The epigenomic landscape of transposable elements across normal human development and anatomy
| Autor: | Mayank N. K. Choudhary, Vasavi Sundaram, Erica C. Pehrsson, Ting Wang |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
Epigenomics
0301 basic medicine Aging Bioinformatics Science General Physics and Astronomy Alu element Biology Article General Biochemistry Genetics and Molecular Biology Epigenesis Genetic Evolution Molecular Epigenome Mice 03 medical and health sciences 0302 clinical medicine Alu Elements Animals Humans Epigenetics lcsh:Science Conserved Sequence Epigenesis Regulation of gene expression Multidisciplinary food and beverages Molecular Sequence Annotation General Chemistry Gene regulation 030104 developmental biology Organ Specificity Evolutionary biology DNA methylation DNA Transposable Elements lcsh:Q Human genome Growth and Development Epigenetics analysis 030217 neurology & neurosurgery |
| Zdroj: | Nature Communications, Vol 10, Iss 1, Pp 1-16 (2019) Nature Communications |
| ISSN: | 2041-1723 |
| Popis: | Transposable elements (TEs) have deposited functional regulatory elements throughout the human genome. Although most are silenced, certain TEs have been co-opted by the host. However, a comprehensive, multidimensional picture of the contribution of TEs to normal human gene regulation is still lacking. Here, we quantify the epigenomic status of TEs across human anatomy and development using data from the Roadmap Epigenomics Project. We find that TEs encompass a quarter of the human regulatory epigenome, and 47% of elements can be in an active regulatory state. We demonstrate that SINEs are enriched relative to other classes for active and transcribed marks, that TEs encompass a higher proportion of enhancer states in the hematopoietic lineage, and that DNA methylation of Alu elements decreases with age, corresponding with a loss of CpG islands. Finally, we identify TEs that may perform an evolutionarily conserved regulatory function, providing a systematic profile of TE activity in normal human tissue. Although most are silenced, certain transposable elements (TEs) have been co-opted by the host. Here, the authors quantify the epigenomic status of TEs using data from the Roadmap Epigenomics Project, provide a systematic profile of TE activity across normal human tissues and development, finding that TEs encompass a quarter of the human regulatory epigenome, with 47% of TEs in regulatory states. |
| Databáze: | OpenAIRE |
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