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Whole-Genome Bisulfite Sequencing Reveals a Role for DNA Methylation in Variants from Callus Culture of Pineapple (Ananas comosus L.)

文献类型： 外文期刊

作者： Lin, Wenqiu 1 ; Xiao, Xi'ou 1 ; Zhang, Hongna 1 ; Li, Yunhe 1 ; Liu, Shenghui 1 ; Sun, Weisheng 1 ; Zhang, Xiumei 1 ; Wu, 1 ;

作者机构： 1.Chinese Acad Trop Agr Sci, South Subtrop Crop Res Inst, Zhanjiang 524091, Peoples R China

2.Minist Agr, Lab Trop Fruit Biol, Zhanjiang 524091, Peoples R China

关键词： pineapple; DNA methylation; somaclonal variation; bisulfite sequencing; callus culture

期刊名称：GENES （ 影响因子：4.096； 五年影响因子：4.339 ）

ISSN：

年卷期： 2019 年 10 卷 11 期

页码：

收录情况： SCI

摘要： DNA methylation changes can occur in some loci during callus culture, resulting in somaclonal variations (SVs). In the present study, we applied whole genome bisulfite sequencing to analyze context-specific DNA methylation changes in the pineapple genome between the cutting seedings and 5 SV plants. In general, SV plants exhibited methylation patterns analogous to those of cutting seedlings (CK). A total of 27.98% of the genomic cytosines of CK were methylcytosines, which was higher than that of 5 SV plants. Moreover, mCG and mCHG was hypermethylated, whereas mCHH was hypomethylated among the 5 SV plants genomic when compared with the CK. Most of the variation of DNA methylation was distributed in gene bodies, thus suggesting that phenotypic differences are probably perturbed by genes methylated from callus culture. In addition, the methylated genes were highly enriched for the Gene Ontology (GO) categories of binding and catalytic activity, cell part and organelle, cellular process, abiotic stimulus, and DNA modification. These results suggest that methylation mediates these pathways in the callus culture of pineapple. The results also suggested that the callus culture induced DNA methylation may result in the SV.

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