SHANNON INFORMATION IN COMPLETE GENOMES-Reference-Cited by-同舟云学术

SHANNON INFORMATION IN COMPLETE GENOMES

Published:2005-06 Issue:03 Volume:03 Page:587-608
ISSN:0219-7200
Container-title:Journal of Bioinformatics and Computational Biology
language:en
Short-container-title:J. Bioinform. Comput. Biol.

Author:

CHANG CHANG-HENG¹,HSIEH LI-CHING¹²,CHEN TA-YUAN¹,CHEN HONG-DA¹,LUO LIAOFU³,LEE HOONG-CHIEN¹⁴⁵

Affiliation:

1. Department of Physics and National Central University, Chungli, Taiwan, ROC

2. Department of Ecology and Evolution, University of Chicago, Chicago, ILL 60637, USA

3. Physics Department, Inner Mongolia University, Hohot, China

4. Department of Life Sciences, National Central University, Chungli, Taiwan, ROC

5. National Center for Theoretical Sciences, Hsinchu, Taiwan, ROC

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.

Publisher

World Scientific Pub Co Pte Lt

Subject

Computer Science Applications,Molecular Biology,Biochemistry

Link

https://www.worldscientific.com/doi/pdf/10.1142/S0219720005001181

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