Universität zu Köln

Zheng, Yichen, Graur, Dan and Azevedo, Ricardo B. R. (2018). Correlated Selection on Amino Acid Deletion and Replacement in Mammalian Protein Sequences. J. Mol. Evol., 86 (6). S. 365 - 379. NEW YORK: SPRINGER. ISSN 1432-1432

Full text not available from this repository.

Abstract

A low ratio of nonsynonymous and synonymous substitution rates (dN/dS) at a codon is an indicator of functional constraint caused by purifying selection. Intuitively, the functional constraint would also be expected to prevent such a codon from being deleted. However, to the best of our knowledge, the correlation between the rates of deletion and substitution has never actually been estimated. Here, we use 8595 protein-coding region sequences from nine mammalian species to examine the relationship between deletion rate and dN/dS. We find significant positive correlations at the levels of both sites and genes. We compared our data against controls consisting of simulated coding sequences evolving along identical phylogenetic trees, where deletions occur independently of substitutions. A much weaker correlation was found in the corresponding simulated sequences, probably caused by alignment errors. In the real data, the correlations cannot be explained by alignment errors. Separate investigations on nonsynonymous (dN) and synonymous (dS) substitution rates indicate that the correlation is most likely due to a similarity in patterns of selection rather than in mutation rates.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Zheng, Yichen UNSPECIFIED UNSPECIFIED UNSPECIFIED Graur, Dan UNSPECIFIED UNSPECIFIED UNSPECIFIED Azevedo, Ricardo B. R. UNSPECIFIED UNSPECIFIED UNSPECIFIED
URN:	urn:nbn:de:hbz:38-181556
DOI:	10.1007/s00239-018-9853-9
Journal or Publication Title:	J. Mol. Evol.
Volume:	86
Number:	6
Page Range:	S. 365 - 379
Date:	2018
Publisher:	SPRINGER
Place of Publication:	NEW YORK
ISSN:	1432-1432
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language GENOME BROWSER; INDEL RATES; EVOLUTION; INSERTIONS; ALIGNMENT; REGIONS; MODELS; IMPACT; SETS; UCSC Multiple languages Biochemistry & Molecular Biology; Evolutionary Biology; Genetics & Heredity Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/18155