DNA methylation and gene expression in Mimulus guttatus

Jack M. Colicchio, Fumihito Miura, John K. Kelly, Takashi Ito, Lena C. Hileman

研究成果: ジャーナルへの寄稿記事

12 引用 (Scopus)

抄録

Background: The presence of methyl groups on cytosine nucleotides across an organism's genome (methylation) is a major regulator of genome stability, crossing over, and gene regulation. The capacity for DNA methylation to be altered by environmental conditions, and potentially passed between generations, makes it a prime candidate for transgenerational epigenetic inheritance. Here we conduct the first analysis of the Mimulus guttatus methylome, with a focus on the relationship between DNA methylation and gene expression. Results: We present a whole genome methylome for the inbred line Iron Mountain 62 (IM62). DNA methylation varies across chromosomes, genomic regions, and genes. We develop a model that predicts gene expression based on DNA methylation (R2 = 0.2). Post hoc analysis of this model confirms prior relationships, and identifies novel relationships between methylation and gene expression. Additionally, we find that DNA methylation is significantly depleted near gene transcriptional start sites, which may explain the recently discovered elevated rate of recombination in these same regions. Conclusions: The establishment here of a reference methylome will be a useful resource for the continued advancement of M. guttatus as a model system. Using a model-based approach, we demonstrate that methylation patterns are an important predictor of variation in gene expression. This model provides a novel approach for differential methylation analysis that generates distinct and testable hypotheses regarding gene expression.

元の言語英語
記事番号507
ジャーナルBMC Genomics
16
発行部数1
DOI
出版物ステータス出版済み - 7 7 2015
外部発表Yes

Fingerprint

Mimulus
DNA Methylation
Methylation
Gene Expression
Cytosine Nucleotides
Genome
Genes
Genomic Instability
Epigenomics
Genetic Recombination
Iron
Chromosomes

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Genetics

これを引用

DNA methylation and gene expression in Mimulus guttatus. / Colicchio, Jack M.; Miura, Fumihito; Kelly, John K.; Ito, Takashi; Hileman, Lena C.

:: BMC Genomics, 巻 16, 番号 1, 507, 07.07.2015.

研究成果: ジャーナルへの寄稿記事

Colicchio, Jack M. ; Miura, Fumihito ; Kelly, John K. ; Ito, Takashi ; Hileman, Lena C. / DNA methylation and gene expression in Mimulus guttatus. :: BMC Genomics. 2015 ; 巻 16, 番号 1.
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