Transcriptomic Analysis of Myocardial Ischemia Using the Blood of Rat.
Transcriptomic Analysis of Myocardial Ischemia Using the Blood of Rat.
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使用大鼠血液进行心肌缺血的转录组分析
DOI：
10.1371/journal.pone.0141915
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发表时间：
2015
期刊：
影响因子：
3.7
通讯作者：
Liu J
中科院分区：
文献类型：
--
作者：
Hou J;Fu J;Li D;Han X;Li L;Song W;Yao M;Liu J
心肌缺血是心脏供血减少和心肌能量代谢异常的一种病理状态。这种病好发于中老年人。一些研究表明，大鼠是用于研究心肌缺血的合适动物模型。为了深入了解心肌缺血的发病机制，本研究对3只正常大鼠和相同数量的心肌缺血大鼠的转录组进行了测序。我们使用Illumina HiSeq 2000对6只大鼠的基因组进行测序，包括3例（心肌缺血）和3例对照。然后，我们计算基因表达值，并根据每百万个转录组中的每个转录酶的读数（RPKM）鉴定差异表达的基因。同时，我们进行了GO富集分析和预测新的转录本。在我们的研究中，我们发现707个基因在心肌缺血大鼠中表达上调，21个基因表达下调，与对照组相比至少有2倍。通过阅读的分布和参考基因的注释，我们在病例和对照中分别发现了1，703和1，552个新的转录本。与此同时，我们对对照组中的9,587个基因和病例组中的10,301个基因的结构进行了优化。根据GO term和差异表达基因的通路分析结果，我们发现免疫反应、刺激反应、应激反应和某些疾病可能与心肌缺血有关。由于许多疾病，尤其是免疫性疾病，都与心肌缺血有关，因此心肌缺血可能引起的并发症应引起重视。
Myocardial ischemia is a pathological state of heart with reduced blood flow to heart and abnormal myocardial energy metabolism. This disease occurs commonly in middle aged and elderly people. Several studies have indicated that the rat was an appropriate animal model used to study myocardial ischemia. In this study, in order to gain insights into the pathogenesis of myocardial ischemia, we sequenced the transcriptomes of three normal rats as control and the same number of myocardial ischemia rats. We sequenced the genomes of 6 rats, including 3 cases (myocardial ischemia) and 3 controls using Illumina HiSeq 2000. Then we calculated the gene expression values and identified differentially expressed genes based on reads per kilobase transcriptome per million (RPKM). Meanwhile we performed a GO enrichment analysis and predicted novel transcripts. In our study, we found that 707 genes were up-regulated and 21 genes were down-regulated in myocardial ischemia rats by at least 2-fold compared with controls. By the distribution of reads and the annotation of reference genes, we found 1,703 and 1,552 novel transcripts in cases and controls, respectively. At the same time, we refined the structure of 9,587 genes in controls and 10,301 in cases. According to the results of GO term and pathway analysis of differentially expressed genes, we found that the immune response, stimulus response, response to stress and some diseases may be associated with myocardial ischemia. Since many diseases, especially immune diseases, are associated with myocardial ischemia, we should pay more attention to the complications which might result from myocardial ischemia.