Insights into the Histone Acetylation-Mediated Regulation of the Transcription Factor Genes That Control the Embryogenic Transition in the Somatic Cells of Arabidopsis

Identification and expression analysis of histone modification gene (HM) family during somatic embryogenesis of oil palm

(2022) Lixia Zhou et al.   BMC GENOMICS

Histone acetylation dynamics regulating plant development and stress responses

(2021) Verandra Kumar et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Chromatin and Epigenetic Rearrangements in Embryonic Stem Cell Fate Transitions

(2021) Li Sun et al.   Frontiers in Cell and Developmental Biology

The Histone Acetyltransferase GCN5 and the Associated Coactivators ADA2: From Evolution of the SAGA Complex to the Biological Roles in Plants

(2021) Konstantinos Vlachonasios et al.   Plants-Basel

An Arabidopsis AT-hook motif nuclear protein mediates somatic embryogenesis and coinciding genome duplication

(2021) Omid Karami et al.   Nature Communications

Histone Deacetylase Inhibitors Increase the Embryogenic Potential and Alter the Expression of Embryogenesis-Related and HDAC-Encoding Genes in Grapevine (Vitis vinifera L., cv. Mencía)

(2021) Óscar Martínez et al.   Plants-Basel

Genetic and Molecular Control of Somatic Embryogenesis

(2021) Camille Salaün et al.   Plants-Basel

A short guide to histone deacetylases including recent progress on class II enzymes

(2020) Suk-Youl Park et al.   EXPERIMENTAL AND MOLECULAR MEDICINE

Histone Deacetylase (HDAC) Gene Family in Allotetraploid Cotton and Its Diploid Progenitors: In Silico Identification, Molecular Characterization, and Gene Expression Analysis under Multiple Abiotic Stresses, DNA Damage and Phytohormone Treatments

(2020) Muhammad Imran et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Current Perspectives on the Auxin-Mediated Genetic Network that Controls the Induction of Somatic Embryogenesis in Plants

(2020) Anna M. Wójcik et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Homeostasis of histone acetylation is critical for auxin signaling and root morphogenesis

(2020) Cuong Thach Nguyen et al.   PLANT MOLECULAR BIOLOGY

Epigenetic Regulation of Auxin-Induced Somatic Embryogenesis in Plants

(2020) Barbara Wójcikowska et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Direct ETTIN-auxin interaction controls chromatin states in gynoecium development

(2020) André Kuhn et al.   eLife

PWR/HDA9/ABI4 Complex Epigenetically Regulates ABA Dependent Drought Stress Tolerance in Arabidopsis

(2020) Irfan Ullah Khan et al.   Frontiers in Plant Science

Chromatin Accessibility Dynamics and a Hierarchical Transcriptional Regulatory Network Structure for Plant Somatic Embryogenesis

(2020) Fu-Xiang Wang et al.   DEVELOPMENTAL CELL

OsHDA710-mediated Histone Deacetylation Regulates Callus Formation of Rice Mature Embryo

(2020) Haidao Zhang et al.   PLANT AND CELL PHYSIOLOGY

Genetic activity during early plant embryogenesis

(2020) Ran Tian et al.   BIOCHEMICAL JOURNAL

AGL15 Controls the Embryogenic Reprogramming of Somatic Cells in Arabidopsis through the Histone Acetylation-Mediated Repression of the miRNA Biogenesis Genes

(2020) Katarzyna Nowak et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Hypermethylation of Auxin-Responsive Motifs in the Promoters of the Transcription Factor Genes Accompanies the Somatic Embryogenesis Induction in Arabidopsis

(2020) Daria Grzybkowska et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Capture of Mouse and Human Stem Cells with Features of Formative Pluripotency

(2020) Masaki Kinoshita et al.   Cell Stem Cell

Chromatin accessibility and the regulatory epigenome

(2019) Sandy L. Klemm et al.   NATURE REVIEWS GENETICS

Auxin Response Factors promote organogenesis by chromatin-mediated repression of the pluripotency gene SHOOTMERISTEMLESS

(2019) Yuhee Chung et al.   Nature Communications

Molecular Mechanisms of Plant Regeneration

(2019) Momoko Ikeuchi et al.   Annual Review of Plant Biology

Primed histone demethylation regulates shoot regenerative competency

(2019) Hiroya Ishihara et al.   Nature Communications

Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton

(2019) Muhammad Imran et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Improving the efficiency of wheat microspore culture methodology: evaluation of pretreatments, gradients, and epigenetic chemicals

(2019) H. M. Wang et al.   PLANT CELL TISSUE AND ORGAN CULTURE

HISTONE DEACETYLASE 9 stimulates auxin-dependent thermomorphogenesis in Arabidopsis thaliana by mediating H2A.Z depletion

(2019) Lennard C. van der Woude et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functions and mechanisms of plant histone deacetylases

(2019) Xiangsong Chen et al.   Science China-Life Sciences

Synergistic action of GCN5 and CLAVATA1 in the regulation of gynoecium development in Arabidopsis thaliana

(2018) Stylianos Poulios et al.   NEW PHYTOLOGIST

Histone Deacetylases SRT1 and SRT2 Interact with ENAP1 to Mediate Ethylene-Induced Transcriptional Repression

(2018) Fan Zhang et al.   PLANT CELL

Dynamic Epigenetic Changes during Plant Regeneration

(2018) Kyounghee Lee et al.   TRENDS IN PLANT SCIENCE

Epigenetic reprogramming by histone acetyltransferase HAG1/AtGCN5 is required for pluripotency acquisition inArabidopsis

(2018) Ji‐Yun Kim et al.   EMBO JOURNAL

Trichostatin A Triggers an Embryogenic Transition in Arabidopsis Explants via an Auxin-Related Pathway

(2018) Barbara Wójcikowska et al.   Frontiers in Plant Science

5-Azacytidine: A Promoter of Epigenetic Changes in the Quest to Improve Plant Somatic Embryogenesis

(2018) Pedro Osorio-Montalvo et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Functions and mechanisms of non-histone protein acetylation

(2018) Takeo Narita et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants

(2018) Chi-Nga Chow et al.   NUCLEIC ACIDS RESEARCH

Degeneration pattern in somatic embryos of Pinus sylvestris L.

(2017) Malin Abrahamsson et al.   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT

Auxin Response Factors: output control in auxin biology

(2017) Mark Roosjen et al.   JOURNAL OF EXPERIMENTAL BOTANY

Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis

(2017) Barbara Wójcikowska et al.   PLANT CELL REPORTS

The BABY BOOM transcription factor activates the LEC1-ABI3-FUS3-LEC2 network to induce somatic embryogenesis

(2017) Anneke Horstman et al.   PLANT PHYSIOLOGY

Linking PHYTOCHROME-INTERACTING FACTOR to Histone Modification in Plant Shade Avoidance

(2017) Maolin Peng et al.   PLANT PHYSIOLOGY

Identification and expression analysis of genes involved in histone acetylation in Hevea brasiliensis

(2017) Hui-Liang Li et al.   Tree Genetics & Genomes

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

(2017) Yuan You et al.   Nature Communications

MultiQC: summarize analysis results for multiple tools and samples in a single report

(2016) Philip Ewels et al.   BIOINFORMATICS

Identification of genes regulated by histone acetylation during root development in Populus trichocarpa

(2016) Xujun Ma et al.   BMC GENOMICS

Histone deacetylation-mediated cellular dedifferentiation in Arabidopsis

(2016) Kyounghee Lee et al.   JOURNAL OF PLANT PHYSIOLOGY

HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth

(2016) Tory Chhun et al.   PLANT AND CELL PHYSIOLOGY

Genome-Wide Mapping of Targets of Maize Histone Deacetylase HDA101 Reveals Its Function and Regulatory Mechanism during Seed Development

(2016) Hua Yang et al.   PLANT CELL

Gene Regulation by the AGL15 Transcription Factor Reveals Hormone Interactions in Somatic Embryogenesis

(2016) Qiaolin Zheng et al.   PLANT PHYSIOLOGY

Nitric Oxide Modulates Histone Acetylation at Stress Genes by Inhibition of Histone Deacetylases

(2016) Alexander Mengel et al.   PLANT PHYSIOLOGY

Different functions of the histone acetyltransferase HAC1 gene traced in the model species Medicago truncatula, Lotus japonicus and Arabidopsis thaliana

(2016) Irina Boycheva et al.   PROTOPLASMA

Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data

(2015) Konstantin Okonechnikov et al.   BIOINFORMATICS

Global scale transcriptome analysis of Arabidopsis embryogenesis in vitro

(2015) Anushka M Wickramasuriya et al.   BMC GENOMICS

High-resolution mapping of H4K16 and H3K23 acetylation reveals conserved and unique distribution patterns inArabidopsisand rice

(2015) Li Lu et al.   Epigenetics

The Effects of Hormone Treatment on Epigenetic Marks During Organogenesis in Pinus radiata D. Don Embryos

(2015) José L. Rodríguez et al.   JOURNAL OF PLANT GROWTH REGULATION

DNA methylation pathways and their crosstalk with histone methylation

(2015) Jiamu Du et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Regulation of flowering time by the histone deacetylase HDA5 in Arabidopsis

(2015) Ming Luo et al.   PLANT JOURNAL

SCARECROW-LIKE15 interacts with HISTONE DEACETYLASE19 and is essential for repressing the seed maturation programme

(2015) Ming-Jun Gao et al.   Nature Communications

Auxin-regulated chromatin switch directs acquisition of flower primordium founder fate

(2015) Miin-Feng Wu et al.   eLife

Histone Acetyltransferases in Plant Development and Plasticity

(2014) Irina Boycheva et al.   CURRENT GENOMICS

Changes in Histone Methylation and Acetylation during Microspore Reprogramming to Embryogenesis Occur Concomitantly with BnHKMT and BnHAT Expression and Are Associated with Cell Totipotency, Proliferation, and Differentiation in Brassica napus

(2014) Héctor Rodríguez-Sanz et al.   CYTOGENETIC AND GENOME RESEARCH

50 years of protein acetylation: from gene regulation to epigenetics, metabolism and beyond

(2014) Eric Verdin et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Histone Deacetylase Inhibitor Trichostatin A Promotes Totipotency in the Male Gametophyte

(2014) H. Li et al.   PLANT CELL

MYB118 Represses Endosperm Maturation in Seeds of Arabidopsis

(2014) G. Barthole et al.   PLANT CELL

Spatial Distribution of Epigenetic Modifications in Brachypodium distachyon Embryos during Seed Maturation and Germination

(2014) Elzbieta Wolny et al.   PLoS One

The Arabidopsis transcription factor bZIP11 activates auxin-mediated transcription by recruiting the histone acetylation machinery

(2014) Christoph Weiste et al.   Nature Communications

Control of early seedling development by BES1/TPL/HDA19-mediated epigenetic regulation of ABI3

(2014) Hojin Ryu et al.   Nature Communications

Chromatin modifiers and remodellers: regulators of cellular differentiation

(2013) Taiping Chen et al.   NATURE REVIEWS GENETICS

Regulation of nucleosome dynamics by histone modifications

(2013) Gabriel E Zentner et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

HISTONE DEACETYLASE19 Interacts with HSL1 and Participates in the Repression of Seed Maturation Genes inArabidopsisSeedlings

(2013) Yi Zhou et al.   PLANT CELL

Histone Deacetylase AtHDA7 Is Required for Female Gametophyte and Embryo Development in Arabidopsis

(2013) R. A. Cigliano et al.   PLANT PHYSIOLOGY

LEAFY COTYLEDON2 (LEC2) promotes embryogenic induction in somatic tissues of Arabidopsis, via YUCCA-mediated auxin biosynthesis

(2013) Barbara Wójcikowska et al.   PLANTA

Extensive Modulation of the Transcription Factor Transcriptome during Somatic Embryogenesis in Arabidopsis thaliana

(2013) Marta Gliwicka et al.   PLoS One

New Insights into Somatic Embryogenesis: LEAFY COTYLEDON1, BABY BOOM1 and WUSCHEL-RELATED HOMEOBOX4 Are Epigenetically Regulated in Coffea canephora

(2013) Geovanny I. Nic-Can et al.   PLoS One

Tissue-Specific Epigenetic Modifications in Root Apical Meristem Cells of Hordeum vulgare

(2013) Agnieszka J. Braszewska-Zalewska et al.   PLoS One

Arabidopsis histone deacetylase HDA9 regulates flowering time through repression of AGL19

(2012) Wanhui Kim et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Requirement of histone acetyltransferases HAM1 and HAM2 for epigenetic modification of FLC in regulating flowering in Arabidopsis

(2012) Jun Xiao et al.   JOURNAL OF PLANT PHYSIOLOGY

Elongation-related functions of LEAFY COTYLEDON1 during the development of Arabidopsis thaliana

(2012) Astrid Junker et al.   PLANT JOURNAL

The TOPLESS Interactome: A Framework for Gene Repression in Arabidopsis

(2011) B. Causier et al.   PLANT PHYSIOLOGY

DNA Methylation and Histone Modifications Regulate De Novo Shoot Regeneration in Arabidopsis by Modulating WUSCHEL Expression and Auxin Signaling

(2011) Wei Li et al.   PLoS Genetics

SAMStat: monitoring biases in next generation sequencing data

(2010) T. Lassmann et al.   BIOINFORMATICS

Dynamics of DNA methylation and Histone H4 acetylation during floral bud differentiation in azalea

(2010) Mónica Meijón et al.   BMC PLANT BIOLOGY

Trichostatin A and 5-azacytidine both cause an increase in global histone H4 acetylation and a decrease in global DNA and H3K9 methylation during mitosis in maize

(2010) Fei Yang et al.   BMC PLANT BIOLOGY

Epigenetic chromatin modifications in Brassica genomes

(2010) Agnieszka Braszewska-Zalewska et al.   GENOME

Histone Acetyltransferase AtGCN5/HAG1 Is a Versatile Regulator of Developmental and Inducible Gene Expression in Arabidopsis

(2010) Caroline Servet et al.   Molecular Plant

Open chromatin in pluripotency and reprogramming

(2010) Alexandre Gaspar-Maia et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Ectopic expression of the Brassica SHOOTMERISTEMLESS attenuates the deleterious effects of the auxin transport inhibitor TIBA on somatic embryo number and morphology

(2010) Mohamed Elhiti et al.   PLANT SCIENCE

Putative Arabidopsis Transcriptional Adaptor Protein (PROPORZ1) is required to modulate histone acetylation in response to auxin

(2010) J. M. Anzola et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Acetylated H4 histone and genomic DNA methylation patterns during bud set and bud burst in Castanea sativa

(2009) MaEstrella Santamaría et al.   JOURNAL OF PLANT PHYSIOLOGY

Variations in DNA methylation, acetylated histone H4, and methylated histone H3 during Pinus radiata needle maturation in relation to the loss of in vitro organogenic capability

(2009) Luis Valledor et al.   JOURNAL OF PLANT PHYSIOLOGY

Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data

(2009) J. M. Ruijter et al.   NUCLEIC ACIDS RESEARCH

Auxin-inducedWUSexpression is essential for embryonic stem cell renewal during somatic embryogenesis in Arabidopsis

(2009) Ying H. Su et al.   PLANT JOURNAL

Cytokinin and WUSCHEL tie the knot around plant stem cells

(2009) R. Sablowski   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Overexpression of PGA37/MYB118 and MYB115 promotes vegetative-to-embryonic transition in Arabidopsis

(2008) Xingchun Wang et al.   CELL RESEARCH

Involvement of an R2R3-MYB transcription factor gene AtMYB118 in embryogenesis in Arabidopsis

(2008) Yunfei Zhang et al.   PLANT CELL REPORTS

Genome-scale Arabidopsis promoter array identifies targets of the histone acetyltransferase GCN5

(2008) Moussa Benhamed et al.   PLANT JOURNAL

Arabidopsis LEAFY COTYLEDON2 induces maturation traits and auxin activity: Implications for somatic embryogenesis

(2008) S. L. Stone et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TOPLESS Mediates Auxin-Dependent Transcriptional Repression During Arabidopsis Embryogenesis

(2008) H. Szemenyei et al.   SCIENCE

LECs go crazy in embryo development

(2008) S BRAYBROOK et al.   TRENDS IN PLANT SCIENCE