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Open Access Highly Accessed Research article

Conserved expression of natural antisense transcripts in mammals

Maurice HT Ling1, Yuguang Ban1, Hongxiu Wen2, San Ming Wang2 and Steven X Ge1*

Author Affiliations

1 Department of Mathematics and Statistics, South Dakota State University, Brookings, South Dakota SD 57007, USA

2 Department of Genetics, Cell Biology and Anatomy, University of Nebraska Medical Center, Omaha, Nebraska NE 68198, United States of America

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BMC Genomics 2013, 14:243  doi:10.1186/1471-2164-14-243

Published: 12 April 2013

Abstract

Background

Recent studies had found thousands of natural antisense transcripts originating from the same genomic loci of protein coding genes but from the opposite strand. It is unclear whether the majority of antisense transcripts are functional or merely transcriptional noise.

Results

Using the Affymetrix Exon array with a modified cDNA synthesis protocol that enables genome-wide detection of antisense transcription, we conducted large-scale expression analysis of antisense transcripts in nine corresponding tissues from human, mouse and rat. We detected thousands of antisense transcripts, some of which show tissue-specific expression that could be subjected to further study for their potential function in the corresponding tissues/organs. The expression patterns of many antisense transcripts are conserved across species, suggesting selective pressure on these transcripts. When compared to protein-coding genes, antisense transcripts show a lesser degree of expression conservation. We also found a positive correlation between the sense and antisense expression across tissues.

Conclusion

Our results suggest that natural antisense transcripts are subjected to selective pressure but to a lesser degree compared to sense transcripts in mammals.