Faster than neutral evolution of constrained sequences: the complex interplay of mutational biases and weak selection.
Faster than neutral evolution of constrained sequences: the complex interplay of mutational biases and weak selection.
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DOI：
10.1093/gbe/evr032
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发表时间：
2011
影响因子：
3.3
通讯作者：
Messer PW
中科院分区：
文献类型：
--
作者：
Lawrie DS;Petrov DA;Messer PW
比较基因组学已被广泛接受为确定基因组中重要功能区域的主要框架。这种方法的基本范式是，大多数功能区域被假定为处于选择性约束之下，这反过来又降低了相对于中性的进化速率。这种假设允许通过序列保守性检测功能区域。然而，限制并不总是导致序列保守性。当净化选择较弱且突变有偏向时，受约束的区域甚至可以比中性序列进化得更快，因此可以表现为正选择。此外，保守估计还取决于相对于突变偏差的选择方向，并可能随时间而变化。鉴于最近的数据普遍存在的突变偏见和弱选择力，这些影响应该减少保护分析的力量，以确定功能区域使用比较基因组学数据。我们认为，估计真正的突变偏差和使用明确的进化模型是必不可少的，以改善推断自然选择的作用和功能的基因组序列的方法。
Comparative genomics has become widely accepted as the major framework for the ascertainment of functionally important regions in genomes. The underlying paradigm of this approach is that most of the functional regions are assumed to be under selective constraint, which in turn reduces the rate of evolution relative to neutrality. This assumption allows detection of functional regions through sequence conservation. However, constraint does not always lead to sequence conservation. When purifying selection is weak and mutation is biased, constrained regions can even evolve faster than neutral sequences and thus can appear to be under positive selection. Moreover, conservation estimates depend also on the orientation of selection relative to mutational biases and can vary over time. In the light of recent data of the ubiquity of mutational biases and weak selective forces, these effects should reduce the power of conservation analyses to define functional regions using comparative genomics data. We argue that the estimation of true mutational biases and the use of explicit evolutionary models are essential to improve methods inferring the action of natural selection and functionality in genome sequences.
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影响因子：
4.5
作者：
Hershberg R;Petrov DA
通讯作者：
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影响因子：
9.8
作者：
Berglund, Jonas;Pollard, Katherine S.;Webster, Matthew T.
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影响因子：
64.8
作者：
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通讯作者：
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DOI：
10.1073/pnas.0510638103
发表时间：
2006-05-02
影响因子：
11.1
作者：
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通讯作者：
Comeron, JM
影响因子：
64.8
作者：
Bustamante, CD;Fledel-Alon, A;Clark, AG
通讯作者：
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