The exon context and distribution of Euascomycetes rRNA spliceosomal introns

Debashish Bhattacharya, Dawn Simon, Jian Huang, Jamie J. Cannone, Robin R. Gutell

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

Background: We have studied spliceosomal introns in the ribosomal (r)RNA of fungi to discover the forces that guide their insertion and fixation. Results: Comparative analyses of flanking sequences at 49 different spliceosomal intron sites showed that the G - intron - G motif is the conserved flanking sequence at sites of intron insertion. Information analysis showed that these rRNA introns contain significant information in the flanking exons. Analysis of all rDNA introns in the three phylogenetic domains and two organelles showed that group I introns are usually located after the most conserved sites in rRNA, whereas spliceosomal introns occur at less conserved positions. The distribution of spliceosomal and group I introns in the primary structure of small and large subunit rRNAs was tested with simulations using the broken-stick model as the null hypothesis. This analysis suggested that the spliceosomal and group I intron distributions were not produced by a random process. Sequence upstream of rRNA spliceosomal introns was significantly enriched in G nucleotides. We speculate that these G-rich regions may function as exonic splicing enhancers that guide the spliceosome and facilitate splicing. Conclusions: Our results begin to define some of the rules that guide the distribution of rRNA spliceosomal introns and suggest that the exon context is of fundamental importance in intron fixation.

Original languageEnglish (US)
Article number7
JournalBMC Evolutionary Biology
Volume3
DOIs
StatePublished - Apr 25 2003

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exons
introns
ribosomal RNA
fixation
RNA
fungus
phylogenetics
simulation
distribution
analysis
spliceosomes
conserved sequences
organelles
nucleotides
fungi

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics

Cite this

The exon context and distribution of Euascomycetes rRNA spliceosomal introns. / Bhattacharya, Debashish; Simon, Dawn; Huang, Jian; Cannone, Jamie J.; Gutell, Robin R.

In: BMC Evolutionary Biology, Vol. 3, 7, 25.04.2003.

Research output: Contribution to journalArticle

Bhattacharya, Debashish ; Simon, Dawn ; Huang, Jian ; Cannone, Jamie J. ; Gutell, Robin R. / The exon context and distribution of Euascomycetes rRNA spliceosomal introns. In: BMC Evolutionary Biology. 2003 ; Vol. 3.
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