单细胞绿藻莱茵衣藻U3小核仁RNA在RNA和基因水平上的分子特征分析
Molecular characterization at the RNA and gene levels of U3 snoRNA from a unicellular green alga, Chlamydomonas reinhardtii.
作者信息
Antal M, Mougin A, Kis M, Boros E, Steger G, Jakab G, Solymosy F, Branlant C
机构信息
Institute of Plant Biology, Biological Research Center, Hungarian Academy of Sciences, H-6701 Szeged, PO Box 521, Hungary.
出版信息
Nucleic Acids Res. 2000 Aug 1;28(15):2959-68. doi: 10.1093/nar/28.15.2959.
Abstract
A U3 snoRNA gene isolated from a Chlamydomonas reinhardtii (CRE:) genomic library contains putative pol III-specific transcription signals similar to those of RNA polymerase III-specific small nuclear (sn)RNA genes of higher plants. The 222 nt long CRE: U3 snoRNA was immunoprecipitated by anti-gamma-mpppN antisera, but not by anti-m(2,2,7)G antibodies, supporting the notion that it is a RNA polymerase III transcript. Tagged CRE: U3 snoRNA gene constructs were expressed in CRE: cells. Results of chemical and enzymatic structure probing of CRE: U3 snoRNA in solution and of DMS modification of CRE: U3 snoRNA under in vivo conditions revealed that the two-hairpin structure of the 5'-domain that is found in solution is no longer detected under in vivo conditions. The observed differences can be explained by the formation of several base pair interactions with the 18S and 5'-ETS parts of the pre-rRNA. A model that involves five intermolecular helices is proposed.
摘要
从莱茵衣藻（CRE:）基因组文库中分离出的一个U3小核仁RNA基因，含有与高等植物RNA聚合酶III特异性小核（sn）RNA基因相似的推定的聚合酶III特异性转录信号。长度为222个核苷酸的CRE: U3小核仁RNA可被抗γ-mpppN抗血清免疫沉淀，但不能被抗m(2,2,7)G抗体免疫沉淀，这支持了它是RNA聚合酶III转录本的观点。带有标签的CRE: U3小核仁RNA基因构建体在CRE:细胞中表达。对溶液中的CRE: U3小核仁RNA进行化学和酶促结构探测以及在体内条件下对CRE: U3小核仁RNA进行二甲基亚砜（DMS）修饰的结果显示，在溶液中发现的5'-结构域的双发夹结构在体内条件下不再被检测到。观察到的差异可以通过与前体核糖体RNA的18S和5'-外部转录间隔区（5'-ETS）部分形成几个碱基对相互作用来解释。提出了一个涉及五个分子间螺旋的模型。
相似文献
1
Molecular characterization at the RNA and gene levels of U3 snoRNA from a unicellular green alga, Chlamydomonas reinhardtii.单细胞绿藻莱茵衣藻U3小核仁RNA在RNA和基因水平上的分子特征分析
Nucleic Acids Res. 2000 Aug 1;28(15):2959-68. doi: 10.1093/nar/28.15.2959.
2
Xenopus U3 snoRNA docks on pre-rRNA through a novel base-pairing interaction.非洲爪蟾U3小核仁RNA通过一种新型碱基配对相互作用与前体核糖体RNA结合。
RNA. 2004 Jun;10(6):942-53. doi: 10.1261/rna.5256704.
3
The spacing between functional Cis-elements of U3 snoRNA is critical for rRNA processing.U3小核仁RNA功能顺式元件之间的间距对核糖体RNA加工至关重要。
J Mol Biol. 2000 Jun 30;300(1):57-74. doi: 10.1006/jmbi.2000.3798.
4
The initial U3 snoRNA:pre-rRNA base pairing interaction required for pre-18S rRNA folding revealed by in vivo chemical probing.体内化学探测揭示了初始 U3 snoRNA：pre-rRNA 碱基配对相互作用对于 pre-18S rRNA 折叠的必要性。
Nucleic Acids Res. 2011 Jul;39(12):5164-80. doi: 10.1093/nar/gkr044. Epub 2011 Feb 23.
5
An evolutionary intra-molecular shift in the preferred U3 snoRNA binding site on pre-ribosomal RNA.前核糖体RNA上U3小核仁RNA（snoRNA）优先结合位点的进化性分子内转移。
Nucleic Acids Res. 2005 Sep 6;33(15):4995-5005. doi: 10.1093/nar/gki815. Print 2005.
6
Trypanosoma brucei 5'ETS A'-cleavage is directed by 3'-adjacent sequences, but not two U3 snoRNA-binding elements, which are all required for subsequent pre-small subunit rRNA processing events.布氏锥虫5'ETS A'切割由3'相邻序列引导，但不由两个U3小核仁RNA结合元件引导，而这两个元件对于随后的小亚基前体核糖体RNA加工事件都是必需的。
J Mol Biol. 2001 Nov 2;313(4):733-49. doi: 10.1006/jmbi.2001.5078.
7
U3 snoRNA genes are multi-copy and frequently linked to U5 snRNA genes in Euglena gracilis.U3 snoRNA 基因是多拷贝的，并且在眼虫(Euglena gracilis)中经常与 U5 snRNA 基因相连。
BMC Genomics. 2009 Nov 16;10:528. doi: 10.1186/1471-2164-10-528.
8
An unexpected, conserved element of the U3 snoRNA is required for Mpp10p association.Mpp10p结合需要U3小核仁RNA中一个意外的保守元件。
RNA. 2001 Jun;7(6):904-19. doi: 10.1017/s1355838201010238.
9
Distribution of U3 small nucleolar RNA and fibrillarin during early embryogenesis in Caenorhabditis elegans.秀丽隐杆线虫早期胚胎发育过程中U3小核仁RNA和纤维蛋白的分布。
Biochimie. 2008 Jun;90(6):898-907. doi: 10.1016/j.biochi.2008.02.001. Epub 2008 Feb 8.
10
Analysis of U3 snoRNA and small subunit processome components in the parasitic protist Entamoeba histolytica.寄生原生生物溶组织内阿米巴中U3小核仁RNA及小亚基加工体组分的分析
Mol Biochem Parasitol. 2014 Feb;193(2):82-92. doi: 10.1016/j.molbiopara.2014.03.001. Epub 2014 Mar 12.
引用本文的文献
1
Evolution of plant telomerase RNAs: farther to the past, deeper to the roots.植物端粒酶 RNA 的进化：追溯到更早的过去，扎根于更深处。
Nucleic Acids Res. 2021 Jul 21;49(13):7680-7694. doi: 10.1093/nar/gkab545.
2
Prasinovirus Attack of Ostreococcus Is Furtive by Day but Savage by Night.普拉病毒对绿藻的攻击白天隐秘，夜晚凶猛。
J Virol. 2018 Jan 30;92(4). doi: 10.1128/JVI.01703-17. Print 2018 Feb 15.
3
High-throughput sequencing of the chloroplast and mitochondrion of Chlamydomonas reinhardtii to generate improved de novo assemblies, analyze expression patterns and transcript speciation, and evaluate diversity among laboratory strains and wild isolates.对莱茵衣藻的叶绿体和线粒体进行高通量测序，以生成改良的从头组装，分析表达模式和转录特化，并评估实验室菌株和野生分离株之间的多样性。
Plant J. 2018 Feb;93(3):545-565. doi: 10.1111/tpj.13788. Epub 2018 Jan 7.
4
Features of a unique intronless cluster of class I small heat shock protein genes in tandem with box C/D snoRNA genes on chromosome 6 in tomato (Solanum lycopersicum).番茄（Solanum lycopersicum）第 6 号染色体上串联的具有独特无内含子的 I 类小热休克蛋白基因簇与框 C/D snoRNA 基因的特征。
Planta. 2012 Mar;235(3):453-71. doi: 10.1007/s00425-011-1518-5. Epub 2011 Sep 25.
5
The small subunit processome in ribosome biogenesis—progress and prospects.核糖体生物发生中的小亚基加工体——进展与展望。
Wiley Interdiscip Rev RNA. 2011 Jan-Feb;2(1):1-21. doi: 10.1002/wrna.57.
6
Human box C/D snoRNAs with miRNA like functions: expanding the range of regulatory RNAs.具有 miRNA 样功能的人类 box C/D snoRNAs：扩展调控 RNA 的范围。
Nucleic Acids Res. 2011 Jan;39(2):675-86. doi: 10.1093/nar/gkq776. Epub 2010 Sep 15.
7
U3 snoRNA genes are multi-copy and frequently linked to U5 snRNA genes in Euglena gracilis.U3 snoRNA 基因是多拷贝的，并且在眼虫(Euglena gracilis)中经常与 U5 snRNA 基因相连。
BMC Genomics. 2009 Nov 16;10:528. doi: 10.1186/1471-2164-10-528.
8
Novel TRF1/BRF target genes revealed by genome-wide analysis of Drosophila Pol III transcription.通过对果蝇Pol III转录进行全基因组分析揭示的新型TRF1/BRF靶基因。
EMBO J. 2007 Jan 10;26(1):79-89. doi: 10.1038/sj.emboj.7601448. Epub 2006 Dec 14.
9
Imp3p and Imp4p mediate formation of essential U3-precursor rRNA (pre-rRNA) duplexes, possibly to recruit the small subunit processome to the pre-rRNA.Imp3p和Imp4p介导必需的U3前体核糖体RNA（前体rRNA）双链体的形成，可能是为了将小亚基加工体招募到前体rRNA上。
Proc Natl Acad Sci U S A. 2004 Oct 26;101(43):15301-6. doi: 10.1073/pnas.0406819101. Epub 2004 Oct 15.
10
Plant dicistronic tRNA-snoRNA genes: a new mode of expression of the small nucleolar RNAs processed by RNase Z.植物双顺反子tRNA-小核仁RNA基因：一种由核糖核酸酶Z加工的小核仁RNA的新表达模式。
EMBO J. 2003 Feb 3;22(3):621-32. doi: 10.1093/emboj/cdg040.
本文引用的文献
1
The Chlamydomonas Sourcebook. A Comprehensive Guide to Biology and Laboratory Use. Elizabeth H. Harris. Academic Press, San Diego, CA, 1989. xiv, 780 pp., illus. $145.《衣藻资料手册：生物学与实验室使用综合指南》。伊丽莎白·H·哈里斯著。学术出版社，加利福尼亚州圣地亚哥，1989年。xiv页，780页，有插图。售价145美元。
Science. 1989 Dec 15;246(4936):1503-4. doi: 10.1126/science.246.4936.1503-a.
2
Structure of U2 snRNA genes of Arabidopsis thaliana and their expression in electroporated plant protoplasts.拟南芥 U2 snRNA 基因的结构及其在电穿孔植物原生质体中的表达。
EMBO J. 1988 Mar;7(3):791-9. doi: 10.1002/j.1460-2075.1988.tb02877.x.
3
4
ConStruct: a tool for thermodynamic controlled prediction of conserved secondary structure.ConStruct：一种用于保守二级结构热力学控制预测的工具。
Nucleic Acids Res. 1999 Nov 1;27(21):4208-17. doi: 10.1093/nar/27.21.4208.
5
Two 5'-ETS regions implicated in interactions with U3 snoRNA are required for small subunit rRNA maturation in Trypanosoma brucei.布氏锥虫小亚基核糖体RNA成熟需要两个与U3小核仁RNA相互作用的5'-ETS区域。
Nucleic Acids Res. 1999 Aug 15;27(16):3300-9. doi: 10.1093/nar/27.16.3300.
6
Base pairing between U3 small nucleolar RNA and the 5' end of 18S rRNA is required for pre-rRNA processing.U3小核仁RNA与18S rRNA 5'端之间的碱基配对是前体rRNA加工所必需的。
Mol Cell Biol. 1999 Sep;19(9):6012-9. doi: 10.1128/MCB.19.9.6012.
7
Imp3p and Imp4p, two specific components of the U3 small nucleolar ribonucleoprotein that are essential for pre-18S rRNA processing.Imp3p和Imp4p是U3小核仁核糖核蛋白的两个特定组分，对于前18S核糖体RNA加工至关重要。
Mol Cell Biol. 1999 Aug;19(8):5441-52. doi: 10.1128/MCB.19.8.5441.
8
Nop58p is a common component of the box C+D snoRNPs that is required for snoRNA stability.Nop58p是C+D盒小核仁核糖核蛋白（snoRNPs）的常见组成部分，是小核仁RNA（snoRNA）稳定性所必需的。
RNA. 1999 Mar;5(3):455-67. doi: 10.1017/s135583829998192x.
9
U3 small nucleolar RNA is essential for cleavage at sites 1, 2 and 3 in pre-rRNA and determines which rRNA processing pathway is taken in Xenopus oocytes.U3小核仁RNA对于前体核糖体RNA在1、2和3位点的切割至关重要，并决定了非洲爪蟾卵母细胞中采用哪种核糖体RNA加工途径。
J Mol Biol. 1999 Mar 12;286(5):1347-63. doi: 10.1006/jmbi.1999.2527.
10
An unusual chemical reactivity of Sm site adenosines strongly correlates with proper assembly of core U snRNP particles.Sm位点腺苷的异常化学反应性与核心U snRNP颗粒的正确组装密切相关。
J Mol Biol. 1999 Jan 8;285(1):133-47. doi: 10.1006/jmbi.1998.2300.
Zotero 插件