Neutral effect of recombination on base composition in Drosophila

GABRIEL MARAIS; DOMINIQUE MOUCHIROUD; LAURENT DURET

doi:10.1017/S0016672302006079

Abstract

Core share and HTML view are not available for this content. However, as you have access to this content, a full PDF is available via the ‘Save PDF’ action button.

Recombination is thought to have various evolutionary effects on genome evolution. In this study, we investigated the relationship between the base composition and recombination rate in the Drosophila melanogaster genome. Because of a current debate about the accuracy of the estimates of recombination rate in Drosophila, we used eight different measures of recombination rate from recent work. We confirmed that the G+C content of large introns and flanking regions is positively correlated with recombination rate, suggesting that recombination has a neutral effect on base composition in Drosophila. We also confirmed that this neutral effect of recombination is the main determinant of the correlation between synonymous codon usage bias and recombination rate in Drosophila.

Crossref Citations

This article has been cited by the following publications. This list is generated based on data provided by Crossref.

Marais, Gabriel 2003. Biased gene conversion: implications for genome and sex evolution. Trends in Genetics, Vol. 19, Issue. 6, p. 330.

Marais, Gabriel Domazet-Lošo, Tomislav Tautz, Diethard and Charlesworth, Brian 2004. Correlated Evolution of Synonymous and Nonsynonymous Sites in Drosophila. Journal of Molecular Evolution, Vol. 59, Issue. 6, p. 771.

Marais, G Charlesworth, B and Wright, S I 2004. Recombination and base composition: the case of the highly self-fertilizing plant Arabidopsis thaliana. Genome Biology, Vol. 5, Issue. 7,

Qin, Hong Wu, Wei Biao Comeron, Josep M Kreitman, Martin and Li, Wen-Hsiung 2004. Intragenic Spatial Patterns of Codon Usage Bias in Prokaryotic and Eukaryotic Genomes. Genetics, Vol. 168, Issue. 4, p. 2245.

Jiggins, Francis M and Kim, Kang-Wook 2005. The Evolution of Antifungal Peptides in Drosophila. Genetics, Vol. 171, Issue. 4, p. 1847.

Hambuch, Tina M and Parsch, John 2005. Patterns of Synonymous Codon Usage in Drosophila melanogaster Genes With Sex-Biased Expression. Genetics, Vol. 170, Issue. 4, p. 1691.

Wyckoff, Gerald J. Malcom, Christine M. Vallender, Eric J. and Lahn, Bruce T. 2005. A highly unexpected strong correlation between fixation probability of nonsynonymous mutations and mutation rate. Trends in Genetics, Vol. 21, Issue. 7, p. 381.

Balakirev, Evgeniy S. Chechetkin, Vladimir R. Lobzin, Vasily V. and Ayala, Francisco J. 2005. Entropy and GC Content in the β-esterase Gene Cluster of the Drosophila melanogaster Subgroup. Molecular Biology and Evolution, Vol. 22, Issue. 10, p. 2063.

Cutter, Asher D. Good, Jeffrey M. Pappas, Christopher T. Saunders, Matthew A. Starrett, Dean M. and Wheeler, Travis J. 2005. Transposable Element Orientation Bias in the Drosophila melanogaster Genome. Journal of Molecular Evolution, Vol. 61, Issue. 6,

Singh, Nadia D Davis, Jerel C and Petrov, Dmitri A 2005. X-Linked Genes Evolve Higher Codon Bias in Drosophila and Caenorhabditis. Genetics, Vol. 171, Issue. 1, p. 145.

Singh, Nadia D Arndt, Peter F and Petrov, Dmitri A 2005. Genomic Heterogeneity of Background Substitutional Patterns in Drosophila melanogaster. Genetics, Vol. 169, Issue. 2, p. 709.

Singh, Nadia D. Davis, Jerel C. and Petrov, Dmitri A. 2005. Codon Bias and Noncoding GC Content Correlate Negatively with Recombination Rate on the Drosophila X Chromosome. Journal of Molecular Evolution, Vol. 61, Issue. 3, p. 315.

Jiggins, Francis M. and Kim, Kang-Wook 2006. Contrasting Evolutionary Patterns in Drosophila Immune Receptors. Journal of Molecular Evolution, Vol. 63, Issue. 6, p. 769.

Singh, Nadia D Arndt, Peter F and Petrov, Dmitri A 2006. Minor shift in background substitutional patterns in the Drosophila saltans and willistoni lineages is insufficient to explain GC content of coding sequences. BMC Biology, Vol. 4, Issue. 1,

Clément, Yves Tavares, Raquel and Marais, Gabriel A.B. 2006. Does lack of recombination enhance asymmetric evolution among duplicate genes? Insights from the Drosophila melanogaster genome. Gene, Vol. 385, Issue. , p. 89.

Galtier, Nicolas Bazin, Eric and Bierne, Nicolas 2006. GC-Biased Segregation of Noncoding Polymorphisms in Drosophila. Genetics, Vol. 172, Issue. 1, p. 221.

Ko, Wen-Ya Piao, Shengfu and Akashi, Hiroshi 2006. Strong Regional Heterogeneity in Base Composition Evolution on the Drosophila X Chromosome. Genetics, Vol. 174, Issue. 1, p. 349.

Bierne, N. and Eyre-walker, A. 2006. Variation in synonymous codon use and DNA polymorphism within the Drosophila genome. Journal of Evolutionary Biology, Vol. 19, Issue. 1, p. 1.

Vicario, Saverio Moriyama, Etsuko N and Powell, Jeffrey R 2007. Codon usage in twelve species of Drosophila. BMC Evolutionary Biology, Vol. 7, Issue. 1,

Bangham, Jenny Obbard, Darren J Kim, Kang-Wook Haddrill, Penelope R and Jiggins, Francis M 2007. The age and evolution of an antiviral resistance mutation inDrosophila melanogaster. Proceedings of the Royal Society B: Biological Sciences, Vol. 274, Issue. 1621, p. 2027.

Download full list

Article contents

Neutral effect of recombination on base composition in Drosophila

Abstract

Save article to Kindle

Save article to Dropbox

Save article to Google Drive

Reply to: Submit a response

Your details

You have entered the maximum number of contributors

Conflicting interests