ChIP-Seq reveals that QsMYB1 directly targets genes involved in lignin and suberin biosynthesis pathways in cork oak (Quercus suber)

BMC Plant Biology
Tiago CapoteLeonor Morais-Cecílio

Abstract

Gene activity is largely controlled by transcriptional regulation through the action of transcription factors and other regulators. QsMYB1 is a member of the R2R3-MYB transcription factor family related to secondary growth, and in particular, with the cork development process. In order to identify the putative gene targets of QsMYB1 across the cork oak genome we developed a ChIP-Seq strategy. Results provide direct evidence that QsMY1B targets genes encoding for enzymes involved in the lignin and suberin pathways as well as gene encoding for ABCG transporters and LTPs implicated in the transport of monomeric suberin units across the cellular membrane. These results highlight the role of QsMYB1 as a regulator of lignin and suberin biosynthesis, transport and assembly. To our knowledge, this work constitutes the first ChIP-Seq experiment performed in cork oak, a non-model plant species with a long-life cycle, and these results will contribute to deepen the knowledge about the molecular mechanisms of cork formation and differentiation.

References

Dec 1, 1980·Proceedings of the National Academy of Sciences of the United States of America·G DittaD R Helinski
Jul 1, 1997·The Plant Journal : for Cell and Molecular Biology·A A Millar, L Kunst
Dec 11, 1999·Nucleic Acids Research·M Kanehisa, S Goto
Aug 9, 2001·Proceedings of the National Academy of Sciences of the United States of America·K WellesenA Yephremov
Oct 13, 2001·Current Opinion in Plant Biology·R StrackeB Weisshaar
Aug 29, 2003·The Plant Journal : for Cell and Molecular Biology·Sébastien BaudChristine Rochat
Jun 8, 2004·Plant Physiology·Maisie LoJohn Thompson
Jan 25, 2005·Proceedings of the National Academy of Sciences of the United States of America·Rungaroon WaditeeTeruhiro Takabe
Feb 19, 2005·Current Opinion in Structural Biology·Raymond S Brown
Sep 19, 2006·Chemistry and Physics of Lipids·José Graça, Sara Santos
Feb 14, 2007·Macromolecular Bioscience·José Graça, Sara Santos
Feb 28, 2007·Genome Biology·Shobhit GuptaWilliam Stafford Noble
Mar 14, 2007·Plant Physiology·Marçal SolerMercè Figueras
Apr 17, 2007·Current Opinion in Plant Biology·Rochus Franke, Lukas Schreiber
Oct 24, 2007·Plant Physiology·David PanikashviliAsaph Aharoni
Nov 10, 2007·Proceedings of the National Academy of Sciences of the United States of America·Yonghua LiJohn Ohlrogge
Apr 29, 2008·Trends in Plant Science·Mike PollardJohn B Ohlrogge
May 17, 2008·International Journal of Plant Genomics·Ana Conesa, Stefan Götz
Sep 19, 2008·Genome Biology·Yong ZhangX Shirley Liu
Apr 17, 2009·Investigative Ophthalmology & Visual Science·Mehrnoosh SaghizadehDebora B Farber
Aug 26, 2009·Plant Signaling & Behavior·David Panikashvili, Asaph Aharoni
Jan 30, 2010·Bioinformatics·Aaron R Quinlan, Ira M Hall
May 18, 2010·Plant Physiology·Ruben VanholmeWout Boerjan

❮ Previous
Next ❯

Citations

Feb 7, 2020·The Plant Journal : for Cell and Molecular Biology·Hagai CohenAsaph Aharoni
Jul 10, 2020·The Plant Journal : for Cell and Molecular Biology·Chunhua WangShuang Wu
Aug 20, 2020·Plant Molecular Biology·Raquel FigueiredoPaulo Mazzafera
Dec 11, 2019·International Journal of Molecular Sciences·Kashif MahmoodKosala Ranathunge
Nov 13, 2020·Frontiers in Plant Science·Chidi Afamefule, Christine A Raines
Feb 22, 2021·Tree Physiology·Vera InácioLeonor Morais-Cecílio
Jul 2, 2021·Plant, Cell & Environment·Mariana A S Artur, Kaisa Kajala

❮ Previous
Next ❯

Datasets Mentioned

BETA
JF970262

Methods Mentioned

BETA
immunoprecipitation
ChIP
ChIP-Seq
PCR
fluorescence microscopy
gene trap
electrophoresis

Software Mentioned

MACS2
Phantompeakqualtools
Sickle
TOMTOM
PlantTFcat
Bowtie2
Blast2GO
MEME
ChIP
FastQC

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.