Widespread evolutionary conservation of alternatively spliced exons in caenorhabditis.
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Widespread evolutionary conservation of alternatively spliced exons in caenorhabditis. / Irimia, Manuel; Rukov, Jakob L; Penny, David; Garcia-Fernandez, Jordi; Vinther, Jeppe; Roy, Scott W.
In: Molecular Biology and Evolution, Vol. 25, No. 2, 2007, p. 375-82.Research output: Contribution to journal › Journal article › Research › peer-review
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T1 - Widespread evolutionary conservation of alternatively spliced exons in caenorhabditis.
AU - Irimia, Manuel
AU - Rukov, Jakob L
AU - Penny, David
AU - Garcia-Fernandez, Jordi
AU - Vinther, Jeppe
AU - Roy, Scott W
PY - 2007
Y1 - 2007
N2 - Alternative splicing (AS) contributes to increased transcriptome and proteome diversity in various eukaryotic lineages. Previous studies showed low levels of conservation of alternatively spliced (cassette) exons within mammals and within dipterans. We report a strikingly different pattern in Caenorhabditis nematodes-more than 92% of cassette exons from Caenorhabditis elegans are conserved in Caenorhabditis briggsae and/or Caenorhabditis remanei. High levels of conservation extend to minor-form exons (present in a minority of transcripts) and are particularly pronounced for exons showing complex patterns of splicing. The functionality of the vast majority of cassette exons is underscored by various other features. We suggest that differences in conservation between lineages reflect differences in levels of functionality and further suggest that these differences are due to differences in intron length and the strength of consensus boundaries across lineages. Finally, we demonstrate an inverse relationship between AS and gene duplication, suggesting that the latter may be primarily responsible for the emergence of new functional transcripts in nematodes. Udgivelsesdato: 2008-Feb
AB - Alternative splicing (AS) contributes to increased transcriptome and proteome diversity in various eukaryotic lineages. Previous studies showed low levels of conservation of alternatively spliced (cassette) exons within mammals and within dipterans. We report a strikingly different pattern in Caenorhabditis nematodes-more than 92% of cassette exons from Caenorhabditis elegans are conserved in Caenorhabditis briggsae and/or Caenorhabditis remanei. High levels of conservation extend to minor-form exons (present in a minority of transcripts) and are particularly pronounced for exons showing complex patterns of splicing. The functionality of the vast majority of cassette exons is underscored by various other features. We suggest that differences in conservation between lineages reflect differences in levels of functionality and further suggest that these differences are due to differences in intron length and the strength of consensus boundaries across lineages. Finally, we demonstrate an inverse relationship between AS and gene duplication, suggesting that the latter may be primarily responsible for the emergence of new functional transcripts in nematodes. Udgivelsesdato: 2008-Feb
U2 - 10.1093/molbev/msm262
DO - 10.1093/molbev/msm262
M3 - Journal article
C2 - 18048400
VL - 25
SP - 375
EP - 382
JO - Molecular Biology and Evolution
JF - Molecular Biology and Evolution
SN - 0737-4038
IS - 2
ER -
ID: 2704231