Update The network constructed from target predictions in miRNA-encoding mlRNAs resembles a molecular regulatory network, supporting the proposition that miRNA regulatory influence is not limited to protein-coding transcripts. Acknowledgements The authors thank Katherine E. Nelson for careful corrections. This work was supported by the National Key Basic Research and Development Program (973) under Grants 2007CB946901 and 2003CB715907, Key Program of National Natural Sciences Foundation of China under Grant 30630040 and National Natural Sciences Foundation of China under Grants 30570393 and 30600729. Supplementary material, including raw data, can be found at http://ebiomed.org/pub/mrm.htm.
Supplementary data Supplementary data associated with this article can be found, in the online version, at doi:10.1016/j.tig.2008. 04.004. References 1 Amaral, P.P. et al. (2008) The eukaryotic genome as an RNA machine. Science 319, 1787–1789 2 Willingham, A.T. et al. (2005) A strategy for probing the function of noncoding RNAs finds a repressor of NFAT. Science 309, 1570– 1573 3 Vasudevan, S. et al. (2007) Switching from repression to activation: microRNAs can up-regulate translation. Science 318, 1931–1934 4 Nilsen, T.W. (2007) Mechanisms of microRNA-mediated gene regulation in animal cells. Trends Genet. 23, 243–249 5 Mishima, Y. et al. (2006) Differential regulation of germline mRNAs in soma and germ cells by zebrafish miR-430. Curr. Biol. 16, 2135–2142 6 Allen, E. et al. (2005) microRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell 121, 207–221 7 Franco-Zorrilla, J.M. et al. (2007) Target mimicry provides a new mechanism for regulation of microRNA activity. Nat. Genet. 39, 1033–1037 8 Farh, KK-H. et al. (2005) The widespread impact of mammalian microRNAs on mRNA repression and evolution. Science 310, 1817– 1821
Trends in Genetics
Vol.24 No.7
9 Sood, P. et al. (2006) Cell-type-specific signatures of microRNAs on target mRNA expression. Proc. Natl. Acad. Sci. U. S. A. 103, 2746–2751 10 Sempere, L.F. et al. (2004) Expression profiling of mammalian microRNAs uncovers a subset of brain-expressed microRNAs with possible roles in murine and human neuronal differentiation. Genome Biol. 5, R13 11 Tsang, J. et al. (2007) MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals. Mol. Cell 26, 753–767 12 Costa, F.F. (2007) Non-coding RNAs: lost in translation? Gene 386, 1–10 13 Cai, X. and Cullen, B.R. (2007) The imprinted H19 noncoding RNA is a primary microRNA precursor. RNA 13, 313–316 14 Rodriguez, A. et al. (2004) Identification of mammalian microRNA host genes and transcription units. Genome Res. 14, 1902–1910 15 Wulczyn, F.G. et al. (2007) Post-transcriptional regulation of the let-7 microRNA during neural cell specification. FASEB J. 21, 415–426 16 Thomson, J.M. et al. (2006) Extensive post-transcriptional regulation of microRNAs and its implications for cancer. Genes Dev. 20, 2202– 2207 17 Obernosterer, G. et al. (2006) Post-transcriptional regulation of microRNA expression. RNA 12, 1161–1167 18 Gabory, A. et al. (2006) The H19 gene: regulation and function of a noncoding RNA. Cytogenet. Genome Res. 113, 188–193 19 Bartolomei, M.S. et al. (1991) Parental imprinting of the mouse H19 gene. Nature 351, 153–155 20 Barthelson, R.A. et al. (2007) Comparison of the contributions of the nuclear and cytoplasmic compartments to global gene expression in human cells. BMC Genomics 8, 340 21 Wu, L. et al. (2006) MicroRNAs direct rapid deadenylation of mRNA. Proc. Natl. Acad. Sci. U. S. A. 103, 4034–4039 22 Okazaki, Y. et al. (2002) Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature 420, 563– 573 23 Ponjavic, J. et al. (2007) Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs. Genome Res. 17, 556–565 24 Kuwabara, T. et al. (2004) A small modulatory dsRNA specifies the fate of adult neural stem cells. Cell 116, 779–793 25 Pollard, K.S. et al. (2006) An RNA gene expressed during cortical development evolved rapidly in humans. Nature 443, 167–172 0168-9525/$ – see front matter ß 2008 Elsevier Ltd. All rights reserved. doi:10.1016/j.tig.2008.04.004 Available online 29 May 2008
Erratum
Corrigendum: Adapting to environmental changes using specialized paralogs Trends in Genetics 24 (2008) 154–158
˝ , Lejla Pasˇic´ and Gabino Sanchez-Perez, Alex Mira, Ga´bor Nyiro Francisco Rodriguez-Valera The authors of this article wish it to be known that full contact details for Dr Pasˇic´ were accidentally omitted from the final version of their article. The correct contact information for Dr Pasˇic´ is as follows: University of Ljubljana, Biotechnical Faculty, Department of Biology, Vecna pot 111, 1000 Ljubljana, Slovenia, SLOVENIA (
[email protected]). The authors apologise for this oversight. 0168-9525/$ – see front matter ß 2008 Elsevier Ltd. All rights reserved. doi:10.1016/j.tig.2008.05.002
§
DOI of original article: 10.1016/j.tig.2008.01.002. Corresponding author: Mira, A. (
[email protected]).
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