Shannon information in complete genomes.

Proceedings. IEEE Computational Systems Bioinformatics Conference Pub Date : 2004-01-01 DOI:10.1109/csb.2004.1332413

Chang-Heng Chang, Li-Ching Hsieh, Ta-Yuan Chen, Hong-Da Chen, Liaofu Luo, Hoong-Chien Lee

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Abstract

Shannon information in the genomes of all completely sequenced prokaryotes and eukaryotes are measured in word lengths of two to ten letters. It is found that in a scale-dependent way, the Shannon information in complete genomes are much greater than that in matching random sequences - thousands of times greater in the case of short words. Furthermore, with the exception of the 14 chromosomes of Plasmodium falciparum, the Shannon information in all available complete genomes belong to a universality class given by an extremely simple formula. The data are consistent with a model for genome growth composed of two main ingredients: random segmental duplications that increase the Shannon information in a scale-independent way, and random point mutations that preferentially reduces the larger-scale Shannon information. The inference drawn from the present study is that the large-scale and coarse-grained growth of genomes was selectively neutral and this suggests an independent corroboration of Kimura's neutral theory of evolution.

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完整基因组中的香农信息。

所有完全测序的原核生物和真核生物基因组中的香农信息以2到10个字母的单词长度来测量。研究发现，在一个尺度依赖的方式下，完整基因组中的香农信息比匹配随机序列中的香农信息要大得多——在短单词的情况下，香农信息要大几千倍。此外，除了恶性疟原虫的14条染色体外，所有可用的完整基因组中的香农信息都属于由一个极其简单的公式给出的普适类。这些数据与基因组生长模型一致，该模型由两个主要成分组成:随机片段重复以不依赖于尺度的方式增加香农信息，随机点突变优先减少更大规模的香农信息。从本研究中得出的结论是，基因组的大规模和粗粒度生长是选择性中性的，这表明木村的中性进化理论得到了独立的证实。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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Proceedings. IEEE Computational Systems Bioinformatics Conference

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