DNA methylation of retrotransposons, DNA transposons and genes in sugar beet (Beta vulgaris L.)

Repeat Composition of CenH3-chromatin and H3K9me2-marked heterochromatin in Sugar Beet (Beta vulgaris)

(2016) Teresa Kowar et al.   BMC PLANT BIOLOGY

Short interspersed nuclear elements (SINEs) are abundant in Solanaceae and have a family-specific impact on gene structure and genome organization

(2016) Kathrin M. Seibt et al.   PLANT JOURNAL

Diversification, evolution and methylation of short interspersed nuclear element families in sugar beet and related Amaranthaceae species

(2016) Katrin Schwichtenberg et al.   PLANT JOURNAL

Mutational Cooperativity Linked to Combinatorial Epigenetic Gain of Function in Acute Myeloid Leukemia

(2015) Alan H. Shih et al.   CANCER CELL

Gender-specific postnatal demethylation and establishment of epigenetic memory

(2015) Yitzhak Reizel et al.   GENES & DEVELOPMENT

Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum

(2015) Robert VanBuren et al.   NATURE

Loss of Karma transposon methylation underlies the mantled somaclonal variant of oil palm

(2015) Meilina Ong-Abdullah et al.   NATURE

Stable oncogenic silencing in vivo by programmable and targeted de novo DNA methylation in breast cancer

(2015) S Stolzenburg et al.   ONCOGENE

Competency for shoot regeneration from Arabidopsis root explants is regulated by DNA methylation

(2015) Or Shemer et al.   PLANT SCIENCE

Cytosine Methylation of an Ancient Satellite Family in the Wild Beet Beta procumbens

(2014) Martin Schmidt et al.   CYTOGENETIC AND GENOME RESEARCH

Consistent and Heritable Alterations of DNA Methylation Are Induced by Tissue Culture in Maize

(2014) Scott C. Stelpflug et al.   GENETICS

Profiling of extensively diversified plant LINEs reveals distinct plant-specific subclades

(2014) Tony Heitkam et al.   PLANT JOURNAL

The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation

(2014) Falk Zakrzewski et al.   PLANT JOURNAL

Methylated DNA is over-represented in whole-genome bisulfite sequencing data

(2014) Lexiang Ji et al.   Frontiers in Genetics

Plant genome sequencing — applications for crop improvement

(2013) Marie E Bolger et al.   CURRENT OPINION IN BIOTECHNOLOGY

The genome of the recently domesticated crop plant sugar beet (Beta vulgaris)

(2013) Juliane C. Dohm et al.   NATURE

Single-base resolution methylomes of tomato fruit development reveal epigenome modifications associated with ripening

(2013) Silin Zhong et al.   NATURE BIOTECHNOLOGY

Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis

(2013) Hume Stroud et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Extensive Natural Epigenetic Variation at a De Novo Originated Gene

(2013) Amanda Bortolini Silveira et al.   PLoS Genetics

Plants regenerated from tissue culture contain stable epigenome changes in rice

(2013) Hume Stroud et al.   eLife

Highly diverse chromoviruses of Beta vulgaris are classified by chromodomains and chromosomal integration

(2013) Beatrice Weber et al.   Mobile DNA

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression

(2012) Xin Li et al.   BMC GENOMICS

Reprogramming of DNA Methylation in Pollen Guides Epigenetic Inheritance via Small RNA

(2012) Joseph P. Calarco et al.   CELL

CHH islands: de novo DNA methylation in near-gene chromatin regulation in maize

(2012) J. I. Gent et al.   GENOME RESEARCH

Targeted Methylation and Gene Silencing of VEGF-A in Human Cells by Using a Designed Dnmt3a–Dnmt3L Single-Chain Fusion Protein with Increased DNA Methylation Activity

(2012) Abu Nasar Siddique et al.   JOURNAL OF MOLECULAR BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Functions of DNA methylation: islands, start sites, gene bodies and beyond

(2012) Peter A. Jones   NATURE REVIEWS GENETICS

How important are transposons for plant evolution?

(2012) Damon Lisch   NATURE REVIEWS GENETICS

Epigenetic Editing: targeted rewriting of epigenetic marks to modulate expression of selected target genes

(2012) M. L. de Groote et al.   NUCLEIC ACIDS RESEARCH

DNA Methylation in Plants: Relationship to Small RNAs and Histone Modifications, and Functions in Transposon Inactivation

(2012) H. Saze et al.   PLANT AND CELL PHYSIOLOGY

Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice

(2012) L. Zhang et al.   PLANT CELL

A sugar beet (Beta vulgarisL.) reference FISH karyotype for chromosome and chromosome-arm identification, integration of genetic linkage groups and analysis of major repeat family distribution

(2012) Susanne Paesold et al.   PLANT JOURNAL

Evolutionary reshuffling in the Errantivirus lineage Elbe within theBeta vulgarisgenome

(2012) Cora Wollrab et al.   PLANT JOURNAL

Survey of sugar beet (Beta vulgaris L.) hAT transposons and MITE-like hATpin derivatives

(2012) Gerhard Menzel et al.   PLANT MOLECULAR BIOLOGY

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

Epigenetic profiling of heterochromatic satellite DNA

(2011) Falk Zakrzewski et al.   CHROMOSOMA

Regeneration in plants and animals: dedifferentiation, transdifferentiation, or just differentiation?

(2011) Kaoru Sugimoto et al.   TRENDS IN CELL BIOLOGY

Analysis of a c0t-1 library enables the targeted identification of minisatellite and satellite families in Beta vulgaris

(2010) Falk Zakrzewski et al.   BMC PLANT BIOLOGY

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

(2010) Julie A. Law et al.   NATURE REVIEWS GENETICS

Conservation and divergence of methylation patterning in plants and animals

(2010) S. Feng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

(2010) A. Zemach et al.   SCIENCE

Nested Ty3-gypsy retrotransposons of a single Beta procumbens centromere contain a putative chromodomain

(2009) Beatrice Weber et al.   CHROMOSOME RESEARCH

The Ty1-copia families SALIRE and Cotzilla populating the Beta vulgaris genome show remarkable differences in abundance, chromosomal distribution, and age

(2009) Beatrice Weber et al.   CHROMOSOME RESEARCH

Linking DNA methylation and histone modification: patterns and paradigms

(2009) Howard Cedar et al.   NATURE REVIEWS GENETICS

An abundant and heavily truncated non-LTR retrotransposon (LINE) family in Beta vulgaris

(2009) Torsten Wenke et al.   PLANT MOLECULAR BIOLOGY

Genome-Wide Demethylation of Arabidopsis Endosperm

(2009) T.-F. Hsieh et al.   SCIENCE

Assessing the Impact of Transgenerational Epigenetic Variation on Complex Traits

(2009) Frank Johannes et al.   PLoS Genetics

Epigenetic Regulation of Transposable Elements in Plants

(2008) Damon Lisch   Annual Review of Plant Biology

Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis

(2008) Ryan Lister et al.   CELL

Epigenetic regulation of heterochromatic DNA stability

(2008) Jamy C Peng et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

Tissue dependent variations of DNA methylation and endoreduplication levels during tomato fruit development and ripening

(2008) E. Teyssier et al.   PLANTA

Epigenomic Consequences of Immortalized Plant Cell Suspension Culture

(2008) Milos Tanurdzic et al.   PLOS BIOLOGY