ArticleGenetics2003
Protein evolution and codon usage bias on the neo-sex chromosomes of Drosophila miranda.
Article in Genetics, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 44 citations in OpenAlex.
- Article
- Introgression maintains the genetic integrity of the mating-type determining chromosome of the fungus Neurospora tetrasperma.Genome research · 2016Article
- Evidence for stabilizing selection on codon usage in chromosomal rearrangements of Drosophila pseudoobscura.G3 (Bethesda, Md.) · 2014Article
- Sex-specific adaptation drives early sex chromosome evolution in Drosophila.Science (New York, N.Y.) · 2012Article
- Article
- Massive changes in genome architecture accompany the transition to self-fertility in the filamentous fungus Neurospora tetrasperma.Genetics · 2011Article
- Degeneration in codon usage within the region of suppressed recombination in the mating-type chromosomes of Neurospora tetrasperma.Eukaryotic cell · 2011Article
- Intronic AT skew is a defendable proxy for germline transcription but does not predict crossing-over or protein evolution rates in Drosophila melanogaster.Journal of molecular evolution · 2010Article
- Article
- Evolution of sex chromosomes in insects.Annual review of genetics · 2010Review
- Protein rates of evolution are predicted by double-strand break events, independent of crossing-over rates.Genome biology and evolution · 2009Article
- Nucleotide polymorphism and within-gene recombination in Daphnia magna and D. pulex, two cyclical parthenogens.Genetics · 2009Article
- Article
- The inexorable spread of a newly arisen neo-Y chromosome.PLoS genetics · 2008Article
- Genomic degradation of a young Y chromosome in Drosophila miranda.Genome biology · 2008Article
- Recombination rate and protein evolution in yeast.BMC evolutionary biology · 2007Article
- Article
- Article
- Reduced selection for codon usage bias in Drosophila miranda.Journal of molecular evolution · 2007Article
- Evolutionary strata on the X chromosomes of the dioecious plant Silene latifolia: evidence from new sex-linked genes.Genetics · 2007Article
Corrections and comments
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Authors and funding
1 author at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The neo-sex chromosomes of Drosophila miranda constitute an ideal system to study the effects of recombination on patterns of genome evolution. Due to a fusion of an autosome with the Y chromosome, one homolog is transmitted clonally. Here, I compare patterns of molecular evolution of 18 protein-coding genes located on the recombining neo-X and their homologs on the nonrecombining neo-Y chromosome. The rate of protein evolution has significantly increased on the neo-Y lineage since its formation. Amino acid substitutions are accumulating uniformly among neo-Y-linked genes, as expected if all loci on the neo-Y chromosome suffer from a reduced effectiveness of natural selection. In contrast, there is significant heterogeneity in the rate of protein evolution among neo-X-linked genes, with most loci being under strong purifying selection and two genes showing evidence for adaptive evolution. This observation agrees with theory predicting that linkage limits adaptive protein evolution. Both the neo-X and the neo-Y chromosome show an excess of unpreferred codon substitutions over preferred ones and no difference in this pattern was observed between the chromosomes. This suggests that there has been little or no selection maintaining codon bias in the D. miranda lineage. A change in mutational bias toward AT substitutions also contributes to the decline in codon bias. The contrast in patterns of molecular evolution between amino acid mutations and synonymous mutations on the neo-sex-linked genes can be understood in terms of chromosome-specific differences in effective population size and the distribution of selective effects of mutations.
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