Comparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testis

Handle URI:
http://hdl.handle.net/10754/552426
Title:
Comparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testis
Authors:
Cui, Peng; Liu, Wanfe; Zhao, Yuhui; Lin, Qiang; Zhang, Daoyong; Ding, Feng ( 0000-0001-8237-4062 ) ; Xin, Chengqi; Zhang, Zhang; Song, Shuhui; Sun, Fanglin; Yu, Jun; Hu, Songnian
Abstract:
The global features of H3K4 and H3K27 trimethylations (H3K4me3 and H3K27me3) have been well studied in recent years, but most of these studies were performed in mammalian cell lines. In this work, we generated the genome-wide maps of H3K4me3 and H3K27me3 of mouse cerebrum and testis using ChIP-seq and their high-coverage transcriptomes using ribominus RNA-seq with SOLiD technology. We examined the global patterns of H3K4me3 and H3K27me3 in both tissues and found that modifications are closely-associated with tissue-specific expression, function and development. Moreover, we revealed that H3K4me3 and H3K27me3 rarely occur in silent genes, which contradicts the findings in previous studies. Finally, we observed that bivalent domains, with both H3K4me3 and H3K27me3, existed ubiquitously in both tissues and demonstrated an invariable preference for the regulation of developmentally-related genes. However, the bivalent domains tend towards a “winner-takes-all” approach to regulate the expression of associated genes. We also verified the above results in mouse ES cells. As expected, the results in ES cells are consistent with those in cerebrum and testis. In conclusion, we present two very important findings. One is that H3K4me3 and H3K27me3 rarely occur in silent genes. The other is that bivalent domains may adopt a “winner-takes-all” principle to regulate gene expression.
KAUST Department:
Computational Bioscience Research Center (CBRC)
Citation:
Comparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testis 2012, 10 (2):82 Genomics, Proteomics & Bioinformatics
Journal:
Genomics, Proteomics & Bioinformatics
Issue Date:
8-Jun-2012
DOI:
10.1016/j.gpb.2012.05.007
Type:
Article
ISSN:
16720229
Additional Links:
http://linkinghub.elsevier.com/retrieve/pii/S1672022912000101
Appears in Collections:
Articles; Computational Bioscience Research Center (CBRC)

Full metadata record

DC FieldValue Language
dc.contributor.authorCui, Pengen
dc.contributor.authorLiu, Wanfeen
dc.contributor.authorZhao, Yuhuien
dc.contributor.authorLin, Qiangen
dc.contributor.authorZhang, Daoyongen
dc.contributor.authorDing, Fengen
dc.contributor.authorXin, Chengqien
dc.contributor.authorZhang, Zhangen
dc.contributor.authorSong, Shuhuien
dc.contributor.authorSun, Fanglinen
dc.contributor.authorYu, Junen
dc.contributor.authorHu, Songnianen
dc.date.accessioned2015-05-07T13:43:05Zen
dc.date.available2015-05-07T13:43:05Zen
dc.date.issued2012-06-08en
dc.identifier.citationComparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testis 2012, 10 (2):82 Genomics, Proteomics & Bioinformaticsen
dc.identifier.issn16720229en
dc.identifier.doi10.1016/j.gpb.2012.05.007en
dc.identifier.urihttp://hdl.handle.net/10754/552426en
dc.description.abstractThe global features of H3K4 and H3K27 trimethylations (H3K4me3 and H3K27me3) have been well studied in recent years, but most of these studies were performed in mammalian cell lines. In this work, we generated the genome-wide maps of H3K4me3 and H3K27me3 of mouse cerebrum and testis using ChIP-seq and their high-coverage transcriptomes using ribominus RNA-seq with SOLiD technology. We examined the global patterns of H3K4me3 and H3K27me3 in both tissues and found that modifications are closely-associated with tissue-specific expression, function and development. Moreover, we revealed that H3K4me3 and H3K27me3 rarely occur in silent genes, which contradicts the findings in previous studies. Finally, we observed that bivalent domains, with both H3K4me3 and H3K27me3, existed ubiquitously in both tissues and demonstrated an invariable preference for the regulation of developmentally-related genes. However, the bivalent domains tend towards a “winner-takes-all” approach to regulate the expression of associated genes. We also verified the above results in mouse ES cells. As expected, the results in ES cells are consistent with those in cerebrum and testis. In conclusion, we present two very important findings. One is that H3K4me3 and H3K27me3 rarely occur in silent genes. The other is that bivalent domains may adopt a “winner-takes-all” principle to regulate gene expression.en
dc.relation.urlhttp://linkinghub.elsevier.com/retrieve/pii/S1672022912000101en
dc.rightsArchived with thanks to Genomics, Proteomics & Bioinformatics. http://creativecommons.org/licenses/by-nc-sa/3.0/en
dc.subjectH3K4me3en
dc.subjectH3K27me3en
dc.subjectMouseen
dc.titleComparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testisen
dc.typeArticleen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.identifier.journalGenomics, Proteomics & Bioinformaticsen
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionCAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, Chinaen
dc.contributor.institutionInstitute of Epigenetics and Cancer Research, School of Medicine, Tsinghua University, Beijing 100080, Chinaen
dc.contributor.institutionGraduate University of Chinese Academy of Sciences, Beijing 100049, Chinaen
kaust.authorCui, Pengen
kaust.authorDing, Fengen
kaust.authorZhang, Zhangen
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