Temporal dynamics of gene expression and histone marks at the Arabidopsis shoot meristem during flowering

Nature Communications
Yuan YouMarkus Schmid

Abstract

Plants can produce organs throughout their entire life from pluripotent stem cells located at their growing tip, the shoot apical meristem (SAM). At the time of flowering, the SAM of Arabidopsis thaliana switches fate and starts producing flowers instead of leaves. Correct timing of flowering in part determines reproductive success, and is therefore under environmental and endogenous control. How epigenetic regulation contributes to the floral transition has eluded analysis so far, mostly because of the poor accessibility of the SAM. Here we report the temporal dynamics of the chromatin modifications H3K4me3 and H3K27me3 and their correlation with transcriptional changes at the SAM in response to photoperiod-induced flowering. Emphasizing the importance of tissue-specific epigenomic analyses we detect enrichments of chromatin states in the SAM that were not apparent in whole seedlings. Furthermore, our results suggest that regulation of translation might be involved in adjusting meristem function during the induction of flowering.

References

Mar 9, 1999·The Plant Journal : for Cell and Molecular Biology·S J Clough, A F Bent
Feb 15, 2002·Nature·Detlef Weigel, Gerd Jürgens
Oct 24, 2003·Development·Markus SchmidJan U Lohmann
Apr 5, 2005·Nature Genetics·Markus SchmidJan U Lohmann
Jun 14, 2005·Plant & Cell Physiology·Ayako YamaguchiTakashi Araki
Aug 27, 2005·Genome Génome / Conseil National De Recherches Canada·Kerri B McIntosh, Peta C Bonham-Smith
Sep 17, 2005·Nature Methods·Anne-Valérie GendrelVincent Colot
Jun 27, 2006·The Plant Cell·Enric Belles-BoixVéronique Pautot
Jul 3, 2007·Nature·Tarjei S MikkelsenBradley E Bernstein
Feb 8, 2008·Journal of Experimental Botany·Dorota Kwiatkowska
Sep 19, 2008·Genome Biology·Yong ZhangX Shirley Liu
Nov 27, 2008·Bioinformatics·Seth CarbonUNKNOWN Web Presence Working Group
Jan 20, 2009·Science·Amity M WilczekJohanna Schmitt
Mar 18, 2009·Bioinformatics·Cole TrapnellSteven L Salzberg
Jul 8, 2009·PLoS Biology·Johannes MathieuMarkus Schmid
Sep 1, 2009·Trends in Plant Science·Mary E Byrne
Sep 24, 2009·BMC Bioinformatics·Christiana SpyrouSimon Tavaré
Oct 7, 2009·Proceedings of the National Academy of Sciences of the United States of America·Reetika RawatStacey L Harmer
Mar 6, 2010·The Plant Journal : for Cell and Molecular Biology·Wannian YangYuehui He
Mar 23, 2011·PLoS Genetics·Daniel BouyerArp Schnittger
Apr 14, 2011·The EMBO Journal·François RoudierVincent Colot
Apr 15, 2011·PLoS Genetics·Marcel LafosDaniel Schubert
Mar 6, 2012·Nature Methods·Ben Langmead, Steven L Salzberg
Sep 21, 2012·Development·Vinicius C GalvãoMarkus Schmid
Jun 22, 2013·Genes & Development·Philipp VoigtDanny Reinberg
Jul 19, 2013·The Arabidopsis Book·Hirokazu Tsukaya
Aug 21, 2013·PLoS Computational Biology·Michael LawrenceVincent J Carey

❮ Previous
Next ❯

Citations

Jul 13, 2017·Molecular Reproduction and Development·Lijuan HeYing Zou
Oct 9, 2019·Proceedings of the National Academy of Sciences of the United States of America·Laura R LeeDominique C Bergmann
Dec 5, 2019·GigaScience·Miriam Payá-MilansPedro Crevillén
May 29, 2020·Nature Communications·Lun ZhaoXingwang Li
Apr 12, 2019·BMC Plant Biology·Stefania Del PreteValérie Gaudin
Dec 21, 2019·Epigenetics & Chromatin·Cynthia C JoseSuresh Cuddapah
Sep 5, 2020·Plant Methods·Xiaoyuan TaoXueying Guan
Nov 20, 2020·Nature·Jekaterina TruskinaTeva Vernoux
Jan 29, 2021·Current Opinion in Plant Biology·Kaixuan HeXian Deng
Mar 5, 2021·STAR Protocols·Belén MoroNicolás G Bologna
Aug 12, 2017·Current Opinion in Biotechnology·Travis A Lee, Julia Bailey-Serres
May 30, 2021·Journal of Experimental Botany·Saurabh Prakash PandeyMarkus Schmid
Feb 16, 2021··Veronica Barragan BorreroChristopher A. Brosnan

❮ Previous
Next ❯

Methods Mentioned

BETA
dissection
reverse transcription PCR
RNA-seq
ChIP-seq
acetylation
ChIP-PCR
PCR
genotyping
immunoprecipitation
dot-blot

Software Mentioned

INTACT
Genstat
Bioconductor
Deseq2
MACS2
R
TopHat
Bowtie2
DiffBind

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.