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Distinct roles of DNMT1-dependent and DNMT1-independent methylation patterns in the genome of mouse embryonic stem cells

Overview of attention for article published in Genome Biology (Online Edition), June 2015
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About this Attention Score

  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (88th percentile)

Mentioned by

blogs
1 blog
twitter
16 tweeters
facebook
2 Facebook pages

Citations

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62 Dimensions

Readers on

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107 Mendeley
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Title
Distinct roles of DNMT1-dependent and DNMT1-independent methylation patterns in the genome of mouse embryonic stem cells
Published in
Genome Biology (Online Edition), June 2015
DOI 10.1186/s13059-015-0685-2
Pubmed ID
Authors

Zhiguang Li, Hongzheng Dai, Suzanne N. Martos, Beisi Xu, Yang Gao, Teng Li, Guangjing Zhu, Dustin E. Schones, Zhibin Wang

Abstract

DNA methylation patterns are initiated by de novo DNA methyltransferases DNMT3a/3b adding methyl groups to CG dinucleotides in the hypomethylated genome of early embryos. These patterns are faithfully maintained by DNMT1 during DNA replication to ensure epigenetic inheritance across generations. However, this two-step model is based on limited data. We generated base-resolution DNA methylomes for a series of DNMT knockout embryonic stem cells, with deep coverage at highly repetitive elements. We show that DNMT1 and DNMT3a/3b activities work complementarily and simultaneously to establish symmetric CG methylation and CHH (H = A, T or C) methylation. DNMT3a/3b can add methyl groups to daughter strands after each cycle of DNA replication. We also observe an unexpected division of labor between DNMT1 and DNMT3a/3b in suppressing retrotransposon long terminal repeats and long interspersed elements, respectively. Our data suggest that mammalian cells use a specific CG density threshold to predetermine methylation levels in wild type cells and the magnitude of methylation reduction in DNMT knockout cells. Only genes with low CG density can be induced or, surprisingly, suppressed in the hypomethylated genome. Lastly, we do not find any association between gene body methylation and transcriptional activity. We show the concerted actions of DNMT enzymes in the establishment and maintenance of methylation patterns. The finding of distinct roles of DNMT1-dependent and -independent methylation patterns in genome stability and regulation of transcription provides new insights for understanding germ cell development, neuronal diversity, and transgenerational epigenetic inheritance and will help to develop next-generation DNMT inhibitors.

Twitter Demographics

The data shown below were collected from the profiles of 16 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 107 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Croatia 1 <1%
Unknown 106 99%

Demographic breakdown

Readers by professional status Count As %
Researcher 32 30%
Student > Ph. D. Student 21 20%
Student > Bachelor 14 13%
Student > Master 9 8%
Student > Doctoral Student 5 5%
Other 17 16%
Unknown 9 8%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 46 43%
Agricultural and Biological Sciences 39 36%
Computer Science 5 5%
Neuroscience 2 2%
Medicine and Dentistry 2 2%
Other 5 5%
Unknown 8 7%

Attention Score in Context

This research output has an Altmetric Attention Score of 14. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 08 June 2015.
All research outputs
#1,909,342
of 20,830,231 outputs
Outputs from Genome Biology (Online Edition)
#1,739
of 3,986 outputs
Outputs of similar age
#27,544
of 249,484 outputs
Outputs of similar age from Genome Biology (Online Edition)
#1
of 2 outputs
Altmetric has tracked 20,830,231 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 90th percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 3,986 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 27.1. This one has gotten more attention than average, scoring higher than 56% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 249,484 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 88% of its contemporaries.
We're also able to compare this research output to 2 others from the same source and published within six weeks on either side of this one. This one has scored higher than all of them