A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patterns
Epigenetic machinery contributes to gene regulation in eukaryotic species. However, the machinery including more than 600 epigenetic regulator (ER) genes responsible for reading, writing, and erasing histone modifications and DNA modifications remains largely uncharacterized across species. We compi...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2023-12-01
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| Series: | Epigenetics |
| Subjects: | |
| Online Access: | http://dx.doi.org/10.1080/15592294.2022.2139067 |
| _version_ | 1797678843628093440 |
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| author | Jilu Wang Aiai Shi Jie Lyu |
| author_facet | Jilu Wang Aiai Shi Jie Lyu |
| author_sort | Jilu Wang |
| collection | DOAJ |
| description | Epigenetic machinery contributes to gene regulation in eukaryotic species. However, the machinery including more than 600 epigenetic regulator (ER) genes responsible for reading, writing, and erasing histone modifications and DNA modifications remains largely uncharacterized across species. We compile a comprehensive list of ERs based on an evolutionary analysis across 23 species, which is the most comprehensive ER list in various species until recently. We further perform comparative transcriptomic analyses across different tissues in humans, mice, as well as other amniote species. We observe a consistent tissue-of-origin expression specificity pattern of duplicated ER genes across species and suggest links between expression specificity and ER gene evolution as well as ER function. Additional analyses further suggest that ER duplication can generate tissue-specific ER genes with the same epigenetic substrates, which may be closely related to their regulatory specificity in tissue development. Our work can serve as a foundation to better comprehend the tissue-specific expression patterns of ER genes from an evolutionary perspective and also the functional implications of ERs in tissue-specific epigenetic regulation. |
| first_indexed | 2024-03-11T23:05:51Z |
| format | Article |
| id | doaj.art-c171af04059c41b89fcef88fefc126fe |
| institution | Directory Open Access Journal |
| issn | 1559-2294 1559-2308 |
| language | English |
| last_indexed | 2024-03-11T23:05:51Z |
| publishDate | 2023-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Epigenetics |
| spelling | doaj.art-c171af04059c41b89fcef88fefc126fe2023-09-21T13:23:12ZengTaylor & Francis GroupEpigenetics1559-22941559-23082023-12-0118110.1080/15592294.2022.21390672139067A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patternsJilu Wang0Aiai Shi1Jie Lyu2University of Chinese Academy of SciencesUniversity of Chinese Academy of SciencesUniversity of Chinese Academy of SciencesEpigenetic machinery contributes to gene regulation in eukaryotic species. However, the machinery including more than 600 epigenetic regulator (ER) genes responsible for reading, writing, and erasing histone modifications and DNA modifications remains largely uncharacterized across species. We compile a comprehensive list of ERs based on an evolutionary analysis across 23 species, which is the most comprehensive ER list in various species until recently. We further perform comparative transcriptomic analyses across different tissues in humans, mice, as well as other amniote species. We observe a consistent tissue-of-origin expression specificity pattern of duplicated ER genes across species and suggest links between expression specificity and ER gene evolution as well as ER function. Additional analyses further suggest that ER duplication can generate tissue-specific ER genes with the same epigenetic substrates, which may be closely related to their regulatory specificity in tissue development. Our work can serve as a foundation to better comprehend the tissue-specific expression patterns of ER genes from an evolutionary perspective and also the functional implications of ERs in tissue-specific epigenetic regulation.http://dx.doi.org/10.1080/15592294.2022.2139067epigenetic regulatorgene expressionamniotesepigenetic modifications |
| spellingShingle | Jilu Wang Aiai Shi Jie Lyu A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patterns Epigenetics epigenetic regulator gene expression amniotes epigenetic modifications |
| title | A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patterns |
| title_full | A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patterns |
| title_fullStr | A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patterns |
| title_full_unstemmed | A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patterns |
| title_short | A comprehensive atlas of epigenetic regulators reveals tissue-specific epigenetic regulation patterns |
| title_sort | comprehensive atlas of epigenetic regulators reveals tissue specific epigenetic regulation patterns |
| topic | epigenetic regulator gene expression amniotes epigenetic modifications |
| url | http://dx.doi.org/10.1080/15592294.2022.2139067 |
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