| Title |
Linking the DNA strand asymmetry to the spatio-temporal replication program
|
|---|---|
| Published in |
The European Physical Journal E, September 2012
|
| DOI | 10.1140/epje/i2012-12092-y |
| Pubmed ID | |
| Authors |
A. Baker, H. Julienne, C. L. Chen, B. Audit, Y. d’Aubenton-Carafa, C. Thermes, A. Arneodo |
| Abstract |
Two key cellular processes, namely transcription and replication, require the opening of the DNA double helix and act differently on the two DNA strands, generating different mutational patterns (mutational asymmetry) that may result, after long evolutionary time, in different nucleotide compositions on the two DNA strands (compositional asymmetry). We elaborate on the simplest model of neutral substitution rates that takes into account the strand asymmetries generated by the transcription and replication processes. Using perturbation theory, we then solve the time evolution of the DNA composition under strand-asymmetric substitution rates. In our minimal model, the compositional and substitutional asymmetries are predicted to decompose into a transcription- and a replication-associated components. The transcription-associated asymmetry increases in magnitude with transcription rate and changes sign with gene orientation while the replication-associated asymmetry is proportional to the replication fork polarity. These results are confirmed experimentally in the human genome, using substitution rates obtained by aligning the human and chimpanzee genomes using macaca and orangutan as outgroups, and replication fork polarity determined in the HeLa cell line as estimated from the derivative of the mean replication timing. When further investigating the dynamics of compositional skew evolution, we show that it is not at equilibrium yet and that its evolution is an extremely slow process with characteristic time scales of several hundred Myrs. |
X Demographics
The data shown below were collected from the profile of 1 X user who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Australia | 1 | 100% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 1 | 100% |
Mendeley readers
The data shown below were compiled from readership statistics for 16 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Japan | 1 | 6% |
| France | 1 | 6% |
| Unknown | 14 | 88% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 7 | 44% |
| Student > Ph. D. Student | 2 | 13% |
| Student > Master | 2 | 13% |
| Student > Doctoral Student | 1 | 6% |
| Professor > Associate Professor | 1 | 6% |
| Other | 0 | 0% |
| Unknown | 3 | 19% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 6 | 38% |
| Biochemistry, Genetics and Molecular Biology | 5 | 31% |
| Immunology and Microbiology | 1 | 6% |
| Physics and Astronomy | 1 | 6% |
| Unknown | 3 | 19% |
Attention Score in Context
This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 25 September 2012.
All research outputs
#18,961,244
of 23,498,099 outputs
Outputs from The European Physical Journal E
#485
of 650 outputs
Outputs of similar age
#132,054
of 173,186 outputs
Outputs of similar age from The European Physical Journal E
#9
of 15 outputs
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