Analysis of five gene sets in chimpanzees suggests decoupling between the action of selection on protein-coding and on noncoding elements

We set out to investigate potential differences and similarities between the selective forces acting upon the coding and noncoding regions of five different sets of genes defined according to functional and evolutionary criteria: 1) two reference gene sets presenting accelerated and slow rates of pr...

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Detalles Bibliográficos
Autores principales: Santpere, G., Carnero-Montoro, E., Petit, N., Serra, F., Hvilsom, C., Rambla, J., Heredia-Genestar, J.M., Halligan, D.L., Dopazo, H., Navarro, A., Bosch, E.
Formato: JOUR
Materias:
Alzheimer
Biochemical pathways
Chimpanzee
Distribution of fitness effects
Fraction of adaptive substitution (α) and adaptive substitution rate (ωa)
Natural selection
Parkinson
actin
complement
untranslated region
animal
gene
genetic selection
genetics
human
intron
molecular evolution
mutation
open reading frame
Pan troglodytes
promoter region
single nucleotide polymorphism
Actins
Animals
Complement System Proteins
Evolution, Molecular
Genes
Humans
Introns
Mutation
Open Reading Frames
Polymorphism, Single Nucleotide
Promoter Regions, Genetic
Selection, Genetic
Untranslated Regions
Acceso en línea:http://hdl.handle.net/20.500.12110/paper_17596653_v7_n6_p1490_Santpere
Aporte de:
Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) de Universidad de Buenos Aires
Descripción
Sumario:We set out to investigate potential differences and similarities between the selective forces acting upon the coding and noncoding regions of five different sets of genes defined according to functional and evolutionary criteria: 1) two reference gene sets presenting accelerated and slow rates of protein evolution (the Complement and Actin pathways); 2) a set of genes with evidence of accelerated evolution in at least one of their introns; and 3) two gene sets related to neurological function (Parkinson's and Alzheimer's diseases). To that effect, we combine human-chimpanzee divergence patterns with polymorphism data obtained from target resequencing 20 central chimpanzees, our closest relatives with largest long-term effective population size. By using the distribution of fitness effect-alpha extension of the McDonald-Kreitman test, we reproduce inferences of rates of evolution previously based only on divergence data on both coding and intronic sequences and also obtain inferences for other classes of genomic elements (untranslated regions, promoters, and conserved noncoding sequences). Our results suggest that 1) the distribution of fitness effect-alpha method successfully helps distinguishing different scenarios of accelerated divergence (adaptation or relaxed selective constraints) and 2) the adaptive history of coding and noncoding sequences within the gene sets analyzed is decoupled. © The Author(s) 2015.

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