Metagenomic Profiling of Soil Microbes to Mine Salt Stress Tolerance Genes

Vasim Ahmed, Manoj K. Verma, Shashank Gupta, Vibha Mandhan, Nar S. Chauhan

Osmotolerance is one of the critical factors for successful survival and colonization of microbes in saline environments. Nonetheless, information about these osmotolerance mechanisms is still inadequate. Exploration of the saline soil microbiome for its community structure and novel genetic elements is likely to provide information on the mechanisms involved in osmoadaptation. The present study explores the saline soil microbiome for its native structure and novel genetic elements involved in osmoadaptation. 16S rRNA gene sequence analysis has indicated the dominance of halophilic/halotolerant phylotypes affiliated toProteobacteria, Actinobacteria, Gemmatimonadetes, Bacteroidetes, Firmicutes, andAcidobacteria. A functional metagenomics approach led to the identification of osmotolerant clones SSR1, SSR4, SSR6, SSR2 harboringBCAA_ABCtp, GSDH, STK_Pknb, andduf3445genes. Furthermore, transposon mutagenesis, genetic, physiological and functional studies in close association has confirmed the role of these genes in osmotolerance. Enhancement in host osmotolerance possibly though the cytosolic accumulation of amino acids, reducing equivalents and osmolytes involvingBCAA-ABCtp, GSDH, andSTKc_PknB. Decoding of the genetic elements prevalent within these microbes can be exploited either as such for ameliorating soils or their genetically modified forms can assist crops to resist and survive in saline environment.