代谢物结合RNA结构域存在于真核生物的基因中。
Metabolite-binding RNA domains are present in the genes of eukaryotes.
作者信息
Sudarsan Narasimhan, Barrick Jeffrey E, Breaker Ronald R
出版信息
RNA. 2003 Jun;9(6):644-7. doi: 10.1261/rna.5090103.
Abstract
Genetic control by metabolite-binding mRNAs is widespread in prokaryotes. These riboswitches are typically located in noncoding regions of mRNA, where they selectively bind their target compound and subsequently modulate gene expression. We have identified mRNA elements in fungi and in plants that match the consensus sequence and structure of thiamine pyrophosphate-binding domains of prokaryotes. In Arabidopsis, the consensus motif resides in the 3'-UTR of a thiamine biosynthetic gene, and the isolated RNA domain binds the corresponding coenzyme in vitro. These results suggest that metabolite-binding mRNAs are possibly involved in eukaryotic gene regulation and that some riboswitches might be representatives of an ancient form of genetic control.
摘要
代谢物结合型mRNA的遗传控制在原核生物中广泛存在。这些核糖开关通常位于mRNA的非编码区，在那里它们选择性地结合其靶化合物，随后调节基因表达。我们已经在真菌和植物中鉴定出与原核生物硫胺素焦磷酸结合结构域的共有序列和结构相匹配的mRNA元件。在拟南芥中，共有基序存在于硫胺素生物合成基因的3'-UTR中，分离出的RNA结构域在体外结合相应的辅酶。这些结果表明，代谢物结合型mRNA可能参与真核生物的基因调控，并且一些核糖开关可能是一种古老遗传控制形式的代表。
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本文引用的文献
1
Simultaneous detection of diverse analytes with an aptazyme ligase array.
Anal Biochem. 2003 Jan 15;312(2):106-12. doi: 10.1016/s0003-2697(02)00441-4.
2
Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria.
Cell. 2002 Nov 27;111(5):747-56. doi: 10.1016/s0092-8674(02)01134-0.
3
An mRNA structure that controls gene expression by binding FMN.
Proc Natl Acad Sci U S A. 2002 Dec 10;99(25):15908-13. doi: 10.1073/pnas.212628899. Epub 2002 Nov 27.
4
Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression.
Nature. 2002 Oct 31;419(6910):952-6. doi: 10.1038/nature01145. Epub 2002 Oct 16.
5
Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms.
J Biol Chem. 2002 Dec 13;277(50):48949-59. doi: 10.1074/jbc.M208965200. Epub 2002 Oct 9.
6
Genetic control by a metabolite binding mRNA.
Chem Biol. 2002 Sep;9(9):1043. doi: 10.1016/s1074-5521(02)00224-7.
7
Regulation of riboflavin biosynthesis and transport genes in bacteria by transcriptional and translational attenuation.
Nucleic Acids Res. 2002 Jul 15;30(14):3141-51. doi: 10.1093/nar/gkf433.
8
The antiquity of RNA-based evolution.
Nature. 2002 Jul 11;418(6894):214-21. doi: 10.1038/418214a.
9
Do mRNAs act as direct sensors of small molecules to control their expression?
Proc Natl Acad Sci U S A. 2001 Aug 14;98(17):9465-7. doi: 10.1073/pnas.181334498.
10
A conserved RNA structure (thi box) is involved in regulation of thiamin biosynthetic gene expression in bacteria.
Proc Natl Acad Sci U S A. 2001 Aug 14;98(17):9736-41. doi: 10.1073/pnas.161168098. Epub 2001 Jul 24.
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