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A microarray data analysis method to evaluate the impact of contaminants on wild animals

机译:一种微阵列数据分析方法,用于评估污染物对野生动物的影响

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Here we propose a novel microarray data analysis method applicable to evaluation of the chemical effects on wild animals. First, we analyzed correlations between log-transformed hepatic 2,3,7,8-tetrachlorodibenzo-p-dioxin toxic equivalent (TEQ) levels and probe signals detected in wild cormorant liver to screen contaminant-responsive genes. Second, principal component analysis (PCA) was conducted using the screened probes. Third, these probes were divided into two groups based on our PCA result. Finally, we calculated Euclidian distance of signals, which is equivalent to variance of gene expressions, in each probe set, and analyzed the relationship between log-transformed hepatic TEQ levels and Euclidian distances. A probe set whereby the calculated Euclidian distance was positively correlated with TEQ levels, could indicate genes that were directly affected by dioxins or other persistent organic pollutants (POPs), hence they can be used as biomarkers. By contrast, there were a number of probes whereby the Euclidian distance was negatively correlated with TEQ levels. In the latter probe group, the smaller Euclidian distances in highly contaminated individuals could point to changes in physiological activities of wild cormorants. Therefore, our microarray data analysis method will provide new insights into POPs-responsive genes in field-collected samples for toxicogenomics studies.
机译:在这里,我们提出了一种新颖的微阵列数据分析方法,可用于评估对野生动物的化学作用。首先,我们分析了对数转化的肝2,3,7,8-四氯二苯并-p-二恶英毒性当量(TEQ)水平与在野生cor肝中检测到的探针信号之间的相关性,以筛选污染物响应基因。其次,使用筛选的探针进行主成分分析(PCA)。第三,根据我们的PCA结果,将这些探针分为两组。最后,我们计算了每个探针组中信号的欧几里德距离,相当于基因表达的方差,并分析了对数转换后的肝TEQ水平与欧几里德距离之间的关系。一种探针集,其计算出的欧氏距离与TEQ水平呈正相关,可以表明直接受到二恶英或其他持久性有机污染物(POPs)影响的基因,因此可以用作生物标记。相比之下,有许多探针使欧几里得距离与TEQ水平负相关。在后一个探针组中,高度污染个体的欧几里得距离较小可能表明野生cor的生理活动发生了变化。因此,我们的微阵列数据分析方法将为野外采集的样本中的POPs响应基因提供新的见解,以进行毒理基因组学研究。

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