Identifying and characterizing bacterial strains in metagenomic samples (shotgun sequencing)
Identifying the gene content and functional potential of new strains of a species (strain diversity). Accessory genes, present only in some strains, can encode important functions required for specific environments.
In-vivo transcriptional activity of individual strains
tracking of bacterial strain over different samples
What is a bacterial strain?
Family - Genus - Species - Strain
A strain is a low-level taxonomic rank describing genetic variants or subtypes of a species. Theoretically, a strain lineage refers to genetically identical genomes, but practically also closely related variants are considered as the same strain. With an increasing number of mutations or acquisition of new genes (HGT) a strain can evolve in an order to be considered as a different strain.