Genic and global functions for Paf1C in chromatin modification and gene expression in Arabidopsis.

PLoS Genetics
Sookyung OhSteven van Nocker

Abstract

In budding yeast, intragenic histone modification is linked with transcriptional elongation through the conserved regulator Paf1C. To investigate Paf1C-related function in higher eukaryotes, we analyzed the effects of loss of Paf1C on histone H3 density and patterns of H3 methylated at K4, K27, and K36 in Arabidopsis genes, and integrated this with existing gene expression data. Loss of Paf1C did not change global abundance of H3K4me3 or H3K36me2 within chromatin, but instead led to a 3' shift in the distribution of H3K4me3 and a 5' shift in the distribution of H3K36me2 within genes. We found that genes regulated by plant Paf1C showed strong enrichment for both H3K4me3 and H3K27me3 and also showed a high degree of tissue-specific expression. At the Paf1C- and PcG-regulated gene FLC, transcriptional silencing and loss of H3K4me3 and H3K36me2 were accompanied by expansion of H3K27me3 into the promoter and transcriptional start regions and further enrichment of H3K27me3 within the transcribed region. These results highlight both genic and global functions for plant Paf1C in histone modification and gene expression, and link transcriptional activity with cellular memory.

References

Jan 19, 2000·Nature·B D Strahl, C D Allis
Aug 17, 2000·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·B M Turner
Feb 13, 2002·Molecular and Cellular Biology·Brian D StrahlC David Allis
Sep 5, 2002·The Plant Journal : for Cell and Molecular Biology·Hua Zhang, Steven van Nocker
Sep 28, 2002·Nature·Helena Santos-RosaTony Kouzarides
Nov 26, 2003·Molecular Cell·Helena Santos-RosaTony Kouzarides
Dec 24, 2003·Molecular Cell·Antoine H F M PetersThomas Jenuwein
Jan 20, 2004·Nature Cell Biology·Sheryl T SmithAlexander Mazo
Jan 21, 2004·Proceedings of the National Academy of Sciences of the United States of America·Erin McKittrickSteven Henikoff
May 20, 2004·Molecular Cell·Cherie L MuellerJudith A Jaehning
Jul 3, 2004·Genes & Development·Antonis KirmizisPeggy J Farnham
Aug 19, 2004·The Plant Journal : for Cell and Molecular Biology·Chris BowlerJerzy Paszkowski
Oct 19, 2004·Genes & Development·Robert J SimsDanny Reinberg
Jan 6, 2005·Molecular and Cellular Biology·Orit Rozenblatt-RosenMatthew Meyerson
Mar 12, 2005·The Journal of Biological Chemistry·Andrew J BannisterTony Kouzarides
Apr 5, 2005·Nature Genetics·Markus SchmidJan U Lohmann
Jun 1, 2005·Molecular and Cellular Biology·Armelle YartWilhelm Krek
Jul 28, 2005·Bioinformatics·Hongkai Ji, Wing Hung Wong
Aug 27, 2005·Cell·Dmitry K PokholokRichard A Young
Oct 26, 2005·Molecular Cell·Kathryn E SheldonKaren M Arndt

❮ Previous
Next ❯

Citations

Dec 18, 2013·Journal of Experimental Botany·Maria Derkacheva, Lars Hennig
Apr 10, 2014·Cellular and Molecular Life Sciences : CMLS·Julia EngelhornCristel C Carles
Aug 19, 2014·Trends in Plant Science·Mieke Van Lijsebettens, Klaus D Grasser
Dec 17, 2009·The Plant Cell·Jean-Benoit F CharronXing Wang Deng
Oct 13, 2010·Proceedings of the National Academy of Sciences of the United States of America·Lin GuoXiaoyu Zhang
Dec 1, 2010·Proceedings of the National Academy of Sciences of the United States of America·Matthew A JonesStacey L Harmer
Apr 15, 2011·PLoS Genetics·Marcel LafosDaniel Schubert
Apr 19, 2012·PLoS Genetics·Eavan DorceyChristian S Hardtke
Nov 1, 2012·Plant Molecular Biology·Sarah Marie RosloskiVojislava Grbic
Mar 12, 2013·Bioinformatics·Jingjing JinNam-Hai Chua
Nov 24, 2011·Plant & Cell Physiology·Diana Mihaela BuzasTetsuya Kurata
Jul 7, 2009·Annual Review of Cell and Developmental Biology·Dong-Hwan KimRichard M Amasino
Sep 15, 2009·Biological Chemistry·Marcel Lafos, Daniel Schubert
Apr 7, 2010·Journal of Plant Research·Soichi Inagaki, Tetsuji Kakutani
Jul 18, 2015·Genes·Stefania Del PreteValérie Gaudin
Mar 19, 2014·The Plant Journal : for Cell and Molecular Biology·Nayoung LeeGiltsu Choi
Sep 29, 2012·Plant Science : an International Journal of Experimental Plant Biology·Vasiliki ZacharakiKonstantinos E Vlachonasios
Jun 5, 2012·Trends in Plant Science·Yuehui He
Jul 23, 2011·Biochimica Et Biophysica Acta·Alexandre BerrWen-Hui Shen
Sep 6, 2011·Plant Science : an International Journal of Experimental Plant Biology·Jose A Jarillo, Manuel Piñeiro
Jun 15, 2011·Biochimica Et Biophysica Acta·Tage ThorstensenReidunn Birgitta Aalen
Apr 8, 2011·Current Opinion in Plant Biology·Robert J Schmitz, Xiaoyu Zhang
Mar 19, 2011·Biochimica Et Biophysica Acta·Massimiliano Lauria, Vincenzo Rossi
Oct 5, 2010·Current Opinion in Plant Biology·Pedro Crevillén, Caroline Dean
Aug 6, 2010·Current Opinion in Genetics & Development·Claudia Köhler, Lars Hennig

❮ Previous
Next ❯

Datasets Mentioned

BETA
GSE7907
GSE10928

Methods Mentioned

BETA
acetylation
histone acetylation
ubiquitination
ChIP
Immunoprecipitation
Assay
PCR

Software Mentioned

TileMap
Affymetrix Tiling Analysis Software ( TAS
TileMap package
Affymetrix Integrated Genome Browser ( IGB
custom Perl scripts
Bioconductor LIMMA
Bioconductor GCRMA

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.