Superstatistical model of bacterial DNA architecture.
Superstatistical model of bacterial DNA architecture.
复制标题
DOI：
10.1038/srep43034
复制
发表时间：
2017-02-22
影响因子：
4.6
通讯作者：
Bunde A
中科院分区：
文献类型：
--
作者：
Bogachev MI;Markelov OA;Kayumov AR;Bunde A
了解控制复杂DNA结构组织的物理原理以及其机械和化学性质对于生命科学和遗传工程的发展至关重要。最近，我们已经发现，复杂的DNA组织明确反映在由普适幂律尾核苷酸间隔分布描述的核苷酸排列中，该分布适用于各种原核生物和真核生物的完整基因组。在这里，我们提出了一个超统计模型，表示一个长的DNA分子的一系列连续的~150 bp的DNA片段与局部核苷酸组成的交替之间的片段表现出长程相关性。我们表明，超统计模型和相应的DNA生成算法明确再现的法律管辖的经验核苷酸排列性质的DNA序列的各种全球GC含量和最佳生活温度。最后，我们讨论了我们的模型在DNA力学性质方面的相关性。作为展望，我们专注于寻找编码给定蛋白质的DNA序列，同时再现从经验基因组中观察到的核苷酸排列规律，这可能对长DNA分子的基因工程优化感兴趣。
Understanding the physical principles that govern the complex DNA structural organization as well as its mechanical and thermodynamical properties is essential for the advancement in both life sciences and genetic engineering. Recently we have discovered that the complex DNA organization is explicitly reflected in the arrangement of nucleotides depicted by the universal power law tailed internucleotide interval distribution that is valid for complete genomes of various prokaryotic and eukaryotic organisms. Here we suggest a superstatistical model that represents a long DNA molecule by a series of consecutive ~150 bp DNA segments with the alternation of the local nucleotide composition between segments exhibiting long-range correlations. We show that the superstatistical model and the corresponding DNA generation algorithm explicitly reproduce the laws governing the empirical nucleotide arrangement properties of the DNA sequences for various global GC contents and optimal living temperatures. Finally, we discuss the relevance of our model in terms of the DNA mechanical properties. As an outlook, we focus on finding the DNA sequences that encode a given protein while simultaneously reproducing the nucleotide arrangement laws observed from empirical genomes, that may be of interest in the optimization of genetic engineering of long DNA molecules.