Ultraconserved elements in insect genomes: A highly conserved intronic sequence implicated in the control of homothorax mRNA splicing

Evgeny A. Glazov, Michael Pheasant, Elizabeth A. McGraw, Gill Bejerano, John S. Mattick

Research output: Contribution to journalArticle

77 Citations (Scopus)

Abstract

Recently, we identified a large number of ultraconserved (uc) sequences in noncoding regions of human, mouse, and rat genomes that appear to be essential for vertebrate and amniote ontogeny. Here, we used similar methods to identify ultraconserved genomic regions between the insect species Drosophila melanogaster and Drosophila pseudoobscura, as well as the more distantly related Anopheles gambiae. As with vertebrates, ultraconserved sequences in insects appear to occur primarily in intergenic and intronic sequences, and at intron-exon junctions. The sequences are significantly associated with genes encoding developmental regulators and transcription factors, but are less frequent and are smaller in size than in vertebrates. The longest identical, nongapped orthologous match between the three genomes was found within the homothorax (hth) gene. This sequence spans an internal exon-intron junction, with the majority located within the intron, and is predicted to form a highly stable stem-loop RNA structure. Real-time quantitative PCR analysis of different hth splice isoforms and Northern blotting showed that the conserved element is associated with a high incidence of intron retention in hth pre-mRNA, suggesting that the conserved intronic element is critically important in the post-transcriptional regulation of hth expression in Diptera.

Original languageEnglish (US)
Pages (from-to)800-808
Number of pages9
JournalGenome research
Volume15
Issue number6
DOIs
StatePublished - Jun 1 2005

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Insect Genome
Conserved Sequence
Introns
Vertebrates
Messenger RNA
Insects
Exons
Genome
Developmental Genes
Anopheles gambiae
Intergenic DNA
RNA Precursors
Drosophila melanogaster
Diptera
Northern Blotting
Drosophila
Real-Time Polymerase Chain Reaction
Protein Isoforms
Transcription Factors
RNA

All Science Journal Classification (ASJC) codes

  • Genetics
  • Genetics(clinical)

Cite this

Glazov, Evgeny A. ; Pheasant, Michael ; McGraw, Elizabeth A. ; Bejerano, Gill ; Mattick, John S. / Ultraconserved elements in insect genomes : A highly conserved intronic sequence implicated in the control of homothorax mRNA splicing. In: Genome research. 2005 ; Vol. 15, No. 6. pp. 800-808.
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Ultraconserved elements in insect genomes : A highly conserved intronic sequence implicated in the control of homothorax mRNA splicing. / Glazov, Evgeny A.; Pheasant, Michael; McGraw, Elizabeth A.; Bejerano, Gill; Mattick, John S.

In: Genome research, Vol. 15, No. 6, 01.06.2005, p. 800-808.

Research output: Contribution to journalArticle

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