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首页> 外文期刊>Journal of Theoretical Biology >Insights into the molecular basis of piezophilic adaptation: Extraction of piezophilic signatures
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Insights into the molecular basis of piezophilic adaptation: Extraction of piezophilic signatures

机译：亲嗜性适应的分子基础的见解：亲嗜性签名的提取

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Piezophiles are the organisms which can successfully survive at extreme pressure conditions. However, the molecular basis of piezophilic adaptation is still poorly understood. Analysis of the protein sequence adjustments that had taken place during evolution can help to reveal the sequence adaptation parameters responsible for protein functional and structural adaptation at such high pressure conditions. In this current work we have used SVM classifier for filtering strong instances and generated human interpretable rules from these strong instances by using the PART algorithm. These generated rules were analyzed for getting insights into the molecular signature patterns present in the piezophilic proteins. The experiments were performed on three different temperature ranges piezophilic groups, namely psychrophilic-piezophilic, mesophilic-piezophilic, and thermophilic-piezophilic for the detailed comparative study. The best classification results were obtained as we move up the temperature range from psychrophilic-piezophilic to thermophilic-piezophilic. Based on the physicochemical classification of amino acids and using feature ranking algorithms, hydrophilic and polar amino acid groups have higher discriminative ability for psychrophilic-piezophilic and mesophilic-piezophilic groups along with hydrophobic and nonpolar amino acids for the thermophilic-piezophilic groups. We also observed an overrepresentation of polar, hydrophilic and small amino acid groups in the discriminatory rules of all the three temperature range piezophiles along with aliphatic, nonpolar and hydrophobic groups in the mesophilic-piezophilic and thermophilic-piezophilic groups. (C) 2015 Elsevier Ltd. All rights reserved.
机译：亲脂性细菌是可以在极端压力条件下成功存活的生物。但是，亲脂性适应的分子基础仍然知之甚少。对进化过程中发生的蛋白质序列调节的分析可以帮助揭示在这种高压条件下负责蛋白质功能和结构适应的序列适应参数。在当前的工作中，我们使用了SVM分类器来过滤强实例，并通过使用PART算法从这些强实例中生成了人类可解释的规则。分析了这些生成的规则，以深入了解亲嗜性蛋白质中存在的分子标记模式。为了进行详细的比较研究，在三个不同温度范围的亲嗜性组上进行了实验，即亲嗜性-亲液性，中嗜性-亲液性和嗜热性-亲液性。当我们将温度范围从嗜热-亲油提高到嗜热-亲油时，可获得最佳的分类结果。基于氨基酸的物理化学分类并使用特征排序算法，亲水和极性氨基酸基团对嗜热-亲液和中温-亲液基团具有较高的区分能力，而疏水和非极性氨基酸则对嗜热-亲液基团具有较高的区分能力。我们还观察到，在所有三个温度范围的亲脂性细菌的歧视性规则中，极性，亲水性和小氨基酸基团的过多代表，以及中温-亲液和嗜热-亲液基团中的脂肪族，非极性和疏水基团。 （C）2015 Elsevier Ltd.保留所有权利。

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