Elucidation of the Small RNA Component of the Transcriptome
Abstract
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.
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We are grateful to M. Nakano and D. Lee for the web interface, J. Carrington for the rdr2 mutant, F. Souret and B.-C. Yoo for comments on the manuscript, and S. Jacobsen for helpful discussions. This work was supported primarily by NSF SGER #0439186, with additional support from the NSF Plant Genome Program (B.C.M.), DOE DE-FG02-04ER15541 (P.J.G.), and NIH P20 RR16472-04.
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Science
Volume 309 | Issue 5740
2 September 2005
2 September 2005
Copyright
American Association for the Advancement of Science.
Submission history
Received: 7 April 2005
Accepted: 28 July 2005
Published in print: 2 September 2005
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