Non-CG methylation in the human genome

Y He, JR Ecker - Annual review of genomics and human …, 2015 - annualreviews.org
DNA methylation is a chemical modification that occurs predominantly on CG dinucleotides
in mammalian genomes. However, recent studies have revealed that non-CG methylation …

Putting DNA methylation in context: from genomes to gene expression in plants

CE Niederhuth, RJ Schmitz - Biochimica et Biophysica Acta (BBA)-Gene …, 2017 - Elsevier
Plant DNA methylation is its own language, interpreted by the cell to maintain silencing of
transposons, facilitate chromatin structure, and to ensure proper expression of some genes …

De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes

MB Hufford, AS Seetharam, MR Woodhouse… - Science, 2021 - science.org
We report de novo genome assemblies, transcriptomes, annotations, and methylomes for
the 26 inbreds that serve as the founders for the maize nested association mapping …

[HTML][HTML] Integrative analysis of 111 reference human epigenomes

A Kundaje, W Meuleman, J Ernst, M Bilenky, A Yen… - Nature, 2015 - nature.com
The reference human genome sequence set the stage for studies of genetic variation and its
association with human disease, but epigenomic studies lack a similar reference. To …

The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut

DJ Bertioli, SB Cannon, L Froenicke, G Huang… - Nature …, 2016 - nature.com
Cultivated peanut (Arachis hypogaea) is an allotetraploid with closely related subgenomes
of a total size of∼ 2.7 Gb. This makes the assembly of chromosomal pseudomolecules very …

Widespread natural variation of DNA methylation within angiosperms

CE Niederhuth, AJ Bewick, L Ji, MS Alabady, KD Kim… - Genome biology, 2016 - Springer
Background DNA methylation is an important feature of plant epigenomes, involved in the
formation of heterochromatin and affecting gene expression. Extensive variation of DNA …

Human body epigenome maps reveal noncanonical DNA methylation variation

MD Schultz, Y He, JW Whitaker, M Hariharan… - Nature, 2015 - nature.com
Understanding the diversity of human tissues is fundamental to disease and requires linking
genetic information, which is identical in most of an individual's cells, with epigenetic …

Widespread adenine N6-methylation of active genes in fungi

SJ Mondo, RO Dannebaum, RC Kuo, KB Louie… - Nature …, 2017 - nature.com
Abstract N6-methyldeoxyadenine (6mA) is a noncanonical DNA base modification present
at low levels in plant and animal genomes,,,, but its prevalence and association with …

Patterns of population epigenomic diversity

RJ Schmitz, MD Schultz, MA Urich, JR Nery… - Nature, 2013 - nature.com
Natural epigenetic variation provides a source for the generation of phenotypic diversity, but
to understand its contribution to such diversity, its interaction with genetic variation requires …

Dynamic DNA methylation reconfiguration during seed development and germination

T Kawakatsu, JR Nery, R Castanon, JR Ecker - Genome biology, 2017 - Springer
Background Unlike animals, plants can pause their life cycle as dormant seeds. In both
plants and animals, DNA methylation is involved in the regulation of gene expression and …