RNA sequencing of the exercise transcriptome in equine athletes.
RNA sequencing of the exercise transcriptome in equine athletes.
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DOI：
10.1371/journal.pone.0083504
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Cappelli K
中科院分区：
文献类型：
--
作者：
Capomaccio S;Vitulo N;Verini-Supplizi A;Barcaccia G;Albiero A;D'Angelo M;Campagna D;Valle G;Felicetti M;Silvestrelli M;Cappelli K
马是研究运动引起的应激的基因组反应的最佳模型生物，因为它具有运动表现的天然能力以及其遗传和环境背景的相对同质性。在这里，我们通过在以马运动员耐力赛期间运动引起的压力为中心的实验框架中使用 SOLiD 技术来应用 RNA 测序分析。我们通过比较休息时和比赛后动物之间的基因表达水平来监测转录情况。总体而言，我们观察到从编码区域到非编码区域的转变，表明应激反应涉及未注释区域的差异表达。值得注意的是，我们观察到与重复相对应的读数在赛后显着增加，尤其是基因间和内含子 L1 和 L2 转座元件。我们还观察到，与基因内含子和调控区（上游和下游 1 kb）的有义链相比，反义链的表达增加，表明反义转录可能是马在应激条件下转座子调控的主要机制之一。我们鉴定了大量对应于推测与新转录元件相关的基因间和内含子区域的转录本。基因表达和通路分析使我们能够识别可能与运动引起的压力有关的几种生物过程和分子功能。本体聚类反映了已知的应激激活机制（例如趋化因子型细胞因子、Toll 样受体和激酶），以及“核酸结合”和“信号转导活性”功能。全球蛋白质合成率也出现了普遍和短暂的下降，这是在全球剧烈压力之后预计到的。总之，我们的网络分析指出特定基因簇参与马运动引起的应激，包括那些涉及炎症、细胞信号传导和免疫相互作用的基因簇。
The horse is an optimal model organism for studying the genomic response to exercise-induced stress, due to its natural aptitude for athletic performance and the relative homogeneity of its genetic and environmental backgrounds. Here, we applied RNA-sequencing analysis through the use of SOLiD technology in an experimental framework centered on exercise-induced stress during endurance races in equine athletes. We monitored the transcriptional landscape by comparing gene expression levels between animals at rest and after competition. Overall, we observed a shift from coding to non-coding regions, suggesting that the stress response involves the differential expression of not annotated regions. Notably, we observed significant post-race increases of reads that correspond to repeats, especially the intergenic and intronic L1 and L2 transposable elements. We also observed increased expression of the antisense strands compared to the sense strands in intronic and regulatory regions (1 kb up- and downstream) of the genes, suggesting that antisense transcription could be one of the main mechanisms for transposon regulation in the horse under stress conditions. We identified a large number of transcripts corresponding to intergenic and intronic regions putatively associated with new transcriptional elements. Gene expression and pathway analysis allowed us to identify several biological processes and molecular functions that may be involved with exercise-induced stress. Ontology clustering reflected mechanisms that are already known to be stress activated (e.g., chemokine-type cytokines, Toll-like receptors, and kinases), as well as “nucleic acid binding” and “signal transduction activity” functions. There was also a general and transient decrease in the global rates of protein synthesis, which would be expected after strenuous global stress. In sum, our network analysis points toward the involvement of specific gene clusters in equine exercise-induced stress, including those involved in inflammation, cell signaling, and immune interactions.
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影响因子：
64.5
作者：
Cooper TA;Wan L;Dreyfuss G
通讯作者：
Dreyfuss G
影响因子：
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作者：
Beyeen, Amennai D.;Adzemovic, Milena Z.;Olsson, Tomas
通讯作者：
Olsson, Tomas
影响因子：
--
作者：
Cappelli, Katia;Felicetti, Michela;Verini-Supplizi, Andrea
通讯作者：
Verini-Supplizi, Andrea
影响因子：
5.8
作者：
Campagna, Davide;Albiero, Alessandro;Valle, Giorgio
通讯作者：
Valle, Giorgio
影响因子：
64.8
作者：
Guttman, Mitchell;Amit, Ido;Garber, Manuel;French, Courtney;Lin, Michael F.;Feldser, David;Huarte, Maite;Zuk, Or;Carey, Bryce W.;Cassady, John P.;Cabili, Moran N.;Jaenisch, Rudolf;Mikkelsen, Tarjei S.;Jacks, Tyler;Hacohen, Nir;Bernstein, Bradley E.;Kellis, Manolis;Regev, Aviv;Rinn, John L.;Lander, Eric S.
通讯作者：
Lander, Eric S.