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Background  Evidence based on genomic sequences is extremely important to confirm the phylogenetic relationships within the  Rhizobium  group. SEMIA3007 was analyzed within the  Mesorhizobium  groups to define the underlying causes of taxonomic identification. We previously used biochemical tests and phenotypic taxonomic methods to identify bacteria, which can lead to erroneous classification. An improved understanding of bacterial strains such as the  Mesorhizobium  genus would increase our knowledge of classification and evolution of these species.    Results  In this study, we sequenced the complete genome of SEMIA3007 and compared it with five other  Mesorhizobium  and two  Rhizobium  genomes. The genomes of isolated SEMIA3007 showed several orthologs with  M. huakuii ,  M. erdmanii  and  M. loti . We identified SEMIA3007 as a  Mesorhizobium  by comparing the 16S rRNA gene and the complete genome.    Conclusion  Our ortholog, 16S rRNA gene and average nucleotide identity values (ANI) analysis all demonstrate SEMIA3007 is not  Rhizobium leguminosarum  bv. v iceae . The results of the phylogenetic analysis clearly show SEMIA3007 is part of the  Mesorhizobium  group and suggest a reclassification is warranted.    Electronic supplementary material  The online version of this article (doi:10.1186/s12866-016-0882-5) contains supplementary material, which is available to authorized users.

Reclassification of the taxonomic status of SEMIA3007 isolated in Mexico B-11A Mex as Rhizobium leguminosarum bv. viceae by bioinformatic tools