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The pathogen is rare in most developed countries but still extremely difficult to eliminate in China. Efficient epidemiological surveillance necessitates clarifying the origin of the isolates from different regions and their phylogenic relationships. Genomic epidemiological analysis of 97\n                    <jats:italic>S<\/jats:italic>\n                    . Pullorum strains was carried out to reconstruct the phylogeny and transmission history of\n                    <jats:italic>S<\/jats:italic>\n                    . Pullorum. Further analysis demonstrated that functional gene loss and acquisition occurred simultaneously throughout the evolution of\n                    <jats:italic>S<\/jats:italic>\n                    . Pullorum, both of which reflected adaptation to the changing environment. 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