| Resumo: |
Using a novel method, we show that ordered triplets of motifs usually associated with spliceosomal intron recognition are underrepresented in the protein coding sequence of complete Thermotogae, archaeal and bacterial genomes. The underrepresentation observed does not extend to the noncoding strand, suggesting that the cause of the asymmetry is related to mRNA rather than DNA. Our data do not suggest that the underrepresentation is due to gene transfer from eukaryotes. We speculate that one possible explanation for these observations is that the protein coding sequence of Thermotogae, Archaea and Bacteria was at some time in the past subjected to selection against certain motifs appearing in an order which might initiate splicing in environments harboring a functional spliceosome. This is consistent with, but certainly does not prove, a hypothetical scenario in which at least some prokaryote lineages once possessed a functional spliceosome. Thus, we present a new quantitative method, observations obtained using the method, and a speculative discussion of a possible explanation of the observations.
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