In silico genomic analysis of Saccharothrix algeriensis DSM 44581

Abstract

This study aims to perform a genomic analysis of the whole genome of an actinobacterial strain isolated from a Saharan region of Algeria. The study allow us identify specific genes that play an important role in enhancing plant growth and providing protection against disease-causing agents. In this study, an actinobacterial strain called Saccharothrix algeriensis DSM 44581 isolated from a soil sample collected from palm grove in Adrar province, Algeria. The genomic classification analysis was conducted on the TYGS digital platform (16S RNA) and phylogenomic (whole genome). The general features analyses are conducted in DFAST, including the total length genome, GC % and CODs. Genomics analysis of this strain focused on studying genes associated with functional gene categories (COGs), this analysis involved genetic annotation using the RAST server and BV-BRC for circular genome view, followed by gene prediction using the Prokka program in GALAXY to identify genes involved in mechanisms that promote plant growth. In addition, the antiSMASH involved genes related to the reduction of stress, such as ACC-deaminase and various forms of osmoprotection such as glutathione, as well as several siderophores (YecD and YclQ), were also emphasized. Genes such as DhbC and RecX are involved in the biosynthesis of plant growth substances. The strain exhibits exceptional adaptation to extremely salty settings. In addition, we have identified numerous genes that may be linked to multiple enzymatic antioxidant processes. These mechanisms can reduce the excessive formation of reactive oxygen species caused by salt stress. Genes involved in VOCs production/degradation (e.g IlvB1 and AcuC), Quorum sensing (SsgB, kDa and Soj) and phytohormones production/modulation (e.g PotB, PuuP and gabT) were reported. The comparison studies of summary statistics in the Roary program (GALAXY) confirmed the results of phylogenetic and phylogenomic studies. The extensive results demonstrate that strain S. algeriensis DSM 44581 holds significant importance as a highly promising choice for enhancing plant development and in biotechnological applications.