Conserved microsatellites may contribute to stem-loop structures in 5′, 3′ terminals of Ebolavirus genomes

Abstract

a b s t r a c tMicrosatellites (SSRs) are ubiquitous in coding and non-coding regions of the Ebolavirus genomes. We synthetically analyzed the microsatellites in whole-genome and terminal regions of 219 Ebolavirus genomes from five species. The Ebolavirus sequences were observed with small intraspecies variations and large interspecific variations, especially in the terminal non-coding regions. Only five conserved microsatellites were detected in the complete genomes, and four of them which well base-paired to help forming conserved stem-loop structures mainly appeared in the terminal non-coding regions. These results suggest that the conserved microsatellites may be evolutionary selected to form conserved secondary structures in 5 0 , 3 0 terminals of Ebolavirus genomes. It may help to understand the biological significance of microsatellites in Ebolavirus and also other virus genomes.

Genome-wide identification and characterization of microsatellite markers within the Avipoxviruses

“…Since the past decade, using the in-silico approach, molecular markers in many familiar viruses have been extensively analyzed. These include human immunodeficiency virus (Chen et al 2009), ebolavirus (Li et al 2019), human papillomavirus (Singh et al 2014) as well as their application within ostreid herpesvirus 1 (Segarra et al 2010), herpes simplex virus type 1 (Deback et al 2010), alpha herpesviruses (Szpara et al 2011), herpes simplex virus 2 (Burrel et al 2013), salmon gill poxvirus (Gulla et al 2020). This motivated us to perform in-depth in-silico analysis followed by subsequent validation of these markers through a comparative genomics approach within APV, for the first time.…”

“…Two microsatellites lying close to one another may lead to the generation of the compound microsatellites (Bull et al 1999). The SSRs govern some vital role in the genome, such as recombination during meiosis (Gendrel et al 2000), species evolution (Saeed et al 2016), mapping of the genome (Sahoo et al 2015), viral strains demarcation (Burrel et al 2013;Deback et al 2009), formation of secondary structure (Li et al 2019) and population genetics analysis (Sahu et al 2014). Evidence suggests that these microsatellites are well presented in the various viral genomes.…”