Conditional independence mapping of DIGE data reveals PDIA3 protein species as key nodes associated with muscle aerobic capacity.
Conditional independence mapping of DIGE data reveals PDIA3 protein species as key nodes associated with muscle aerobic capacity.
复制标题
DOI：
10.1016/j.jprot.2014.04.015
复制
发表时间：
2014-06-25
影响因子：
3.3
通讯作者：
Britton SL
中科院分区：
文献类型：
--
作者：
Burniston JG;Kenyani J;Gray D;Guadagnin E;Jarman IH;Cobley JN;Cuthbertson DJ;Chen YW;Wastling JM;Lisboa PJ;Koch LG;Britton SL
蛋白质物种的分析很重要，因为基因多态性、剪接变异和翻译后修饰可能结合在一起，产生对细胞功能有不同影响的多种蛋白质物种。二维凝胶电泳是蛋白质物种差异分析最可靠的方法之一，但生物信息学研究具有挑战性，因为单个蛋白质物种丰度变化对细胞功能的影响是未知的，也无法预测。我们对人工选择的高或低跑者（分别为HCR和LCR）的雄性和雌性大鼠进行比目鱼肌DIGE。共分离出696种蛋白，LC-MS /MS鉴定出337个位点的蛋白。40种蛋白质在HCR和LCR之间表达差异（P < 0.05, FDR < 10%），条件独立映射在这些数据中发现了不同的网络，这带来了功能注释之外的见解。蛋白二硫异构酶A3是分离的关键节点，具有有氧能力的差异，无监督的文献计量分析强调了与信号转导器和转录激活器3的进一步联系，这一点经western blotting证实。因此，条件独立映射是查询DIGE数据的一种有用技术，它能够突出显示潜在的特征。
Profiling of protein species is important because gene polymorphisms, splice variations and post-translational modifications may combine and give rise to multiple protein species that have different effects on cellular function. Two-dimensional gel electrophoresis is one of the most robust methods for differential analysis of protein species, but bioinformatic interrogation is challenging because the consequences of changes in the abundance of individual protein species on cell function are unknown and cannot be predicted. We conducted DIGE of soleus muscle from male and female rats artificially selected as either high- or low-capacity runners (HCR and LCR, respectively). In total 696 protein species were resolved and LC–MS/MS identified proteins in 337 spots. Forty protein species were differentially (P < 0.05, FDR < 10%) expressed between HCR and LCR and conditional independence mapping found distinct networks within these data, which brought insight beyond that achieved by functional annotation. Protein disulphide isomerase A3 emerged as a key node segregating with differences in aerobic capacity and unsupervised bibliometric analysis highlighted further links to signal transducer and activator of transcription 3, which were confirmed by western blotting. Thus, conditional independence mapping is a useful technique for interrogating DIGE data that is capable of highlighting latent features.
登录
查看更多内容
影响因子：
4.3
作者：
Hart, Nikolett;Sarga, Linda;Radak, Zsolt
通讯作者：
Radak, Zsolt
骨骼肌和心肌对运动的蛋白质组学反应。
影响因子：
3.4
作者：
Burniston JG;Hoffman EP
通讯作者：
Hoffman EP
影响因子：
--
作者：
Choi, Minji;Choi, Jung-Won;Yun, Jong Won
通讯作者：
Yun, Jong Won
影响因子：
3.4
作者：
Egan, Brendan;Dowling, Paul;O'Gorman, Donal J.
通讯作者：
O'Gorman, Donal J.
影响因子：
3.4
作者：
Burniston, Jatin G.
通讯作者：
Burniston, Jatin G.