Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials
Abstract Nuclear transfer embryonic stem cells (ntESCs) hold enormous promise for individual-specific regenerative medicine. However, the chromatin states of ntESCs remain poorly characterized. In this study, we employed ATAC-seq and Hi-C techniques to explore the chromatin accessibility and three-d...
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2021
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oai:doaj.org-article:8a636afc1a2b4f8fb72815c6b5276ed82021-11-21T12:03:27ZDefective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials10.1038/s41419-021-04384-22041-4889https://doaj.org/article/8a636afc1a2b4f8fb72815c6b5276ed82021-11-01T00:00:00Zhttps://doi.org/10.1038/s41419-021-04384-2https://doaj.org/toc/2041-4889Abstract Nuclear transfer embryonic stem cells (ntESCs) hold enormous promise for individual-specific regenerative medicine. However, the chromatin states of ntESCs remain poorly characterized. In this study, we employed ATAC-seq and Hi-C techniques to explore the chromatin accessibility and three-dimensional (3D) genome organization of ntESCs. The results show that the chromatin accessibility and genome structures of somatic cells are re-arranged to ESC-like states overall in ntESCs, including compartments, topologically associating domains (TADs) and chromatin loops. However, compared to fertilized ESCs (fESCs), ntESCs show some abnormal openness and structures that have not been reprogrammed completely, which impair the differentiation potential of ntESCs. The histone modification H3K9me3 may be involved in abnormal structures in ntESCs, including incorrect compartment switches and incomplete TAD rebuilding. Moreover, ntESCs and iPSCs show high similarity in 3D genome structures, while a few differences are detected due to different somatic cell origins and reprogramming mechanisms. Through systematic analyses, our study provides a global view of chromatin accessibility and 3D genome organization in ntESCs, which can further facilitate the understanding of the similarities and differences between ntESCs and fESCs.Dan-Ya WuXinxin LiQiao-Ran SunCheng-Li DouTian XuHainan HeHan LuoHaitao FuGuo-Wei BuBingbing LuoXia ZhangBin-Guang MaCheng PengYi-Liang MiaoNature Publishing GrouparticleCytologyQH573-671ENCell Death and Disease, Vol 12, Iss 12, Pp 1-14 (2021) |
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Cytology QH573-671 Dan-Ya Wu Xinxin Li Qiao-Ran Sun Cheng-Li Dou Tian Xu Hainan He Han Luo Haitao Fu Guo-Wei Bu Bingbing Luo Xia Zhang Bin-Guang Ma Cheng Peng Yi-Liang Miao Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials |
| description |
Abstract Nuclear transfer embryonic stem cells (ntESCs) hold enormous promise for individual-specific regenerative medicine. However, the chromatin states of ntESCs remain poorly characterized. In this study, we employed ATAC-seq and Hi-C techniques to explore the chromatin accessibility and three-dimensional (3D) genome organization of ntESCs. The results show that the chromatin accessibility and genome structures of somatic cells are re-arranged to ESC-like states overall in ntESCs, including compartments, topologically associating domains (TADs) and chromatin loops. However, compared to fertilized ESCs (fESCs), ntESCs show some abnormal openness and structures that have not been reprogrammed completely, which impair the differentiation potential of ntESCs. The histone modification H3K9me3 may be involved in abnormal structures in ntESCs, including incorrect compartment switches and incomplete TAD rebuilding. Moreover, ntESCs and iPSCs show high similarity in 3D genome structures, while a few differences are detected due to different somatic cell origins and reprogramming mechanisms. Through systematic analyses, our study provides a global view of chromatin accessibility and 3D genome organization in ntESCs, which can further facilitate the understanding of the similarities and differences between ntESCs and fESCs. |
| format |
article |
| author |
Dan-Ya Wu Xinxin Li Qiao-Ran Sun Cheng-Li Dou Tian Xu Hainan He Han Luo Haitao Fu Guo-Wei Bu Bingbing Luo Xia Zhang Bin-Guang Ma Cheng Peng Yi-Liang Miao |
| author_facet |
Dan-Ya Wu Xinxin Li Qiao-Ran Sun Cheng-Li Dou Tian Xu Hainan He Han Luo Haitao Fu Guo-Wei Bu Bingbing Luo Xia Zhang Bin-Guang Ma Cheng Peng Yi-Liang Miao |
| author_sort |
Dan-Ya Wu |
| title |
Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials |
| title_short |
Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials |
| title_full |
Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials |
| title_fullStr |
Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials |
| title_full_unstemmed |
Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials |
| title_sort |
defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials |
| publisher |
Nature Publishing Group |
| publishDate |
2021 |
| url |
https://doaj.org/article/8a636afc1a2b4f8fb72815c6b5276ed8 |
| work_keys_str_mv |
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