Int. J. Mol. Sci. 2009, 10(8), 3658-3670; doi:10.3390/ijms10083658

Co-Expression of Neighboring Genes in the Zebrafish (Danio rerio) Genome

1email, 2email, 2email and 3,* email
Received: 14 July 2009; in revised form: 11 August 2009 / Accepted: 20 August 2009 / Published: 21 August 2009
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Abstract: Neighboring genes in the eukaryotic genome have a tendency to express concurrently, and the proximity of two adjacent genes is often considered a possible explanation for their co-expression behavior. However, the actual contribution of the physical distance between two genes to their co-expression behavior has yet to be defined. To further investigate this issue, we studied the co-expression of neighboring genes in zebrafish, which has a compact genome and has experienced a whole genome duplication event. Our analysis shows that the proportion of highly co-expressed neighboring pairs (Pearson’s correlation coefficient R>0.7) is low (0.24% ~ 0.67%); however, it is still significantly higher than that of random pairs. In particular, the statistical result implies that the co-expression tendency of neighboring pairs is negatively correlated with their physical distance. Our findings therefore suggest that physical distance may play an important role in the co-expression of neighboring genes. Possible mechanisms related to the neighboring genes’ co-expression are also discussed.
Keywords: gene expression; co-expression; neighboring genes; promoter; zebrafish
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MDPI and ACS Style

Tsai, H.-K.; Huang, P.-Y.; Kao, C.-Y.; Wang, D. Co-Expression of Neighboring Genes in the Zebrafish (Danio rerio) Genome. Int. J. Mol. Sci. 2009, 10, 3658-3670.

AMA Style

Tsai H-K, Huang P-Y, Kao C-Y, Wang D. Co-Expression of Neighboring Genes in the Zebrafish (Danio rerio) Genome. International Journal of Molecular Sciences. 2009; 10(8):3658-3670.

Chicago/Turabian Style

Tsai, Huai-Kuang; Huang, Pei-Ying; Kao, Cheng-Yan; Wang, Daryi. 2009. "Co-Expression of Neighboring Genes in the Zebrafish (Danio rerio) Genome." Int. J. Mol. Sci. 10, no. 8: 3658-3670.

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