Patterns and rates of intron divergence between humans and chimpanzees. Export

@article{citeulike:1113194, abstract = {BACKGROUND: Introns, which constitute the largest fraction of eukaryotic genes and which had been considered to be neutral sequences, are increasingly acknowledged as having important functions. Several studies have investigated levels of evolutionary constraint along introns and across classes of introns of different length and location within genes. However, thus far these studies have yielded contradictory results. RESULTS: We present the first analysis of human-chimpanzee intron divergence, in which differences in the number of substitutions per intronic site (Ki) can be interpreted as the footprint of different intensities and directions of the pressures of natural selection. Our main findings are as follows: there was a strong positive correlation between intron length and divergence; there was a strong negative correlation between intron length and GC content; and divergence rates vary along introns and depending on their ordinal position within genes (for instance, first introns are more GC rich, longer and more divergent, and divergence is lower at the 3' and 5' ends of all types of introns). CONCLUSION: We show that the higher divergence of first introns is related to their larger size. Also, the lower divergence of short introns suggests that they may harbor a relatively greater proportion of regulatory elements than long introns. Moreover, our results are consistent with the presence of functionally relevant sequences near the 5' and 3' ends of introns. Finally, our findings suggest that other parts of introns may also be under selective constraints.}, author = {Gazave, Elodie and Marqu\'{e}s-Bonet, Tom\`{a}s and Fernando, Olga and Charlesworth, Brian and Navarro, Arcadi}, citeulike-article-id = {1113194}, citeulike-linkout-0 = {http://dx.doi.org/10.1186/gb-2007-8-2-r21}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/17309804}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=17309804}, day = {19}, doi = {10.1186/gb-2007-8-2-r21}, issn = {1465-6914}, journal = {Genome Biol}, keywords = {evolution, gene, intron, length}, month = {Feb}, number = {2}, pages = {R21+}, posted-at = {2009-06-16 23:30:18}, priority = {2}, title = {Patterns and rates of intron divergence between humans and chimpanzees.}, url = {http://dx.doi.org/10.1186/gb-2007-8-2-r21}, volume = {8}, year = {2007} }

TY - JOUR ID - citeulike:1113194 L3 - citeulike-article-id:1113194 N2 - BACKGROUND: Introns, which constitute the largest fraction of eukaryotic genes and which had been considered to be neutral sequences, are increasingly acknowledged as having important functions. Several studies have investigated levels of evolutionary constraint along introns and across classes of introns of different length and location within genes. However, thus far these studies have yielded contradictory results. RESULTS: We present the first analysis of human-chimpanzee intron divergence, in which differences in the number of substitutions per intronic site (Ki) can be interpreted as the footprint of different intensities and directions of the pressures of natural selection. Our main findings are as follows: there was a strong positive correlation between intron length and divergence; there was a strong negative correlation between intron length and GC content; and divergence rates vary along introns and depending on their ordinal position within genes (for instance, first introns are more GC rich, longer and more divergent, and divergence is lower at the 3' and 5' ends of all types of introns). CONCLUSION: We show that the higher divergence of first introns is related to their larger size. Also, the lower divergence of short introns suggests that they may harbor a relatively greater proportion of regulatory elements than long introns. Moreover, our results are consistent with the presence of functionally relevant sequences near the 5' and 3' ends of introns. Finally, our findings suggest that other parts of introns may also be under selective constraints. IS - 2 JF - Genome Biol SN - 1465-6914 TI - Patterns and rates of intron divergence between humans and chimpanzees. VL - 8 SP - R21 KW - evolution KW - gene KW - intron KW - length AU - Gazave, Elodie AU - Marqués-Bonet, Tomàs AU - Fernando, Olga AU - Charlesworth, Brian AU - Navarro, Arcadi PY - 2007/Feb/19/ UR - http://dx.doi.org/10.1186/gb-2007-8-2-r21 ER -