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Bioinformatics. 2018 Oct 15;34(20):3421-3426. doi: 10.1093/bioinformatics/bty376.

Recombinational DSBs-intersected genes converge on specific disease- and adaptability-related pathways.

Yang ZK1,2,3,4, Luo H1,2,3, Zhang Y4, Wang B4, Gao F1,2,3.

Author information

1
Department of Physics, School of Science, Tianjin University, Tianjin, China.
2
Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin, China.
3
SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin, China.
4
SinoGenoMax Co., Ltd./Chinese National Human Genome Center, Beijing, China.

Abstract

Motivation:

The budding yeast Saccharomyces cerevisiae is a model species powerful for studying the recombination of eukaryotes. Although many recombination studies have been performed for this species by experimental methods, the population genomic study based on bioinformatics analyses is urgently needed to greatly increase the range and accuracy of recombination detection. Here, we carry out the population genomic analysis of recombination in S.cerevisiae to reveal the potential rules between recombination and evolution in eukaryotes.

Results:

By population genomic analysis, we discover significantly more and longer recombination events in clinical strains, which indicates that adverse environmental conditions create an obviously wider range of genetic combination in response to the selective pressure. Based on the analysis of recombinational double strand breaks (DSBs)-intersected genes (RDIGs), we find that RDIGs significantly converge on specific disease- and adaptability-related pathways, indicating that recombination plays a biologically key role in the repair of DSBs related to diseases and environmental adaptability, especially the human neurological disorders. By evolutionary analysis of RDIGs, we find that the RDIGs highly prevailing in populations of yeast tend to be more evolutionarily conserved, indicating the accurate repair of DSBs in these RDIGs is critical to ensure the eukaryotic survival or fitness.

Supplementary information:

Supplementary data are available at Bioinformatics online.

PMID:
29726921
DOI:
10.1093/bioinformatics/bty376
[Indexed for MEDLINE]

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