Conservation and divergence of transcriptomic and epigenomic variation in maize hybrids

doi:10.1186/gb-2013-14-6-r57

	Conservation and divergence of transcriptomic and epigenomic variation in maize hybrids
	He, Guangming 1; Chen, Beibei 2,3; Wang, Xuncheng 4; Li, Xueyong 2,5; Li, Jigang 1,2; He, Hang 1; Yang, Mei 1; Lu, Lu 6; Qi, Yijun 7; Wang, Xiping 6
刊名	GENOME BIOLOGY
	2013
卷号	14 期号:6 页码:-
关键词	maize hybrids transcriptome epigenome
ISSN号	1465-6906
DOI	10.1186/gb-2013-14-6-r57
通讯作者	He, Guangming
英文摘要	Background: Recent genome-wide studies suggested that in addition to genetic variations, epigenetic variations may also be associated with differential gene expression and growth vigor in plant hybrids. Maize is an ideal model system for the study of epigenetic variations in hybrids given the significant heterotic performance, the well-known complexity of the genome, and the rich history in epigenetic studies. However, integrated comparative transcriptomic and epigenomic analyses in different organs of maize hybrids remain largely unexplored.Results: Here, we generated integrated maps of transcriptomes and epigenomes of shoots and roots of two maize inbred lines and their reciprocal hybrids, and globally surveyed the epigenetic variations and their relationships with transcriptional divergence between different organs and genotypes. We observed that whereas histone modifications vary both between organs and between genotypes, DNA methylation patterns are more distinguishable between genotypes than between organs. Histone modifications were associated with transcriptomic divergence between organs and between hybrids and parents. Further, we show that genes up-regulated in both shoots and roots of hybrids were significantly enriched in the nucleosome assembly pathway. Interestingly, 22- and 24-nt siRNAs were shown to be derived from distinct transposable elements, and for different transposable elements in both shoots and roots, the differences in siRNA activity between hybrids and patents were primarily driven by different siRNA species.Conclusions: These results suggest that despite variations in specific genes or genomic loci, similar mechanisms may account for the genome-wide epigenetic regulation of gene activity and transposon stability in different organs of maize hybrids.
学科主题	Biotechnology & Applied Microbiology ; Genetics & Heredity ; BIOTECHNOLOGY & APPLIED MICROBIOLOGY ; GENETICS & HEREDITY
语种	英语
出版者	BIOMED CENTRAL LTD
WOS记录号	WOS:000328194200005
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/5085]
专题	作物科学研究所_分子生物学系
作者单位	1.Peking Univ, Peking Yale Joint Ctr Plant Mol Genet & Agrobiote, State Key Lab Prot & Plant Gene Res, Sch Life Sci, Beijing 100871, Peoples R China 2.Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA 3.Chinese Acad Sci, Inst Biophys, Beijing 100101, Peoples R China 4.Tsinghua Univ, Sch Life Sci, Tsinghua Peking Joint Ctr Life Sci, Beijing 100084, Peoples R China 5.Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Gene Resources & Genet Impr, Beijing 100081, Peoples R China 6.Beijing Normal Univ, Coll Life Sci, Beijing 100875, Peoples R China 7.Natl Inst Biol Sci, Beijing 102206, Peoples R China
推荐引用方式 GB/T 7714	He, Guangming,Chen, Beibei,Wang, Xuncheng,et al. Conservation and divergence of transcriptomic and epigenomic variation in maize hybrids[J]. GENOME BIOLOGY,2013,14(6):-.
APA	He, Guangming.,Chen, Beibei.,Wang, Xuncheng.,Li, Xueyong.,Li, Jigang.,...&Deng, Xing Wang.(2013).Conservation and divergence of transcriptomic and epigenomic variation in maize hybrids.GENOME BIOLOGY,14(6),-.
MLA	He, Guangming,et al."Conservation and divergence of transcriptomic and epigenomic variation in maize hybrids".GENOME BIOLOGY 14.6(2013):-.