Genome-wide High-Resolution Mapping and Functional Analysis of DNA Methylation in Arabidopsis. Zhang, X.; Yazaki, J.; Sundaresan, A.; Cokus, S.; Chan, S., W., L.; Chen, H.; Henderson, I., R.; Shinn, P.; Pellegrini, M.; Jacobsen, S., E.; and Ecker, J. Cell, 126(6):1189-1201, 9, 2006.
Genome-wide High-Resolution Mapping and Functional Analysis of DNA Methylation in Arabidopsis [link]Website  abstract   bibtex   
Cytosine methylation is important for transposon silencing and epigenetic regulation of endogenous genes, although the extent to which this DNA modification functions to regulate the genome is still unknown. Here we report the first comprehensive DNA methylation map of an entire genome, at 35 base pair resolution, using the flowering plant Arabidopsis thaliana as a model. We find that pericentromeric heterochromatin, repetitive sequences, and regions producing small interfering RNAs are heavily methylated. Unexpectedly, over one-third of expressed genes contain methylation within transcribed regions, whereas only ???5% of genes show methylation within promoter regions. Interestingly, genes methylated in transcribed regions are highly expressed and constitutively active, whereas promoter-methylated genes show a greater degree of tissue-specific expression. Whole-genome tiling-array transcriptional profiling of DNA methyltransferase null mutants identified hundreds of genes and intergenic noncoding RNAs with altered expression levels, many of which may be epigenetically controlled by DNA methylation. ?? 2006 Elsevier Inc. All rights reserved.
@article{
 title = {Genome-wide High-Resolution Mapping and Functional Analysis of DNA Methylation in Arabidopsis},
 type = {article},
 year = {2006},
 identifiers = {[object Object]},
 keywords = {Arabidopsis,Arabidopsis: genetics,Arabidopsis: metabolism,Chromosome Mapping,Chromosome Mapping: methods,DNA Methylation,DNA Modification Methylases,DNA Modification Methylases: genetics,DNA Modification Methylases: metabolism,DNA, Plant,DNA, Plant: genetics,DNA, Plant: metabolism,Gene Expression Profiling,Gene Expression Profiling: methods,Gene Expression Regulation, Plant,Gene Expression Regulation, Plant: genetics,Gene Silencing,Gene Silencing: physiology,Genes, Plant,Genes, Plant: genetics,Genome, Plant,Genome, Plant: genetics,Molecular Sequence Data,Oligonucleotide Array Sequence Analysis,Oligonucleotide Array Sequence Analysis: methods,Promoter Regions, Genetic,Promoter Regions, Genetic: genetics,RNA, Small Interfering,RNA, Small Interfering: genetics,Transcription, Genetic,Transcription, Genetic: genetics},
 pages = {1189-1201},
 volume = {126},
 websites = {http://www.sciencedirect.com/science/article/pii/S009286740601018X},
 month = {9},
 day = {22},
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 abstract = {Cytosine methylation is important for transposon silencing and epigenetic regulation of endogenous genes, although the extent to which this DNA modification functions to regulate the genome is still unknown. Here we report the first comprehensive DNA methylation map of an entire genome, at 35 base pair resolution, using the flowering plant Arabidopsis thaliana as a model. We find that pericentromeric heterochromatin, repetitive sequences, and regions producing small interfering RNAs are heavily methylated. Unexpectedly, over one-third of expressed genes contain methylation within transcribed regions, whereas only ???5% of genes show methylation within promoter regions. Interestingly, genes methylated in transcribed regions are highly expressed and constitutively active, whereas promoter-methylated genes show a greater degree of tissue-specific expression. Whole-genome tiling-array transcriptional profiling of DNA methyltransferase null mutants identified hundreds of genes and intergenic noncoding RNAs with altered expression levels, many of which may be epigenetically controlled by DNA methylation. ?? 2006 Elsevier Inc. All rights reserved.},
 bibtype = {article},
 author = {Zhang, Xiaoyu and Yazaki, Junshi and Sundaresan, Ambika and Cokus, Shawn and Chan, Simon W L and Chen, Huaming and Henderson, Ian R. and Shinn, Paul and Pellegrini, Matteo and Jacobsen, Steve E. and Ecker, Joseph R},
 journal = {Cell},
 number = {6}
}
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