Bi-alignments as Models of Incongruent Evolution of RNA Sequence and Secondary Structure

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外文摘要：RNA molecules may be subject to independent selection pressures on sequence and structure。 This can， in principle， lead to the preservation of structural features without maintaining the exact position on the conserved sequence。 Consequently， structurally analogous base pairs are no longer formed by homologous bases， and homologous nucleotides do not preserve their structural context。 In other words， the evolution of sequence and structure is incongruent。 We model this phenomenon by introducing bi-alignments， defined as a pair of alignments， one modeling sequence homology; the other， structural homology， together with an alignment of the two alignments that models the relative shifts between conserved sequence and conserved structure。 Bi-alignments therefore form a special class of four-way alignments。 A preliminary survey of the Rf am database suggests that incongruent evolution is not a very rare phenomenon among structured ncRNAs and RNA elements。

外文关键词：

RNA secondary structureRNA alignmentIncongruent evolution4-way alignment

作者：

Maria Waldl、Sebastian Will、Michael T. Wolfinger、Ivo L. Hofacker、Peter F. Stadler

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作者单位：

Faculty of Chemistry, Department of Theoretical Chemistry, University of Vienna, Waehringerstrasse 17, 1090 Vienna, Austria

Faculty of Chemistry, Department of Theoretical Chemistry, University of Vienna, Waehringerstrasse 17, 1090 Vienna, Austria,Faculty of Computer Science, Research Croup Hioinformatics and ComputationalBiology, University of Vienna, Waehringerstrasse 29, 1090 Vienna, Austria

Faculty of Chemistry, Department of Theoretical Chemistry, University of Vienna, Waehringerstrasse 17, 1090 Vienna, Austria,Department of Computer Science and Interdisciplinary Center for Bioinformatics,Leipzig University, Haertelstrasse 16-18, 04109 Leipzig, Germany,Max Planck Institute for Mathematics in the Sciences,Inselstrasse 22, 04103 Leipzig, Germany,Facultad de Ciencias, Universidad National de Colombia, Bogota, Colombia,Santa Fe Institute, 1399 Hyde Park Road, Santa Fe, NM 87501, USA

会议名称：

International Conference on Computational Intelligence Methods for Bioinformatics and Biostatistics

会议地点：

Bergamo(IT)

会议母体文献：

Computational Intelligence Methods for Bioinformatics and Biostatistics

页码：

159-170

出版时间：

2019

DOI：

10.1007/978-3-030-63061-4_15