rna deep sequencing reveals differential microrna expression during development of sea urchin and sea star微rna rna深度测序揭示了微分表达式在开发期间的海胆和海星.pdfVIP

RNA Deep Sequencing Reveals Differential MicroRNA Expression during Development of Sea Urchin and Sea Star 1 2 3 Sabah Kadri , Veronica F. Hinman , Panayiotis V. Benos * 1 Lane Center for Computational Biology, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America, 2 Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America, 3 Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America Abstract microRNAs (miRNAs) are small (20–23 nt), non-coding single stranded RNA molecules that act as post-transcriptional regulators of mRNA gene expression. They have been implicated in regulation of developmental processes in diverse organisms. The echinoderms, Strongylocentrotus purpuratus (sea urchin) and Patiria miniata (sea star) are excellent model organisms for studying development with well-characterized transcriptional networks. However, to date, nothing is known about the role of miRNAs during development in these organisms, except that the genes that are involved in the miRNA biogenesis pathway are expressed during their developmental stages. In this paper, we used Illumina Genome Analyzer (Illumina, Inc.) to sequence small RNA libraries in mixed stage population of embryos from one to three days after fertilization of sea urchin and sea star (total of 22,670,000 reads). Analysis of these data revealed the miRNA populations in these two species. We found that 47 and 38 known miRNAs are expressed in sea urchin and sea star, respectively, during early development (32 in common). We also found 13 potentially novel miRNAs in the sea urchin embryonic library. miRNA expression is generally conserved b