SMORE: Synteny Modulator of Repetitive Elements
AbstractSeveral families of multicopy genes, such as transfer ribonucleic acids (tRNAs) and ribosomal RNAs (rRNAs), are subject to concerted evolution, an effect that keeps sequences of paralogous genes effectively identical. Under these circumstances, it is impossible to distinguish orthologs from paralogs on the basis of sequence similarity alone. Synteny, the preservation of relative genomic locations, however, also remains informative for the disambiguation of evolutionary relationships in this situation. In this contribution, we describe an automatic pipeline for the evolutionary analysis of such cases that use genome-wide alignments as a starting point to assign orthology relationships determined by synteny. The evolution of tRNAs in primates as well as the history of the Y RNA family in vertebrates and nematodes are used to showcase the method. The pipeline is freely available. View Full-Text
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Berkemer, S.J.; Hoffmann, A.; Murray, C.R.A.; Stadler, P.F. SMORE: Synteny Modulator of Repetitive Elements. Life 2017, 7, 42.
Berkemer SJ, Hoffmann A, Murray CRA, Stadler PF. SMORE: Synteny Modulator of Repetitive Elements. Life. 2017; 7(4):42.Chicago/Turabian Style
Berkemer, Sarah J.; Hoffmann, Anne; Murray, Cameron R.A.; Stadler, Peter F. 2017. "SMORE: Synteny Modulator of Repetitive Elements." Life 7, no. 4: 42.
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