Expression data from jejunum IEC deleted for both HDAC1 and HDAC2

Both HDAC1 and HDAC2 are epigenetic erasers that drive specific and redundant gene expression patterns, in part by removing acetyl groups on histones. Deletion of these Hdac in intestinal epithelial cell (IEC) in vivo alters intestinal homeostasis, dependent on the Hdac deleted and the level of expression of both. To determine the intrinsic specific IEC function of HDAC1 and HDAC2, we have performed transcriptomic and quantitative proteomic approaches on IEC-deficient for Hdac1 and Hdac2. We have defined changes in both mRNA and protein expression patterns affecting IEC differentiation. We have identified IEC Hdac1- and Hdac2-dependent common as well as specific pathways and biological processes. These findings uncover unrecognized similarities and differences between normal IEC and HDAC1/2 deleted jejunum IEC. Total RNAs from wild-type and HDAC1/2-deleted IEC were purified with the RNeasy mini kit (Qiagen), and quantified with a NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific).HDAC1与HDAC2均为表观遗传擦除因子（epigenetic erasers），可通过去除组蛋白上的乙酰基团，在一定程度上调控兼具特异性与冗余性的基因表达模式。在活体肠上皮细胞（intestinal epithelial cell, IEC）中敲除这两种Hdac会改变肠道稳态，其影响程度取决于被敲除的Hdac类型以及二者的表达水平。为明确HDAC1与HDAC2在IEC中固有的特异性功能，我们针对Hdac1和Hdac2双敲除的IEC开展了转录组学与定量蛋白质组学分析。我们已明确影响IEC分化的mRNA与蛋白质表达谱变化，并鉴定出IEC中依赖于Hdac1与Hdac2的共有及特异性通路与生物学过程。本研究的发现揭示了正常IEC与HDAC1/2缺失的空肠IEC之间此前未被认知的异同之处。我们使用RNeasy微型试剂盒（RNeasy mini kit, Qiagen）纯化野生型与HDAC1/2双敲除IEC的总RNA，并通过NanoDrop ND-1000分光光度计（NanoDrop ND-1000 spectrophotometer, Thermo Fisher Scientific）进行定量。