Analysis of ribosomal protein gene structures: implications for intron evolution

PLoS Genetics
Maki YoshihamaNaoya Kenmochi

Abstract

Many spliceosomal introns exist in the eukaryotic nuclear genome. Despite much research, the evolution of spliceosomal introns remains poorly understood. In this paper, we tried to gain insights into intron evolution from a novel perspective by comparing the gene structures of cytoplasmic ribosomal proteins (CRPs) and mitochondrial ribosomal proteins (MRPs), which are held to be of archaeal and bacterial origin, respectively. We analyzed 25 homologous pairs of CRP and MRP genes that together had a total of 527 intron positions. We found that all 12 of the intron positions shared by CRP and MRP genes resulted from parallel intron gains and none could be considered to be "conserved," i.e., descendants of the same ancestor. This was supported further by the high frequency of proto-splice sites at these shared positions; proto-splice sites are proposed to be sites for intron insertion. Although we could not definitively disprove that spliceosomal introns were already present in the last universal common ancestor, our results lend more support to the idea that introns were gained late. At least, our results show that MRP genes were intronless at the time of endosymbiosis. The parallel intron gains between CRP and MRP genes accounted...Continue Reading

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Citations

Apr 28, 2006·BMC Evolutionary Biology·Claudio H Slamovits, Patrick J Keeling
Sep 9, 2006·BMC Evolutionary Biology·Hung D NguyenNaoya Kenmochi
Oct 13, 2006·BMC Genomics·Henrik Nielsen, Rasmus Wernersson
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Mar 3, 2007·Molecular Biology and Evolution·Hung D NguyenNaoya Kenmochi
Feb 26, 2008·Molecular Biology and Evolution·Veiko KraussCarina Eisenhardt
Oct 11, 2020·Wiley Interdisciplinary Reviews. RNA·Cyrielle PetibonSherif Abou Elela

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Software Mentioned

BLAST
ClustalW

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