TCF-1 promotes chromatin interactions across topologically associating domains in T cell progenitors.
TCF-1 promotes chromatin interactions across topologically associating domains in T cell progenitors.
复制标题
TCF-1促进T细胞祖细胞中拓扑相关结构域之间的染色质相互作用。
DOI：
10.1038/s41590-022-01232-z
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发表时间：
2022-07
影响因子：
30.5
通讯作者：
Vahedi, Golnaz
中科院分区：
文献类型：
--
作者：
Wang, Wenliang;Chandra, Aditi;Goldman, Naomi;Yoon, Sora;Ferrari, Emily K.;Nguyen, Son. C.;Joyce, Eric F.;Vahedi, Golnaz
高迁移率族（HMG）转录因子TCF-1是早期T细胞发育所必需的。尽管体外生化分析表明HMG蛋白可以作为高级核组织组装中的结构元件，但TCF-1在T细胞发育过程中对三维（3D）基因组结构控制的贡献仍然未知。在这里，我们研究了TCF-1在3D基因组重构中的作用。使用功能获得和丧失实验，我们发现TCF-1和结构蛋白CTCF的共占据改变了T细胞祖细胞中拓扑相关结构域的结构，导致先前绝缘的调控元件和靶基因在T细胞发育的后期阶段之间的相互作用。TCF-1依赖性增益在远程相互作用中与活性增强子标记H3 K27 ac的沉积和在活性增强子处的粘附素加载因子NIPBL的募集有关。这些数据表明，TCF-1在T细胞发育过程中控制全球基因组组织中发挥作用。
The high mobility group (HMG) transcription factor TCF-1 is essential for early T cell development. Although in vitro biochemical assays suggest that HMG proteins can serve as architectural elements in the assembly of higher-order nuclear organization, the contribution of TCF-1 on the control of three-dimensional (3D) genome structures during T cell development remains unknown. Here, we investigated the role of TCF-1 in 3D genome reconfiguration. Using gain and loss of function experiments, we discovered that the co-occupancy of TCF-1 and the architectural protein CTCF altered the structure of topologically associating domains in T cell progenitors, leading to interactions between previously insulated regulatory elements and target genes at late stages of T cell development. The TCF-1 dependent gain in long-range interactions was linked to deposition of active enhancer mark H3K27ac and recruitment of the cohesin-loading factor NIPBL at active enhancers. These data indicate that TCF-1 has a role in controlling the global genome organization during T cell development.
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DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
64.5
作者：
Dowen JM;Fan ZP;Hnisz D;Ren G;Abraham BJ;Zhang LN;Weintraub AS;Schujiers J;Lee TI;Zhao K;Young RA
通讯作者：
Young RA
影响因子：
64.8
作者：
Dixon JR;Jung I;Selvaraj S;Shen Y;Antosiewicz-Bourget JE;Lee AY;Ye Z;Kim A;Rajagopal N;Xie W;Diao Y;Liang J;Zhao H;Lobanenkov VV;Ecker JR;Thomson JA;Ren B
通讯作者：
Ren B
影响因子：
9.3
作者：
Durand NC;Shamim MS;Machol I;Rao SS;Huntley MH;Lander ES;Aiden EL
通讯作者：
Aiden EL
影响因子：
32.4
作者：
Fasolino, Maria;Goldman, Naomi;Vahedi, Golnaz
通讯作者：
Vahedi, Golnaz