Patterns of DNA-Sequence Divergence Between Drosophila miranda and D. pseudoobscura
Patterns of DNA-Sequence Divergence Between Drosophila miranda and D. pseudoobscura
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DOI：
10.1007/s00239-009-9298-2
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发表时间：
2009-12-01
影响因子：
3.9
通讯作者：
Charlesworth, Brian
中科院分区：
文献类型：
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作者：
de Proce, Sophie Marion;Halligan, Daniel L.;Charlesworth, Brian
与传统观点相反，大量的非编码DNA似乎在果蝇和其他物种中被选择性地限制。本文利用果蝇miranda BAC序列和伪果蝇基因组序列，对伪果蝇和米兰达果蝇的编码序列和非编码序列进行比对，并对它们的进化模式进行了研究。我们在黑腹果蝇和它的亲戚之间的比较中发现了两个先前观察到的模式。首先，内含子分化与内含子长度呈负相关，这表明较长的非编码序列可能比较短的序列包含更多的调控元件。我们的另一个主要发现是非同义替换率（d (N)）与密码子使用偏差（F (op)）之间的负相关，表明快速进化的基因具有较低的密码子使用偏差，这与强正选择干扰密码子使用的弱选择是一致的。
Contrary to the classical view, a large amount of non-coding DNA seems to be selectively constrained in Drosophila and other species. Here, using Drosophila miranda BAC sequences and the Drosophila pseudoobscura genome sequence, we aligned coding and non-coding sequences between D. pseudoobscura and D. miranda, and investigated their patterns of evolution. We found two patterns that have previously been observed in comparisons between Drosophila melanogaster and its relatives. First, there is a negative correlation between intron divergence and intron length, suggesting that longer non-coding sequences may contain more regulatory elements than shorter sequences. Our other main finding is a negative correlation between the rate of non-synonymous substitutions (d (N)) and codon usage bias (F (op)), showing that fast-evolving genes have a lower codon usage bias, consistent with strong positive selection interfering with weak selection for codon usage.