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Background   Shewanella  strains are important dissimilatory metal-reducing bacteria which are widely distributed in diverse habitats. Despite efforts to genomically characterize  Shewanella , knowledge of the molecular components, functional information and evolutionary patterns remain lacking, especially for their compatibility in the metal-reducing pathway. The increasing number of genome sequences of  Shewanella  strains offers a basis for pan-genome studies.    Results  A comparative pan-genome analysis was conducted to study genomic diversity and evolutionary relationships among 24  Shewanella  strains. Results revealed an open pan-genome of 13,406 non-redundant genes and a core-genome of 1878 non-redundant genes. Selective pressure acted on the invariant members of core genome, in which purifying selection drove evolution in the housekeeping mechanisms.  Shewanella  strains exhibited extensive genome variability, with high levels of gene gain and loss during the evolution, which affected variable gene sets and facilitated the rapid evolution. Additionally, genes related to metal reduction were diversely distributed in  Shewanella  strains and evolved under purifying selection, which highlighted the basic conserved functionality and specificity of respiratory systems.    Conclusions  The diversity of genes present in the accessory and specific genomes of  Shewanella  strains indicates that each strain uses different strategies to adapt to diverse environments. Horizontal gene transfer is an important evolutionary force in shaping  Shewanella  genomes. Purifying selection plays an important role in the stability of the core-genome and also drives evolution in  mtr – omc  cluster of different  Shewanella  strains.    Electronic supplementary material  The online version of this article (10.1186/s13068-018-1201-1) contains supplementary material, which is available to authorized users.

Pan-genome analyses of 24 Shewanella strains re-emphasize the diversification of their functions yet evolutionary dynamics of metal-reducing pathway