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Science 2 September 2005:
Vol. 309. no. 5740, pp. 1567 - 1569
DOI: 10.1126/science.1114112
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Reports

Elucidation of the Small RNA Component of the Transcriptome

Cheng Lu,1 Shivakundan Singh Tej,1 Shujun Luo,4 Christian D. Haudenschild,4 Blake C. Meyers,1,2* Pamela J. Green1,2,3*

Small RNAs play important regulatory roles in most eukaryotes, but only a small proportion of these molecules have been identified. We sequenced more than two million small RNAs from seedlings and the inflorescence of the model plant Arabidopsis thaliana. Known and new microRNAs (miRNAs) were among the most abundant of the nonredundant set of more than 75,000 sequences, whereas more than half represented lower abundance small interfering RNAs (siRNAs) that match repetitive sequences, intergenic regions, and genes. Individual or clusters of highly regulated small RNAs were readily observed. Targets of antisense RNA or miRNA did not appear to be preferentially associated with siRNAs. Many genomic regions previously considered featureless were found to be sites of numerous small RNAs.

1 Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA.
2 Department of Plant and Soil Sciences, University of Delaware, Newark, DE 19711, USA.
3 College of Marine Studies, University of Delaware, Newark, DE 19711, USA.
4 Solexa, Inc., 25861 Industrial Boulevard, Hayward, CA 94545, USA.

* To whom correspondence should be addressed. E-mail: meyers{at}dbi.udel.edu (B.C.M.); green{at}dbi.udel.edu (P.J.G.)

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