Promoter-proximal introns in Arabidopsis thaliana are enriched in dispersed signals that elevate gene expression

Alan B. Rose, Tali Elfersi, Genis Parra, Ian F Korf

Research output: Contribution to journalArticle

103 Citations (Scopus)

Abstract

Introns that elevate mRNA accumulation have been found in a wide range of eukaryotes. However, not all introns affect gene expression, and direct testing is currently the only way to identify stimulatory introns. Our genome-wide analysis in Arabidopsis thaliana revealed that promoter-proximal introns as a group are compositionally distinct from distal introns and that the degree to which an individual intron matches the promoter-proximal intron profile is a strong predictor of its ability to increase expression. We found that the sequences responsible for elevating expression are dispersed throughout an enhancing intron, as is a candidate motif that is overrepresented in first introns and whose occurrence in tested introns is proportional to its effect on expression. The signals responsible for intron-mediated enhancement are apparently conserved between Arabidopsis and rice (Oryza sativa) despite the large evolutionary distance separating these plants.

Original languageEnglish (US)
Pages (from-to)543-551
Number of pages9
JournalPlant Cell
Volume20
Issue number3
DOIs
StatePublished - Mar 2008

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Arabidopsis
Gene expression
Introns
introns
Arabidopsis thaliana
promoter regions
Gene Expression
gene expression
Eukaryota
eukaryotic cells
Oryza sativa
Genes
Genome
rice
Messenger RNA
genome
Testing

ASJC Scopus subject areas

  • Plant Science
  • Cell Biology
  • Biochemistry, Genetics and Molecular Biology(all)
  • Biochemistry

Cite this

Promoter-proximal introns in Arabidopsis thaliana are enriched in dispersed signals that elevate gene expression. / Rose, Alan B.; Elfersi, Tali; Parra, Genis; Korf, Ian F.

In: Plant Cell, Vol. 20, No. 3, 03.2008, p. 543-551.

Research output: Contribution to journalArticle

Rose, Alan B. ; Elfersi, Tali ; Parra, Genis ; Korf, Ian F. / Promoter-proximal introns in Arabidopsis thaliana are enriched in dispersed signals that elevate gene expression. In: Plant Cell. 2008 ; Vol. 20, No. 3. pp. 543-551.
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