Single-base methylome analysis reveals dynamic changes of genome-wide DNA methylation associated with rapid stem growth of woody bamboos

doi:10.1007/s00425-022-03962-8

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	Single-base methylome analysis reveals dynamic changes of genome-wide DNA methylation associated with rapid stem growth of woody bamboos
	Niu, Liang-Zhong; Xu, Wei; Ma, Peng-Fei; Guo, Zhen-Hua; Li, De-Zhu
	2022
Source Publication	PLANTA
Volume	256 Issue:3 Pages:53
Abstract	Main conclusion CG and CHG methylation levels in the rapid shoot growth stages (ST2-ST4) of woody bamboos were obviously decreased, which might regulate the internode elongation during rapid shoot growth, while CHH methylation was strongly associated with shoot developmental time or age. DNA methylation plays a critical role in the regulation of plant growth and development. Woody bamboos have a unique trait of rapid stem growth resulted from internode elongation at the shooting period. However, it is still unclear whether DNA methylation significantly controls the bamboo rapid stem growth. Here we present whole-genome DNA methylation profiles of the paleotropical woody bamboo Bonia amplexicaulis at five newly defined stages of shoot growth, named ST1-ST5. We found that CG and CHG methylation levels in the rapid shoot growth stages (ST2-ST4) were significantly lower than in the incubation (ST1) and plateau stages (ST5). The changes in methylation levels mainly occurred in flanking regions of genes and gene body regions, and 23647 differentially methylated regions (DMRs) were identified between ST1 and rapid shoot growth stages (ST2-ST4). Combined with transcriptome analysis, we found that DMR-related genes enriched in the auxin and jasmonic acid (JA) signal transduction, and other pathways closely related to plant growth. Intriguingly, CHH methylation was not involved in the rapid shoot growth, but strongly associated with shoot developmental time by gradually accumulating in transposable elements (TEs) regions. Overall, our results reveal the importance of DNA methylation in regulating the bamboo rapid shoot growth and suggest a role of DNA methylation associated with development time or age in woody bamboos.
Keyword	DNA methylation Gene expression Internode elongation Jasmonic acid Woody bamboos PHENYLALANINE AMMONIA-LYASE MOLECULAR CHARACTERIZATION CYTOSINE METHYLTRANSFERASE INTERNODE ELONGATION TRANSCRIPTION FACTOR H3 LYSINE-9 ARABIDOPSIS EXPRESSION DEMETHYLATION PROTEIN
DOI	10.1007/s00425-022-03962-8
Indexed By	SCI
WOS ID	WOS:000834822500001
Citation statistics
Document Type	期刊论文
Identifier	http://ir.kib.ac.cn/handle/151853/74722
Collection	中国科学院昆明植物研究所
Recommended Citation GB/T 7714	Niu, Liang-Zhong,Xu, Wei,Ma, Peng-Fei,et al. Single-base methylome analysis reveals dynamic changes of genome-wide DNA methylation associated with rapid stem growth of woody bamboos[J]. PLANTA,2022,256(3):53.
APA	Niu, Liang-Zhong,Xu, Wei,Ma, Peng-Fei,Guo, Zhen-Hua,&Li, De-Zhu.(2022).Single-base methylome analysis reveals dynamic changes of genome-wide DNA methylation associated with rapid stem growth of woody bamboos.PLANTA,256(3),53.
MLA	Niu, Liang-Zhong,et al."Single-base methylome analysis reveals dynamic changes of genome-wide DNA methylation associated with rapid stem growth of woody bamboos".PLANTA 256.3(2022):53.

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