Mycobacterium smegmatis is associate degree impervious microorganism species within the phylum Actinobacteria and also the mycobacteria|bacteria genus. phyletic trees were made mistreatment sequence of core orthologs, sequence content and sequence order. it's found that the ordination based mostly ways will higher resolve the inter-species biological process distances compared to the standard 16S based tree. Biological process supported sequence order highlights distinct biological process characteristics as compared to the ways supported sequence, as illustrated by the shift within the relative position of M. abscessus. This distinction in sequence order among the eubacteria species is more investigated employing a elaborated synteny analysis. it's found that whereas rearrangements between some eubacteria genomes square measure native among synteny blocks, few possess international rearrangements across the genomes. The study illustrates however a mixture of various ordination primarily based ways is important to create a strong phyletic relationship between closely connected organisms. These observations lend support to the hypothesis that the sturdy induction of the innate immune reaction could be a major reason for the shortage of pathogenicity in aggressive mycobacteria.