Literature DB >> 22936691

Chromatin and epigenetic regulation of pre-mRNA processing.

Seth J Brown1, Peter Stoilov, Yi Xing.   

Abstract

New data are revealing a complex landscape of gene regulation shaped by chromatin states that extend into the bodies of transcribed genes and associate with distinct RNA elements such as exons, introns and polyadenylation sites. Exons are characterized by increased levels of nucleosome positioning, DNA methylation and certain histone modifications. As pre-mRNA splicing occurs co-transcriptionally, changes in the transcription elongation rate or epigenetic marks can influence exon splicing. These new discoveries broaden our understanding of the epigenetic code and ascribe a novel role for chromatin in controlling pre-mRNA processing. In this review, we summarize the recently discovered interplay between the modulation of chromatin states and pre-mRNA processing with the particular focus on how these processes communicate with one another to control gene expression.

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Year:  2012        PMID： 22936691      PMCID： PMC3459648          DOI： 10.1093/hmg/dds353

Source DB:  PubMed          Journal:  Hum Mol Genet        ISSN： 0964-6906            Impact factor:   6.150


  77 in total

1.  Initial sequencing and analysis of the human genome.

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Journal:  Nature       Date:  2001-02-15       Impact factor: 49.962

2.  Poly(dA.dT) sequences exist as rigid DNA structures in nucleosome-free yeast promoters in vivo.

Authors:  B Suter; G Schnappauf; F Thoma
Journal:  Nucleic Acids Res       Date:  2000-11-01       Impact factor: 16.971

3.  Effects of histone tail domains on the rate of transcriptional elongation through a nucleosome.

Authors:  R U Protacio; G Li; P T Lowary; J Widom
Journal:  Mol Cell Biol       Date:  2000-12       Impact factor: 4.272

4.  The protein Aly links pre-messenger-RNA splicing to nuclear export in metazoans.

Authors:  Z Zhou; M J Luo; K Straesser; J Katahira; E Hurt; R Reed
Journal:  Nature       Date:  2000-09-21       Impact factor: 49.962

5.  A slow RNA polymerase II affects alternative splicing in vivo.

Authors:  Manuel de la Mata; Claudio R Alonso; Sebastián Kadener; Juan P Fededa; Matías Blaustein; Federico Pelisch; Paula Cramer; David Bentley; Alberto R Kornblihtt
Journal:  Mol Cell       Date:  2003-08       Impact factor: 17.970

6.  A non-EST-based method for exon-skipping prediction.

Authors:  Rotem Sorek; Ronen Shemesh; Yuval Cohen; Ortal Basechess; Gil Ast; Ron Shamir
Journal:  Genome Res       Date:  2004-08       Impact factor: 9.043

7.  The intranuclear site of excision of each intron in Balbiani ring 3 pre-mRNA is influenced by the time remaining to transcription termination and different excision efficiencies for the various introns.

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Journal:  RNA       Date:  1996-07       Impact factor: 4.942

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Journal:  Genes Dev       Date:  1988-06       Impact factor: 11.361

9.  Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation.

Authors:  Sebastián Kadener; Juan Pablo Fededa; Michael Rosbash; Alberto R Kornblihtt
Journal:  Proc Natl Acad Sci U S A       Date:  2002-06-11       Impact factor: 11.205

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Authors:  V Iyer; K Struhl
Journal:  EMBO J       Date:  1995-06-01       Impact factor: 11.598
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  40 in total

Review 1.  Emerging mechanisms and consequences of calcium regulation of alternative splicing in neurons and endocrine cells.

Authors:  Aleh Razanau; Jiuyong Xie
Journal:  Cell Mol Life Sci       Date:  2013-06-26       Impact factor: 9.261

2.  BRCA1 exon 11 a model of long exon splicing regulation.

Authors:  Michela Raponi; Lindsay D Smith; Marco Silipo; Cristiana Stuani; Emanuele Buratti; Diana Baralle
Journal:  RNA Biol       Date:  2014-03-18       Impact factor: 4.652

3.  TINTIN, at the interface of chromatin, transcription elongation, and mRNA processing.

Authors:  Wajid Bhat; Salar Ahmad; Jacques Côté
Journal:  RNA Biol       Date:  2015       Impact factor: 4.652

4.  Regulation of RNA metabolism is important for in vitro dedifferentiation of plant cells.

Authors:  Misato Ohtani
Journal:  J Plant Res       Date:  2015-02-19       Impact factor: 2.629

5.  Intragenic CpG islands play important roles in bivalent chromatin assembly of developmental genes.

Authors:  Sun-Min Lee; Jungwoo Lee; Kyung-Min Noh; Won-Young Choi; Sejin Jeon; Goo Taeg Oh; Jeongsil Kim-Ha; Yoonhee Jin; Seung-Woo Cho; Young-Joon Kim
Journal:  Proc Natl Acad Sci U S A       Date:  2017-02-21       Impact factor: 11.205

Review 6.  Alternative polyadenylation: new insights from global analyses.

Authors:  Yongsheng Shi
Journal:  RNA       Date:  2012-10-24       Impact factor: 4.942

7.  Convergence of Acquired Mutations and Alternative Splicing of CD19 Enables Resistance to CART-19 Immunotherapy.

Authors:  Elena Sotillo; David M Barrett; Kathryn L Black; Asen Bagashev; Derek Oldridge; Glendon Wu; Robyn Sussman; Claudia Lanauze; Marco Ruella; Matthew R Gazzara; Nicole M Martinez; Colleen T Harrington; Elaine Y Chung; Jessica Perazzelli; Ted J Hofmann; Shannon L Maude; Pichai Raman; Alejandro Barrera; Saar Gill; Simon F Lacey; Jan J Melenhorst; David Allman; Elad Jacoby; Terry Fry; Crystal Mackall; Yoseph Barash; Kristen W Lynch; John M Maris; Stephan A Grupp; Andrei Thomas-Tikhonenko
Journal:  Cancer Discov       Date:  2015-10-29       Impact factor: 39.397

Review 8.  The polyadenylation code: a unified model for the regulation of mRNA alternative polyadenylation.

Authors:  Ryan Davis; Yongsheng Shi
Journal:  J Zhejiang Univ Sci B       Date:  2014-05       Impact factor: 3.066

9.  A reassessment of DNA-immunoprecipitation-based genomic profiling.

Authors:  Antonio Lentini; Cathrine Lagerwall; Svante Vikingsson; Heidi K Mjoseng; Karolos Douvlataniotis; Hartmut Vogt; Henrik Green; Richard R Meehan; Mikael Benson; Colm E Nestor
Journal:  Nat Methods       Date:  2018-06-25       Impact factor: 28.547

10.  SRSF2-p95 hotspot mutation is highly associated with advanced forms of mastocytosis and mutations in epigenetic regulator genes.

Authors:  Katia Hanssens; Fabienne Brenet; Julie Agopian; Sophie Georgin-Lavialle; Gandhi Damaj; Laure Cabaret; Maria Olivia Chandesris; Paulo de Sepulveda; Olivier Hermine; Patrice Dubreuil; Erinn Soucie
Journal:  Haematologica       Date:  2014-01-03       Impact factor: 9.941
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