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Publication type: Journal Article
Document type: Full Paper

Year: 2018

Author(s): Bergman, J; Betancourt, AJ; Vogl, C

Title: Transcription-Associated Compositional Skews in Drosophila Genes.

Source: Genome Biol Evol. 2018; 10(1):269-275



Authors Vetmeduni Vienna:

Bergman Juraj
Betancourt Andrea Jean
Vogl Claus

Vetmed Research Units
Institute of Population Genetics
Unit of Molecular Genetics


Project(s): Population Genetics


Abstract:
In many organisms, local deviations from Chargaff"s second parity rule are observed around replication and transcription start sites and within intron sequences. Here, we use expression data as well as a whole-genome data set of nearly 200 haplotypes to investigate such compositional skews in Drosophila melanogaster genes. We find a positive correlation between compositional skew and gene expression, comparable in strength to similar correlations between expression levels and genome-wide sequence features. This correlation is relatively stronger for germline, compared with somatic expression, consistent with the process of transcription-associated mutation bias. We also inferred mutation rates from alleles segregating at low frequencies in short introns, and show that, whereas the overall GC content of short introns does not conform to the equilibrium expectation, the level of the observed deviation from the second parity rule is generally consistent with the inferred rates.


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