Human embryonic stem cell, rhesus embryonic stem cell and mouse transchromosomic (hsa11) embryonic stem cell (with and without ectopic ZNF91 expression) RNA-seq

We compared the expression in embryonic stem cells of KRAB ZNF proteins and retrotransposon elements in the human genome under several conditions. Native human stem cells. Mouse stem cells containing a transchromosomic copy of human chromosome 11, with and without the introduction of plasmids containing KRAB Zinc Finger sequences. We show that certain KZNFs are responsible for the repression of certain retrotransposons in embryonic stem cells, preventing their spread across the genome. Overall design: RNA-seq of hESCs, rhESCs and mouse TC11 ESCs with ZNF91 plasmids (2 replicates), with empty vector plasmids (2 replicates), or no plasmids.

本研究比较了多种条件下人类基因组中KRAB锌指蛋白（KRAB ZNF）与逆转录转座子元件（retrotransposon elements）在胚胎干细胞中的表达情况。实验所用样本包括：原生人类胚胎干细胞；以及携带转染色体人类11号染色体拷贝的小鼠干细胞，分别设置转染含KRAB锌指序列的质粒与不转染质粒两组。本研究证实，部分KRAB锌指蛋白（KZNF）可介导胚胎干细胞中特定逆转录转座子的转录抑制，阻止其在基因组内扩散。总体实验设计：对人类胚胎干细胞（hESCs）、转染ZNF91质粒的人类胚胎干细胞（rhESCs）以及小鼠TC11胚胎干细胞进行RNA测序（RNA-seq），分组包括转染ZNF91质粒组（2次生物学重复）、转染空载体质粒组（2次生物学重复）以及未转染质粒组。