Single base-resolution methylome of the silkworm reveals a sparse epigenomic map

被引：256

作者：

Xiang, Hui ^{[1
,2
]}

Zhu, Jingde ^{[3
,4
]}

Chen, Quan ^{[1
]}

Dai, Fangyin ^{[5
]}

Li, Xin ^{[2
]}

Li, Muwang ^{[6
]}

Zhang, Hongyu ^{[3
]}

Zhang, Guojie ^{[1
]}

Li, Dong ^{[5
]}

Dong, Yang ^{[2
]}

Zhao, Li ^{[2
]}

Lin, Ying ^{[5
]}

Cheng, Daojun ^{[5
]}

Yu, Jian ^{[3
]}

Sun, Jinfeng ^{[3
]}

Zhou, Xiaoyu ^{[3
]}

Ma, Kelong ^{[3
]}

He, Yinghua ^{[3
]}

Zhao, Yangxing ^{[3
]}

Guo, Shicheng ^{[3
]}

Ye, Mingzhi ^{[1
]}

Guo, Guangwu ^{[1
]}

Li, Yingrui ^{[1
]}

Li, Ruiqiang ^{[1
]}

Zhang, Xiuqing ^{[1
]}

Ma, Lijia ^{[1
]}

Kristiansen, Karsten ^{[7
]}

Guo, Qiuhong ^{[8
]}

Jiang, Jianhao ^{[8
]}

Beck, Stephan ^{[9
]}

Xia, Qingyou ^{[5
]}

Wang, Wen ^{[2
]}

Wang, Jun ^{[1
,7
]}

机构：

[1] BGI Shenzhen, Shenzhen, Peoples R China

[2] Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, CAS Max Planck Jr Res Grp, Kunming, Peoples R China

[3] Shanghai Jiao Tong Univ, Shanghai Canc Inst, State Key Lab Oncogenes & Related Genes, Canc Epigenet & Gene Therapy Program, Shanghai 200030, Peoples R China

[4] Fudan Univ, Obstet & Gynecol Hosp, Canc Epigenet Lab, Shanghai 200433, Peoples R China

[5] Southwest Univ, Inst Sericulture & Syst Biol, Coll Biotechnol, Key Sericultural Lab,Agr Minist, Chongqing, Peoples R China

[6] Chinese Acad Agr Sci, Sericultural Res Inst, Zhenjiang, Peoples R China

[7] Univ Copenhagen, Dept Biol, Copenhagen, Denmark

[8] Chinese Acad Sci, Shanghai Inst Biol Sci, Shanghai Inst Plant Physiol & Ecol, Shanghai, Peoples R China

[9] UCL, UCL Canc Inst, London, England

来源：

NATURE BIOTECHNOLOGY | 2010年 / 28卷 / 05期

基金：

中国博士后科学基金; 中国国家自然科学基金; 美国国家科学基金会;

关键词：

DNA METHYLATION; CPG METHYLATION; BOMBYX-MORI; GENOME; EXPRESSION; ARABIDOPSIS; GENES; TRANSCRIPTION; EVOLUTION; ALIGNMENT;

D O I：

10.1038/nbt.1626

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Epigenetic regulation in insects may have effects on diverse biological processes. Here we survey the methylome of a model insect, the silkworm Bombyx mori, at single-base resolution using Illumina high-throughput bisulfite sequencing (MethylC-Seq). We conservatively estimate that 0.11% of genomic cytosines are methylcytosines, all of which probably occur in CG dinucleotides. CG methylation is substantially enriched in gene bodies and is positively correlated with gene expression levels, suggesting it has a positive role in gene transcription. We find that transposable elements, promoters and ribosomal DNAs are hypomethylated, but in contrast, genomic loci matching small RNAs in gene bodies are densely methylated. This work contributes to our understanding of epigenetics in insects, and in contrast to previous studies of the highly methylated genomes of Arabidopsis(1) and human(2), demonstrates a strategy for sequencing the epigenomes of organisms such as insects that have low levels of methylation.

引用

页码：516 / U181

页数：7

共 30 条

[1] Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning [J].