BsRADseq: screening DNA methylation in natural populations of non-model species

Genome-Wide DNA Methylation Patterns in Wild Samples of Two Morphotypes of Threespine Stickleback (Gasterosteus aculeatus)

(2015) Gilbert Smith et al.   MOLECULAR BIOLOGY AND EVOLUTION

The epigenetic footprint of poleward range-expanding plants in apomictic dandelions

(2015) V. Preite et al.   MOLECULAR ECOLOGY

Genome-wide signature of local adaptation linked to variable CpG methylation in oak populations

(2015) Alexander Platt et al.   MOLECULAR ECOLOGY

Human body epigenome maps reveal noncanonical DNA methylation variation

(2015) Matthew D. Schultz et al.   NATURE

Epigenetic regulation of intragenic transposable elements impacts gene transcription in Arabidopsis thaliana

(2015) Tu N. Le et al.   NUCLEIC ACIDS RESEARCH

Century-scale Methylome Stability in a Recently Diverged Arabidopsis thaliana Lineage

(2015) Jörg Hagmann et al.   PLoS Genetics

A recurrent regulatory change underlying altered expression and Wnt response of the stickleback armor plates gene EDA

(2015) Natasha M O'Brown et al.   eLife

DNA methylation in Arabidopsis has a genetic basis and shows evidence of local adaptation

(2015) Manu J Dubin et al.   eLife

Individual variation in size and fecundity is correlated with differences in global DNA cytosine methylation in the perennial herb Helleborus foetidus (Ranunculaceae)

(2014) C. Alonso et al.   AMERICAN JOURNAL OF BOTANY

A Neutrality Test for Detecting Selection on DNA Methylation Using Single Methylation Polymorphism Frequency Spectrum

(2014) Jun Wang et al.   Genome Biology and Evolution

Epigenetic variation predicts regional and local intraspecific functional diversity in a perennial herb

(2014) Mónica Medrano et al.   MOLECULAR ECOLOGY

Epigenetic variation reflects dynamic habitat conditions in a rare floodplain herb

(2014) Benjamin Schulz et al.   MOLECULAR ECOLOGY

Mapping the Epigenetic Basis of Complex Traits

(2014) S. Cortijo et al.   SCIENCE

ZF-CxxC domain-containing proteins, CpG islands and the chromatin connection

(2013) Hannah K. Long et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

The Arabidopsis Nucleosome Remodeler DDM1 Allows DNA Methyltransferases to Access H1-Containing Heterochromatin

(2013) Assaf Zemach et al.   CELL

Comprehensive Analysis of Silencing Mutants Reveals Complex Regulation of the Arabidopsis Methylome

(2013) Hume Stroud et al.   CELL

Genetic and Epigenetic Aspects of Polyploid Evolution in Plants

(2013) A. Madlung et al.   CYTOGENETIC AND GENOME RESEARCH

DNA methylation contributes to natural human variation

(2013) H. Heyn et al.   GENOME RESEARCH

Ecological Epigenetics: Beyond MS-AFLP

(2013) A. W. Schrey et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Patterns of population epigenomic diversity

(2013) Robert J. Schmitz et al.   NATURE

Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis

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

Epigenetics of Ciliates

(2013) D. L. Chalker et al.   Cold Spring Harbor Perspectives in Biology

Epigenetic diversity increases the productivity and stability of plant populations

(2013) Vít Latzel et al.   Nature Communications

Extensive Natural Epigenetic Variation at a De Novo Originated Gene

(2013) Amanda Bortolini Silveira et al.   PLoS Genetics

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

Genome divergence during evolutionary diversification as revealed in replicate lake-stream stickleback population pairs

(2012) MARIUS ROESTI et al.   MOLECULAR ECOLOGY

Natural epigenetic variation in the female great roundleaf bat (Hipposideros armiger) populations

(2012) Sen Liu et al.   MOLECULAR GENETICS AND GENOMICS

The genomic basis of adaptive evolution in threespine sticklebacks

(2012) Felicity C. Jones et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Transgenerational Inheritance of Modified DNA Methylation Patterns and Enhanced Tolerance Induced by Heavy Metal Stress in Rice (Oryza sativa L.)

(2012) Xiufang Ou et al.   PLoS One

Widespread dynamic DNA methylation in response to biotic stress

(2012) R. H. Dowen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2011) Felix Krueger et al.   BIOINFORMATICS

Altered gene expression and ecological divergence in sibling allopolyploids of Dactylorhiza (Orchidaceae)

(2011) Ovidiu Paun et al.   BMC EVOLUTIONARY BIOLOGY

RADSeq: next-generation population genetics

(2011) J. W. Davey et al.   Briefings in Functional Genomics

High-throughput approaches for plant epigenomic studies

(2011) Robert J Schmitz et al.   CURRENT OPINION IN PLANT BIOLOGY

CpG islands and the regulation of transcription

(2011) A. M. Deaton et al.   GENES & DEVELOPMENT

A truly ecological epigenetics study

(2011) OLIVER BOSSDORF et al.   MOLECULAR ECOLOGY

De novo transcriptome assembly and polymorphism detection in the flowering plant Silene vulgaris (Caryophyllaceae)

(2011) DANIEL B. SLOAN et al.   Molecular Ecology Resources

Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

(2011) Claude Becker et al.   NATURE

Bio-CAP: a versatile and highly sensitive technique to purify and characterise regions of non-methylated DNA

(2011) Neil P. Blackledge et al.   NUCLEIC ACIDS RESEARCH

Accurate sodium bisulfite sequencing in plants

(2010) Ian R. Henderson et al.   Epigenetics

Epigenetic Contribution to Covariance Between Relatives

(2010) O. Tal et al.   GENETICS

Stable Epigenetic Effects Impact Adaptation in Allopolyploid Orchids (Dactylorhiza: Orchidaceae)

(2010) O. Paun et al.   MOLECULAR BIOLOGY AND EVOLUTION

Environmentally induced phenotypes and DNA methylation: how to deal with unpredictable conditions until the next generation and after

(2010) BERNARD ANGERS et al.   MOLECULAR ECOLOGY

Relationship between nucleosome positioning and DNA methylation

(2010) Ramakrishna K. Chodavarapu et al.   NATURE

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

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

Principles and challenges of genome-wide DNA methylation analysis

(2010) Peter W. Laird   NATURE REVIEWS GENETICS

Epigenetic Variation in Mangrove Plants Occurring in Contrasting Natural Environment

(2010) Catarina Fonseca Lira-Medeiros et al.   PLoS One

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

Epigenetic Reprogramming in Plant and Animal Development

(2010) Suhua Feng et al.   SCIENCE

Finding the fifth base: Genome-wide sequencing of cytosine methylation

(2009) R. Lister et al.   GENOME RESEARCH

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

Stress-induced DNA methylation changes and their heritability in asexual dandelions

(2009) Koen J. F. Verhoeven et al.   NEW PHYTOLOGIST

Transgenerational Epigenetic Inheritance: Prevalence, Mechanisms, and Implications for the Study of Heredity and Evolution

(2009) Eva Jablonka et al.   QUARTERLY REVIEW OF BIOLOGY

Hybrid Origins and Homoploid Reticulate Evolution within Heliosperma (Sileneae, Caryophyllaceae)—A Multigene Phylogenetic Approach with Relative Dating

(2009) Božo Frajman et al.   SYSTEMATIC BIOLOGY

Assessing the Impact of Transgenerational Epigenetic Variation on Complex Traits

(2009) Frank Johannes et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

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

(2008) Ryan Lister et al.   CELL

Population epigenetics

(2008) Eric J Richards   CURRENT OPINION IN GENETICS & DEVELOPMENT

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

DNA methylation landscapes: provocative insights from epigenomics

(2008) Miho M. Suzuki et al.   NATURE REVIEWS GENETICS

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One