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

作者：Nakayama Kei^*; Handoh Itsuki C; Kitamura Shin Ichi; Kim Eun Young; Iwata Hisato; Tanabe Shinsuke

来源：Science of the Total Environment, 2010, 408(23): 5824-5827.

DOI：10.1016/j.scitotenv.2010.08.065

• Toxicogenomics
• Persistent organic pollutants
• Common cormorant
• Euclidian distance
• Principal component analysis

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 cormo

• 出版日期2010-11-1