Long non-coding RNAs in C. elegans
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Bartel_Long non-coding.pdf
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3.77 MB
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Adobe PDF
Checksum (MD5)
ec686f099fdadc2a97c05c3061b8f26b
Author(s)
Nam, Jin-Wu
Bartel, David
Date Issued
June 2012
Journal
Genome Research
Publisher
Cold Spring Harbor Laboratory Press
Citation
Nam, J.-W., and D. Bartel. “Long Non-coding RNAs in C. Elegans.” Genome Research (2012).
Version
Author's final manuscript
Abstract
Thousands of long non-coding RNAs (lncRNAs) have been found in vertebrate animals, a few of which have known biological roles. To better understand the genomics and features of lncRNAs in invertebrates, we used available RNA-seq, poly(A)-site, and ribosome-mapping data to identify lncRNAs of C. elegans. We found 170 long intervening ncRNAs (lincRNAs), which had single- or multi-exonic structures that did not overlap protein-coding transcripts, and about sixty antisense lncRNAs (ancRNAs), which were complementary to protein-coding transcripts. Compared to protein-coding genes, the lncRNA genes tended to be expressed in stage-dependent manner. Approximately 25% of the newly identified lincRNAs showed little signal for sequence conservation and mapped antisense to clusters of endogenous siRNAs, as would be expected if they serve as templates and targets for these siRNAs. The other 75% tended to be more conserved and included lincRNAs with intriguing expression and sequence features associating them with processes such as dauer formation, male identity, sperm formation, and interaction with sperm-specific mRNAs. Our study provides a glimpse into the lncRNA content of a non-vertebrate animal and a resource for future studies of lncRNA function.
MIT Department
Massachusetts Institute of Technology. Department of Biology
Terms of Use
Creative Commons Attribution-Noncommercial-Share Alike 3.0
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DOI of Published Version
https://doi.org/10.1101/gr.140475.112
