Rose Dominic, Jöris Julian, Hackermüller Jörg, Reiche Kristin, Li Qiang, Stadler Peter F
Bioinformatics Group, Department of Computer Science, Interdisciplinary Center for Bioinformatics, University of Leipzig, Leipzig, Germany.
J Bioinform Comput Biol. 2008 Dec;6(6):1157-75. doi: 10.1142/s0219720008003886.
Teleost fishes share a duplication of their entire genomes. We report here on a computational survey of structured non-coding RNAs (ncRNAs) in teleost genomes, focusing on the fate of fish-specific duplicates. As in other metazoan groups, we find evidence of a large number (11,543) of structured RNAs, most of which (~86%) are clade-specific or evolve so fast that their tetrapod homologs cannot be detected. In surprising contrast to protein-coding genes, the fish-specific genome duplication did not lead to a large number of paralogous ncRNAs: only 188 candidates, mostly microRNAs, appear in a larger copy number in teleosts than in tetrapods, suggesting that large-scale gene duplications do not play a major role in the expansion of the vertebrate ncRNA inventory.
硬骨鱼具有整个基因组的复制现象。我们在此报告对硬骨鱼基因组中结构化非编码RNA（ncRNA）的计算研究，重点关注鱼类特有的重复基因的命运。与其他后生动物类群一样，我们发现了大量（11,543个）结构化RNA的证据，其中大部分（约86%）是特定进化枝的，或者进化速度非常快，以至于无法检测到它们与四足动物的同源物。与蛋白质编码基因形成惊人对比的是，鱼类特有的基因组复制并没有导致大量的旁系同源ncRNA：在硬骨鱼中，只有188个候选基因（大多是微小RNA）的拷贝数比四足动物中的多，这表明大规模基因复制在脊椎动物ncRNA库的扩展中并不起主要作用。
