The landscape of C. elegans 3′UTRs

Marco Mangone, Arun Prasad Manoharan, Danielle Thierry-Mieg, Jean Thierry-Mieg, Ting Han, Sebastian D. Mackowiak, Emily Mis, Charles Zegar, Michelle R. Gutwein, Vishal Khivansara, Oliver Attie, Kevin Chen, Kourosh Salehi-Ashtiani, Marc Vidal, Timothy T. Harkins, Pascal Bouffard, Yutaka Suzuki, Sumio Sugano, Yuji Kohara, Nikolaus RajewskyFabio Piano, Kristin C. Gunsalus, John K. Kim

Research output: Contribution to journalArticle

187 Citations (Scopus)

Abstract

Three-prime untranslated regions (3′UTRs) of metazoan messenger RNAs (mRNAs) contain numerous regulatory elements, yet remain largely uncharacterized. Using polyA capture, 3′ rapid amplification of complementary DNA (cDNA) ends, full-length cDNAs, and RNA-seq, we defined ~26,000 distinct 3′UTRs in Caenorhabditis elegans for ∼85% of the 18,328 experimentally supported protein-coding genes and revised ∼40% of gene models. Alternative 3′UTR isoforms are frequent, often differentially expressed during development. Average 3′UTR length decreases with animal age. Surprisingly, no polyadenylation signal (PAS) was detected for 13% of polyadenylation sites, predominantly among shorter alternative isoforms. Trans-spliced (versus non-trans-spliced) mRNAs possess longer 3′UTRs and frequently contain no PAS or variant PAS. We identified conserved 3?UTR motifs, isoform-specific predicted microRNA target sites, and polyadenylation of most histone genes. Our data reveal a rich complexity of 3′UTRs, both genome-wide and throughout development.

Original languageEnglish (US)
Pages (from-to)432-435
Number of pages4
JournalScience
Volume329
Issue number5990
DOIs
StatePublished - Jul 23 2010
Externally publishedYes

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Polyadenylation
Untranslated Regions
Protein Isoforms
Complementary DNA
Messenger RNA
Caenorhabditis elegans
MicroRNAs
Histones
Genes
Genome
RNA
Proteins

ASJC Scopus subject areas

  • General

Cite this

Mangone, M., Manoharan, A. P., Thierry-Mieg, D., Thierry-Mieg, J., Han, T., Mackowiak, S. D., ... Kim, J. K. (2010). The landscape of C. elegans 3′UTRs. Science, 329(5990), 432-435. https://doi.org/10.1126/science.1191244

The landscape of C. elegans 3′UTRs. / Mangone, Marco; Manoharan, Arun Prasad; Thierry-Mieg, Danielle; Thierry-Mieg, Jean; Han, Ting; Mackowiak, Sebastian D.; Mis, Emily; Zegar, Charles; Gutwein, Michelle R.; Khivansara, Vishal; Attie, Oliver; Chen, Kevin; Salehi-Ashtiani, Kourosh; Vidal, Marc; Harkins, Timothy T.; Bouffard, Pascal; Suzuki, Yutaka; Sugano, Sumio; Kohara, Yuji; Rajewsky, Nikolaus; Piano, Fabio; Gunsalus, Kristin C.; Kim, John K.

In: Science, Vol. 329, No. 5990, 23.07.2010, p. 432-435.

Research output: Contribution to journalArticle

Mangone, M, Manoharan, AP, Thierry-Mieg, D, Thierry-Mieg, J, Han, T, Mackowiak, SD, Mis, E, Zegar, C, Gutwein, MR, Khivansara, V, Attie, O, Chen, K, Salehi-Ashtiani, K, Vidal, M, Harkins, TT, Bouffard, P, Suzuki, Y, Sugano, S, Kohara, Y, Rajewsky, N, Piano, F, Gunsalus, KC & Kim, JK 2010, 'The landscape of C. elegans 3′UTRs', Science, vol. 329, no. 5990, pp. 432-435. https://doi.org/10.1126/science.1191244
Mangone M, Manoharan AP, Thierry-Mieg D, Thierry-Mieg J, Han T, Mackowiak SD et al. The landscape of C. elegans 3′UTRs. Science. 2010 Jul 23;329(5990):432-435. https://doi.org/10.1126/science.1191244
Mangone, Marco ; Manoharan, Arun Prasad ; Thierry-Mieg, Danielle ; Thierry-Mieg, Jean ; Han, Ting ; Mackowiak, Sebastian D. ; Mis, Emily ; Zegar, Charles ; Gutwein, Michelle R. ; Khivansara, Vishal ; Attie, Oliver ; Chen, Kevin ; Salehi-Ashtiani, Kourosh ; Vidal, Marc ; Harkins, Timothy T. ; Bouffard, Pascal ; Suzuki, Yutaka ; Sugano, Sumio ; Kohara, Yuji ; Rajewsky, Nikolaus ; Piano, Fabio ; Gunsalus, Kristin C. ; Kim, John K. / The landscape of C. elegans 3′UTRs. In: Science. 2010 ; Vol. 329, No. 5990. pp. 432-435.
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