Literature DB >> 20581822

Transcriptional regulation by small RNAs at sequences downstream from 3' gene termini.

Xuan Yue1, Jacob C Schwartz, Yongjun Chu, Scott T Younger, Keith T Gagnon, Sayda Elbashir, Bethany A Janowski, David R Corey.   

Abstract

Transcriptome studies reveal many noncoding transcripts overlapping 3' gene termini. The function of these transcripts is unknown. Here we have characterized transcription at the progesterone receptor (PR) locus and identified noncoding transcripts that overlap the 3' end of the gene. Small RNAs complementary to sequences beyond the 3' terminus of PR mRNA modulated expression of PR, recruited argonaute 2 to a 3' noncoding transcript, altered occupancy of RNA polymerase II, induced chromatin changes at the PR promoter and affected responses to physiological stimuli. We found that the promoter and 3' terminal regions of the PR locus are in close proximity, providing a potential mechanism for RNA-mediated control of transcription over long genomic distances. These results extend the potential for small RNAs to regulate transcription to target sequences beyond the 3' termini of mRNA.

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Year:  2010        PMID: 20581822      PMCID: PMC3909968          DOI: 10.1038/nchembio.400

Source DB:  PubMed          Journal:  Nat Chem Biol        ISSN: 1552-4450            Impact factor:   15.040


  56 in total

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Journal:  Hum Genet       Date:  2006-06-29       Impact factor: 4.132

2.  Inhibiting gene expression at transcription start sites in chromosomal DNA with antigene RNAs.

Authors:  Bethany A Janowski; Kenneth E Huffman; Jacob C Schwartz; Rosalyn Ram; Daniel Hardy; David S Shames; John D Minna; David R Corey
Journal:  Nat Chem Biol       Date:  2005-07-31       Impact factor: 15.040

Review 3.  Natural antisense and noncoding RNA transcripts as potential drug targets.

Authors:  Claes Wahlestedt
Journal:  Drug Discov Today       Date:  2006-06       Impact factor: 7.851

4.  3' UTR seed matches, but not overall identity, are associated with RNAi off-targets.

Authors:  Amanda Birmingham; Emily M Anderson; Angela Reynolds; Diane Ilsley-Tyree; Devin Leake; Yuriy Fedorov; Scott Baskerville; Elena Maksimova; Kathryn Robinson; Jon Karpilow; William S Marshall; Anastasia Khvorova
Journal:  Nat Methods       Date:  2006-03       Impact factor: 28.547

5.  Involvement of AGO1 and AGO2 in mammalian transcriptional silencing.

Authors:  Bethany A Janowski; Kenneth E Huffman; Jacob C Schwartz; Rosalyn Ram; Robert Nordsell; David S Shames; John D Minna; David R Corey
Journal:  Nat Struct Mol Biol       Date:  2006-08-27       Impact factor: 15.369

6.  Argonaute-1 directs siRNA-mediated transcriptional gene silencing in human cells.

Authors:  Daniel H Kim; Louisa M Villeneuve; Kevin V Morris; John J Rossi
Journal:  Nat Struct Mol Biol       Date:  2006-08-27       Impact factor: 15.369

7.  The interleukin 1beta-induced expression of human prostaglandin F2alpha receptor messenger RNA in human myometrial-derived ULTR cells requires the transcription factor, NFkappaB.

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8.  Small dsRNAs induce transcriptional activation in human cells.

Authors:  Long-Cheng Li; Steven T Okino; Hong Zhao; Deepa Pookot; Robert F Place; Shinji Urakami; Hideki Enokida; Rajvir Dahiya
Journal:  Proc Natl Acad Sci U S A       Date:  2006-11-03       Impact factor: 11.205

9.  PcG proteins, DNA methylation, and gene repression by chromatin looping.

Authors:  Vijay K Tiwari; Kelly M McGarvey; Julien D F Licchesi; Joyce E Ohm; James G Herman; Dirk Schübeler; Stephen B Baylin
Journal:  PLoS Biol       Date:  2008-12-02       Impact factor: 8.029

10.  Evidence for a preferential targeting of 3'-UTRs by cis-encoded natural antisense transcripts.

Authors:  Miao Sun; Laurence D Hurst; Gordon G Carmichael; Jianjun Chen
Journal:  Nucleic Acids Res       Date:  2005-10-04       Impact factor: 16.971

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  43 in total

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Journal:  EMBO J       Date:  2011-11-02       Impact factor: 11.598

Review 2.  Argonaute and the nuclear RNAs: new pathways for RNA-mediated control of gene expression.

Authors:  Keith T Gagnon; David R Corey
Journal:  Nucleic Acid Ther       Date:  2012-01-27       Impact factor: 5.486

3.  Transcriptional silencing by hairpin RNAs complementary to a gene promoter.

Authors:  Yongjun Chu; Roya Kalantari; David W Dodd; David R Corey
Journal:  Nucleic Acid Ther       Date:  2012-06       Impact factor: 5.486

Review 4.  Post-transcriptional gene silencing, transcriptional gene silencing and human immunodeficiency virus.

Authors:  Catalina Méndez; Chantelle L Ahlenstiel; Anthony D Kelleher
Journal:  World J Virol       Date:  2015-08-12

5.  Inducing gene expression by targeting promoter sequences using small activating RNAs.

Authors:  Ji Wang; Robert F Place; Victoria Portnoy; Vera Huang; Moo Rim Kang; Mika Kosaka; Maurice Kwok Chung Ho; Long-Cheng Li
Journal:  J Biol Methods       Date:  2015-03-11

Review 6.  Chromatin remodeling by the small RNA machinery in mammalian cells.

Authors:  Long-Cheng Li
Journal:  Epigenetics       Date:  2013-10-22       Impact factor: 4.528

Review 7.  RNA-mediated gene activation.

Authors:  Alan L Jiao; Frank J Slack
Journal:  Epigenetics       Date:  2013-11-01       Impact factor: 4.528

8.  Small RNAs hit a new target: Modulation of gene expression by targeting the non-coding sequences downstream from a gene.

Authors:  Vadim V Demidov
Journal:  Artif DNA PNA XNA       Date:  2010-10

9.  Chromatin-remodeling factors mediate the balance of sense-antisense transcription at the FGF2 locus.

Authors:  Lori A McEachern; Paul R Murphy
Journal:  Mol Endocrinol       Date:  2014-02-19

10.  Plant Extracellular Vesicles Contain Diverse Small RNA Species and Are Enriched in 10- to 17-Nucleotide "Tiny" RNAs.

Authors:  Patricia Baldrich; Brian D Rutter; Hana Zand Karimi; Ram Podicheti; Blake C Meyers; Roger W Innes
Journal:  Plant Cell       Date:  2019-01-31       Impact factor: 11.277

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