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Integrative analysis of DNA methylation, mRNAs, and small RNAs during maize embryo dedifferentiation

文献类型： 外文期刊

作者： Liu, Hongjun 1 ; Ma, Langlang 1 ; Yang, Xuerong 2 ; Zhang, Lin 3 ; Zeng, Xing 4 ; Xie, Shupeng; Peng, Huanwei; Gao, 1 ;

作者机构： 1.Sichuan Agr Univ, Maize Res Inst, Key Lab Biol & Genet Improvement Maize Southwest, Chengdu 611130, Peoples R China

2.Shandong Agr Univ, Coll Life Sci, State Key Lab Crop Biol, Tai An 271018, Shandong, Peoples R China

3.Northeast Agr Univ, Dept Agron, Harbin 150030, Peoples R China

4.Northeast Agr Univ, Dept Agron, Harbin 150030, Peoples R

关键词： Embryo callus;Epigenome;Maize;MeDIP_seq;24 nt small RNAs

期刊名称：BMC PLANT BIOLOGY （ 影响因子：4.215； 五年影响因子：4.96 ）

ISSN： 1471-2229

年卷期： 2017 年 17 卷

页码：

收录情况： SCI

摘要： Background: Maize (Zea mays) is an important model crop for transgenic studies. However, genetic transformation of maize requires embryonic calli derived from immature embryo, and the impact of utilizing tissue culture methods on the maize epigenome is poorly understood. Here, we generated whole-genome MeDIP-seq data examining DNA methylation in dedifferentiated and normal immature maize embryos. Results: We observed that most of the dedifferentiated embryos exhibited a methylation increase compared to normal embryos. Increased methylation at promoters was associated with down-regulated protein-coding gene expression; however, the correlation was not strong. Analysis of the callus and immature embryos indicated that the methylation increase was induced during induction of embryonic callus, suggesting phenotypic consequences may be caused by perturbations in genomic DNA methylation levels. The correlation between the 21-24nt small RNAs and DNA methylation regions were investigated but only a statistically significant correlation for 24nt small RNAs was observed. Conclusions: These data extend the significance of epigenetic changes during maize embryo callus formation, and the methylation changes might explain some of the observed embryonic callus variation in callus formation.

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