DNA methylome of the 20-gigabase Norway spruce genome

被引：88

作者：

Ausin, Israel ^{[1
]}

Feng, Suhua ^{[2
,3
]}

Yu, Chaowei ^{[4
]}

Liu, Wanlu ^{[2
,5
]}

Kuo, Hsuan Yu ^{[2
]}

Jacobsen, Elise L. ^{[2
]}

Zhai, Jixian ^{[6
]}

Gallego-Bartolome, Javier ^{[2
]}

Wang, Lin ^{[4
]}

Egertsdotter, Ulrika ^{[7
]}

Street, Nathaniel R. ^{[8
]}

Jacobsen, Steven E. ^{[2
,3
,9
]}

Wang, Haifeng ^{[1
,4
]}

机构：

[1] Fujian Agr & Forestry Univ, Basic Forestry & Prote Res Ctr, Fuzhou 350002, Fujian, Peoples R China

[2] Univ Calif Los Angeles, Dept Mol Cell & Dev Biol, Los Angeles, CA 90095 USA

[3] Univ Calif Los Angeles, Eli & Edythe Broad Ctr Regenerat Med & Stem Cell, Los Angeles, CA 90095 USA

[4] Fujian Agr & Forestry Univ, State Key Lab Ecol Pest Control Fujian & Taiwan C, Fuzhou 350002, Fujian, Peoples R China

[5] Univ Calif Los Angeles, Mol Biol Inst, Los Angeles, CA 90095 USA

[6] South Univ Sci & Technol, Dept Biol, Shenzhen 518055, Peoples R China

[7] Swedish Univ Agr Sci, Dept Forest Genet & Plant Physiol, Umea Plant Sci Ctr, SE-90184 Umea, Sweden

[8] Umea Univ, Dept Plant Physiol, Umea Plant Sci Ctr, SE-90187 Umea, Sweden

[9] Univ Calif Los Angeles, Howard Hughes Med Inst, Los Angeles, CA 90095 USA

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2016年 / 113卷 / 50期

基金：

瑞典研究理事会; 中国国家自然科学基金;

关键词：

gymnosperms; Norway spruce; DNA methylation; small RNA; genome size; BASE RESOLUTION MAPS; EPIGENETIC PATHWAY; SOMATIC EMBRYOS; METHYLATION; EVOLUTION; SEQUENCES; GENES; TEMPERATURE; ANGIOSPERMS; EPIGENOME;

D O I：

10.1073/pnas.1618019113

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

DNA methylation plays important roles in many biological processes, such as silencing of transposable elements, imprinting, and regulating gene expression. Many studies of DNA methylation have shown its essential roles in angiosperms (flowering plants). However, few studies have examined the roles and patterns of DNA methylation in gymnosperms. Here, we present genome-wide high coverage single-base resolution methylation maps of Norway spruce (Picea abies) from both needles and somatic embryogenesis culture cells via whole genome bisulfite sequencing. On average, DNA methylation levels of CG and CHG of Norway spruce were higher than most other plants studied. CHH methylation was found at a relatively low level; however, at least one copy of most of the RNA-directed DNA methylation pathway genes was found in Norway spruce, and CHH methylation was correlated with levels of siRNAs. In comparison with needles, somatic embryogenesis culture cells that are used for clonally propagating spruce trees showed lower levels of CG and CHG methylation but higher level of CHH methylation, suggesting that like in other species, these culture cells show abnormal methylation patterns.

引用

页码：E8106 / E8113

页数：8

共 44 条

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