Intrinsic laws of k-mer spectra of genome sequences and evolution mechanism of genomes
| Autor: | Xiaolong Li, Zhenhua Yang, Yun Jia, Hu Meng, Liaofu Luo, Hong Li, Yan Zheng, Tonglaga Bao |
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| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
Genome evolution Evolution mechanism of genomes K-mer spectra Genome DNA sequencing Evolution Molecular 03 medical and health sciences Animals Selection Genetic Ecology Evolution Behavior and Systematics Selection (genetic algorithm) Independent selection law Sequence (medicine) Whole genome sequencing Base Composition 030102 biochemistry & molecular biology biology Eukaryota Prokaryote biology.organism_classification 030104 developmental biology Prokaryotic Cells k-mer Law Genome sequence Evolution modes of prokaryotes Research Article |
| Zdroj: | BMC Evolutionary Biology |
| ISSN: | 1471-2148 |
| Popis: | Background K-mer spectra of DNA sequences contain important information about sequence composition and sequence evolution. We want to reveal the evolution rules of genome sequences by studying the k-mer spectra of genome sequences. Results The intrinsic laws of k-mer spectra of 920 genome sequences from primate to prokaryote were analyzed. We found that there are two types of evolution selection modes in genome sequences, named as CG Independent Selection and TA Independent Selection. There is a mutual inhibition relationship between CG and TA independent selections. We found that the intensity of CG and TA independent selections correlates closely with genome evolution and G + C content of genome sequences. The living habits of species are related closely to the independent selection modes adopted by species genomes. Consequently, we proposed an evolution mechanism of genomes in which the genome evolution is determined by the intensities of the CG and TA independent selections and the mutual inhibition relationship. Besides, by the evolution mechanism of genomes, we speculated the evolution modes of prokaryotes in mild and extreme environments in the anaerobic age and the evolving process of prokaryotes from anaerobic to aerobic environment on earth as well as the originations of different eukaryotes. Conclusion We found that there are two independent selection modes in genome sequences. The evolution of genome sequence is determined by the two independent selection modes and the mutual inhibition relationship between them. |
| Databáze: | OpenAIRE |
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