Analysis Of Microsatellite Distribution In Complete Ebolavirus Genomes

Microsatellite or simple sequence repeat(SSR)commonly exists in the genome.It is abundant,widely distributed,and highly polymorphic.Lots of studies have shown that as an important component of the genome,microsatellites in non-coding regions,coding regions,and intergenic regions of genes,which can affect the function of proteins,biological inheritance and gene regulation.This paper mainly involves the following two aspects.1.Analysis of Microsatellite Distribution in the Ebolavirus Genome(Chapter 2)In this chapter,36 Ebolavirus genomic sequences from four different species were selected as experimental materials.Microsatellites were extracted through IMEX,which is a online extraction software and statistical data were processed by Python.The analysis showed that Ebolavirus genome contained the most abundant dinucleotide microsatellites,followed by mononucleotide microsatellites,with a small number of nucleotide microsatellites and fewer tetranucleotide microsatellites.Pentanucleotide and hexanucleotide microsatellites were not found.In a deeper analysis,it was concluded that the content of microsatellites containing AT bases in the four species of Ebolavirus is far greater than that containing CG bases.The analysis of the microsatellites in the genome sequences of these four Ebolavirus strains helps to understand the evolution of the Ebolavirus genome,and provide reference for the studies of the mutation and pathogenic mechanism of Ebolavirus.2.Analysis the landscape of microsatellite in 64 Ebolavirus genomes.(Chapter 3)In this work,whole genomic sequences of 64 Ebolavirus isolates were selected as experimental materials.In the above work,the distributions of microsatellites in 36 Ebolaviurs genomic sequences were analyzed briefly.With Differential Calculator of Microsatellite(DCM),developed by our group,a further detailed analysis of five different species of Ebolavirus genomic sequences was performed.With R language,we can visualize the differential results and plot the distributions of the microsatellites in different regions of the Ebolavirus genome,and detect the regions where the microsatellite distributions were specific,then locate the corresponding specific sites.The analysis showed that microsatellites were non-randomly distributed in different regions of the genome and that their distributions on the viral genome were region-specific,and the distributions of microsatellites in some genomic regions of different pathogenic types of Ebolavirus showed difference.The distributions of microsatellites in 5 Ebolavirus genomes may reflect the adaptability of different species to thier environments.Therefore,we can find species-specific fragments by analyzing the distributional of microsatellites,and explore the impact of microsatellite sequences on the genome variation and evolution of Ebolavirus.