Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm

Abstract Background Genomic imprinting is an epigenetic phenomenon mainly occurs in endosperm of flowering plants. Genome-wide identification of imprinted genes have been completed in several dicot Cruciferous plant and monocot crops. Results Here, we analyzed global patterns of allelic gene express...

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Autores principales:	Zhichao Zhang, Shuai Yu, Jing Li, Yanbin Zhu, Siqi Jiang, Haoran Xia, Yue Zhou, Daqiu Sun, Meiling Liu, Cong Li, Yanshu Zhu, Yanye Ruan, Xiaomei Dong
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Genomic imprinting DNA methylation Endosperm Sunflower Botany QK1-989
Acceso en línea:	https://doaj.org/article/f03628bcc2f7407b96eb8d12dd703e19
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spelling	oai:doaj.org-article:f03628bcc2f7407b96eb8d12dd703e192021-12-05T12:06:21ZEpigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm10.1186/s12870-021-03344-41471-2229https://doaj.org/article/f03628bcc2f7407b96eb8d12dd703e192021-12-01T00:00:00Zhttps://doi.org/10.1186/s12870-021-03344-4https://doaj.org/toc/1471-2229Abstract Background Genomic imprinting is an epigenetic phenomenon mainly occurs in endosperm of flowering plants. Genome-wide identification of imprinted genes have been completed in several dicot Cruciferous plant and monocot crops. Results Here, we analyzed global patterns of allelic gene expression in developing endosperm of sunflower which belongs to the composite family. Totally, 691 imprinted loci candidates were identified in 12 day-after-pollination sunflower endosperm including 79 maternally expressed genes (MEG) and 596 paternally expressed genes (PEG), 6 maternally expressed noncoding RNAs (MNC) and 10 paternally expressed noncoding RNAs (PNC). And a clear clustering of imprinted genes throughout the rapeseed genome was identified. Generally, imprinting in sunflower is conserved within a species, but intraspecific variation also was detected. Limited loci in sunflower are imprinted in other several different species. The DNA methylation pattern around imprinted genes were investigated in embryo and endosperm tissues. In CG context, the imprinted genes were significantly associated with differential methylated regions exhibiting hypomethylation in endosperm and hypermethylation in embryo, which indicated that the maternal demethylation in CG context potentially induce the genomic imprinting in endosperm. Conclusion Our study would be helpful for understanding of genomic imprinting in plants and provide potential basis for further research in imprinting in sunflower.Zhichao ZhangShuai YuJing LiYanbin ZhuSiqi JiangHaoran XiaYue ZhouDaqiu SunMeiling LiuCong LiYanshu ZhuYanye RuanXiaomei DongBMCarticleGenomic imprintingDNA methylationEndospermSunflowerBotanyQK1-989ENBMC Plant Biology, Vol 21, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Genomic imprinting DNA methylation Endosperm Sunflower Botany QK1-989
spellingShingle	Genomic imprinting DNA methylation Endosperm Sunflower Botany QK1-989 Zhichao Zhang Shuai Yu Jing Li Yanbin Zhu Siqi Jiang Haoran Xia Yue Zhou Daqiu Sun Meiling Liu Cong Li Yanshu Zhu Yanye Ruan Xiaomei Dong Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm
description	Abstract Background Genomic imprinting is an epigenetic phenomenon mainly occurs in endosperm of flowering plants. Genome-wide identification of imprinted genes have been completed in several dicot Cruciferous plant and monocot crops. Results Here, we analyzed global patterns of allelic gene expression in developing endosperm of sunflower which belongs to the composite family. Totally, 691 imprinted loci candidates were identified in 12 day-after-pollination sunflower endosperm including 79 maternally expressed genes (MEG) and 596 paternally expressed genes (PEG), 6 maternally expressed noncoding RNAs (MNC) and 10 paternally expressed noncoding RNAs (PNC). And a clear clustering of imprinted genes throughout the rapeseed genome was identified. Generally, imprinting in sunflower is conserved within a species, but intraspecific variation also was detected. Limited loci in sunflower are imprinted in other several different species. The DNA methylation pattern around imprinted genes were investigated in embryo and endosperm tissues. In CG context, the imprinted genes were significantly associated with differential methylated regions exhibiting hypomethylation in endosperm and hypermethylation in embryo, which indicated that the maternal demethylation in CG context potentially induce the genomic imprinting in endosperm. Conclusion Our study would be helpful for understanding of genomic imprinting in plants and provide potential basis for further research in imprinting in sunflower.
format	article
author	Zhichao Zhang Shuai Yu Jing Li Yanbin Zhu Siqi Jiang Haoran Xia Yue Zhou Daqiu Sun Meiling Liu Cong Li Yanshu Zhu Yanye Ruan Xiaomei Dong
author_facet	Zhichao Zhang Shuai Yu Jing Li Yanbin Zhu Siqi Jiang Haoran Xia Yue Zhou Daqiu Sun Meiling Liu Cong Li Yanshu Zhu Yanye Ruan Xiaomei Dong
author_sort	Zhichao Zhang
title	Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm
title_short	Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm
title_full	Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm
title_fullStr	Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm
title_full_unstemmed	Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm
title_sort	epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm
publisher	BMC
publishDate	2021
url	https://doaj.org/article/f03628bcc2f7407b96eb8d12dd703e19
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Epigenetic modifications potentially controlling the allelic expression of imprinted genes in sunflower endosperm

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