Genome-wide analysis of day/night DNA methylation differences in Populus nigra

作   者：Changjun Ding, Lixiong Liang, Shu Diao, Xiaohua Su, Bingyu Zhang
期刊名称：PLOS ONE
影响因子：2.766
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论文摘要：
DNA methylation is an important mechanism of epigenetic modification. Methylation
changes during stress responses and developmental processes have been well studied;
however, their role in plant adaptation to the day/night cycle is poorly understood. In this
study, we detected global methylation patterns in leaves of the black poplar Populus nigra
`N46' at 8:00 and 24:00 by methylated DNA immunoprecipitation sequencing (MeDIP-seq).
We found 10,027 and 10,242 genes to be methylated in the 8:00 and 24:00 samples,
respectively. The methylated genes appeared to be involved in multiple biological processes,
molecular functions, and cellular components, suggesting important roles for DNA
methylation in poplar cells. Comparing the 8:00 and 24:00 samples, only 440 differentially
methylated regions (DMRs) overlapped with genic regions, including 193 hyper- and 247
hypo-methylated DMRs, and may influence the expression of 137 downstream genes. Most
hyper-methylated genes were associated with transferase activity, kinase activity, and
phosphotransferase activity, whereas most hypo-methylated genes were associated with
protein binding, ATP binding, and adenyl ribonucleotide binding, suggesting that different
biological processes were activated during the day and night. Our results indicated that
methylated genes were prevalent in the poplar genome, but that only a few of these participated
in diurnal gene expression regulation.