转录物和蛋白质浓度可确保组蛋白的稳态。
EMBO J. 2024 Nov;43(21):5141-5168. doi: 10.1038/s44318-024-00227-w. Epub 2024 Sep 13.
3
Biochemical Evaluation of and Strains in Batch Cultures for Production Optimization of Valuable Metabolites.分批培养中用于优化有价值代谢产物生产的菌株的生化评估。
Microorganisms. 2022 May 3;10(5):964. doi: 10.3390/microorganisms10050964.
4
The Association of Rpb4 with RNA Polymerase II Depends on CTD Ser5P Phosphatase Rtr1 and Influences mRNA Decay in .Rpb4 与 RNA 聚合酶 II 的关联依赖于 CTD Ser5P 磷酸酶 Rtr1，并影响. 中的 mRNA 降解。
Int J Mol Sci. 2022 Feb 11;23(4):2002. doi: 10.3390/ijms23042002.
5
Xrn1 influence on gene transcription results from the combination of general effects on elongating RNA pol II and gene-specific chromatin configuration.Xrn1 对基因转录的影响源自对延伸中的 RNA pol II 的普遍影响与基因特异性染色质构象的结合。
RNA Biol. 2021 Sep;18(9):1310-1323. doi: 10.1080/15476286.2020.1845504. Epub 2020 Dec 1.
6
The mRNA degradation factor Xrn1 regulates transcription elongation in parallel to Ccr4.mRNA 降解因子 Xrn1 与 Ccr4 平行调节转录延伸。
Nucleic Acids Res. 2019 Oct 10;47(18):9524-9541. doi: 10.1093/nar/gkz660.
7
A role for Mog1 in H2Bub1 and H3K4me3 regulation affecting RNAPII transcription and mRNA export.Mog1 在 H2Bub1 和 H3K4me3 调控中的作用影响 RNAPII 转录和 mRNA 输出。
EMBO Rep. 2018 Nov;19(11). doi: 10.15252/embr.201845992. Epub 2018 Sep 24.
8
Systematic identification of factors mediating accelerated mRNA degradation in response to changes in environmental nitrogen.系统鉴定环境氮变化时介导 mRNA 加速降解的因素。
PLoS Genet. 2018 May 21;14(5):e1007406. doi: 10.1371/journal.pgen.1007406. eCollection 2018 May.
9
Promoter architecture determines cotranslational regulation of mRNA.启动子结构决定了 mRNA 的共翻译调控。
Genome Res. 2018 Apr;28(4):509-518. doi: 10.1101/gr.230458.117. Epub 2018 Mar 22.
10
Asymmetric cell division requires specific mechanisms for adjusting global transcription.不对称细胞分裂需要特定机制来调节整体转录。
Nucleic Acids Res. 2017 Dec 1;45(21):12401-12412. doi: 10.1093/nar/gkx974.
本文引用的文献
1
Translational Capacity of a Cell Is Determined during Transcription Elongation via the Ccr4-Not Complex.细胞的翻译能力在转录延伸过程中通过Ccr4-Not复合物得以确定。
Cell Rep. 2016 May 24;15(8):1782-94. doi: 10.1016/j.celrep.2016.04.055. Epub 2016 May 12.
2
The importance of controlling mRNA turnover during cell proliferation.在细胞增殖过程中控制mRNA周转的重要性。
Curr Genet. 2016 Nov;62(4):701-710. doi: 10.1007/s00294-016-0594-2. Epub 2016 Mar 23.
3
The mRNA cap-binding protein Cbc1 is required for high and timely expression of genes by promoting the accumulation of gene-specific activators at promoters.mRNA帽结合蛋白Cbc1通过促进基因特异性激活因子在启动子处的积累，来实现基因的高效及时表达。
Biochim Biophys Acta. 2016 Feb;1859(2):405-19. doi: 10.1016/j.bbagrm.2016.01.002. Epub 2016 Jan 13.
4
The cellular growth rate controls overall mRNA turnover, and modulates either transcription or degradation rates of particular gene regulons.细胞生长速率控制着整体mRNA周转，并调节特定基因调控子的转录或降解速率。
Nucleic Acids Res. 2016 May 5;44(8):3643-58. doi: 10.1093/nar/gkv1512. Epub 2015 Dec 29.
5
On the Origin of Heterotrophy.《关于异养的起源》
Trends Microbiol. 2016 Jan;24(1):12-25. doi: 10.1016/j.tim.2015.10.003. Epub 2015 Nov 12.
6
Differential Stoichiometry among Core Ribosomal Proteins.核心核糖体蛋白之间的差异化学计量学。
Cell Rep. 2015 Nov 3;13(5):865-73. doi: 10.1016/j.celrep.2015.09.056. Epub 2015 Oct 22.
7
Impact of high pH stress on yeast gene expression: A comprehensive analysis of mRNA turnover during stress responses.高pH胁迫对酵母基因表达的影响：应激反应期间mRNA周转的综合分析。
Biochim Biophys Acta. 2015 Jun;1849(6):653-64. doi: 10.1016/j.bbagrm.2015.04.001. Epub 2015 Apr 18.
8
A study on the fundamental mechanism and the evolutionary driving forces behind aerobic fermentation in yeast.关于酵母有氧发酵背后的基本机制和进化驱动力的研究。
PLoS One. 2015 Jan 24;10(1):e0116942. doi: 10.1371/journal.pone.0116942. eCollection 2015.
9
Cell cycle population effects in perturbation studies.扰动研究中的细胞周期群体效应。
Mol Syst Biol. 2014 Jun 21;10(6):732. doi: 10.15252/msb.20145172.
10
Constant growth rate can be supported by decreasing energy flux and increasing aerobic glycolysis.恒定的生长速率可以通过降低能量通量和增加有氧糖酵解来维持。
Cell Rep. 2014 May 8;7(3):705-14. doi: 10.1016/j.celrep.2014.03.057. Epub 2014 Apr 24.
Zotero 插件