Comparative Analysis of Promoters and Enhancers in the Pituitary Glands of the Bama Xiang and Large White Pigs.
Comparative Analysis of Promoters and Enhancers in the Pituitary Glands of the Bama Xiang and Large White Pigs.
复制标题
巴马香猪和大白猪脑垂体启动子和增强子的比较分析
DOI：
10.3389/fgene.2021.697994
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发表时间：
2021
影响因子：
3.7
通讯作者：
Li W
中科院分区：
文献类型：
--
作者：
Zhou Z;Zhu Y;Zhang Z;Jiang T;Ling Z;Yang B;Li W
基因表达的表观遗传调控与人类的复杂疾病和其他物种的各种表型有关。对猪的调控因素的研究很少。本研究采用染色质免疫沉淀结合高通量测序（ChIP-Seq）技术，对具有不同进化历史和较大表型差异的成年巴马香猪和大白色猪脑垂体中组蛋白H3赖氨酸4三甲基化（H3 K4 me 3）和组蛋白H3赖氨酸27乙酰化（H3 K27 ac）进行了分析。我们共鉴定了65，044个非冗余调控区，包括23，680个H3 K4 me 3峰和61，791个H3 K27 ac峰（12，318个近端和49，473个远端），增加了猪垂体调控元件的目录。我们发现了793个H3 K4 me 3和3，602个H3 K27 ac峰，显示出两个品种之间的差异活性，与Notch信号通路，对生长激素（GH）的反应，甲状腺激素信号通路和免疫系统的基因重叠，并富含转录因子（TF）的结合基序，包括JunB，ATF 3，FRA 1和BATF。我们从H3 K27 ac ChIP-seq数据中进一步鉴定了2，025个非冗余超级增强子，其中302个在所有富集与垂体功能相关的生物过程的覆盖基因样本中共享。本研究建立了猪垂体H3 K4 me 3和H3 K27 ac区域的数据集，并揭示了巴马香猪和大白色猪之间具有差异活性的H3 K4 me 3和H3 K27 ac峰。
The epigenetic regulation of gene expression is implicated in complex diseases in humans and various phenotypes in other species. There has been little exploration of regulatory elements in the pig. Here, we performed chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq) to profile histone H3 lysine 4 trimethylation (H3K4me3) and histone H3 lysine 27 acetylation (H3K27ac) in the pituitary gland of adult Bama Xiang and Large White pigs, which have divergent evolutionary histories and large phenotypic differences. We identified a total of 65,044 non-redundant regulatory regions, including 23,680 H3K4me3 peaks and 61,791 H3K27ac peaks (12,318 proximal and 49,473 distal), augmenting the catalog of pituitary regulatory elements in pigs. We found 793 H3K4me3 and 3,602 H3K27ac peaks that show differential activity between the two breeds, overlapping with genes involved in the Notch signaling pathway, response to growth hormone (GH), thyroid hormone signaling pathway, and immune system, and enriched for binding motifs of transcription factors (TFs), including JunB, ATF3, FRA1, and BATF. We further identified 2,025 non-redundant super enhancers from H3K27ac ChIP-seq data, among which 302 were shared in all samples of cover genes enriched for biological processes related to pituitary function. This study generated a valuable dataset of H3K4me3 and H3K27ac regions in porcine pituitary glands and revealed H3K4me3 and H3K27ac peaks with differential activity between Bama Xiang and Large White pigs.
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影响因子：
64.8
作者：
Ernst, Jason;Kheradpour, Pouya;Mikkelsen, Tarjei S.;Shoresh, Noam;Ward, Lucas D.;Epstein, Charles B.;Zhang, Xiaolan;Wang, Li;Issner, Robbyn;Coyne, Michael;Ku, Manching;Durham, Timothy;Kellis, Manolis;Bernstein, Bradley E.
通讯作者：
Bernstein, Bradley E.
影响因子：
12.3
作者：
Andersson L;Archibald AL;Bottema CD;Brauning R;Burgess SC;Burt DW;Casas E;Cheng HH;Clarke L;Couldrey C;Dalrymple BP;Elsik CG;Foissac S;Giuffra E;Groenen MA;Hayes BJ;Huang LS;Khatib H;Kijas JW;Kim H;Lunney JK;McCarthy FM;McEwan JC;Moore S;Nanduri B;Notredame C;Palti Y;Plastow GS;Reecy JM;Rohrer GA;Sarropoulou E;Schmidt CJ;Silverstein J;Tellam RL;Tixier-Boichard M;Tosser-Klopp G;Tuggle CK;Vilkki J;White SN;Zhao S;Zhou H;FAANG Consortium
通讯作者：
FAANG Consortium
影响因子：
16.6
作者：
Kern C;Wang Y;Xu X;Pan Z;Halstead M;Chanthavixay G;Saelao P;Waters S;Xiang R;Chamberlain A;Korf I;Delany ME;Cheng HH;Medrano JF;Van Eenennaam AL;Tuggle CK;Ernst C;Flicek P;Quon G;Ross P;Zhou H
通讯作者：
Zhou H
影响因子：
4.7
作者：
Della Penna, K;Kinose, F;Wang, H
通讯作者：
Wang, H
影响因子：
4.8
作者：
Girard, N;Boulanger, L;Gaudreau, P
通讯作者：
Gaudreau, P