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Objectives  Aeromonads cause severe diseases in farmed aquatic organisms. Herein, we examined 28 isolates causing disease in farmed aquatic organisms from India (n = 24) and Taiwan (n = 4) to gain insight of their genotypic and phenotypic properties.    Results  API 20NE biochemical phenotyping showed ≥ 90% similarity classifying all isolates as  Aeromonas hydrophila . 16S rRNA genotyping showed ≥ 98% homology among all isolates with  A. sobria  (NR119044.1ATCC),  A .  veronii  (MK990549.1),  A. caviae  (NR029252.1) and  A. hydrophila  (MG984625.1ATCC) and other reference strains. In contrast,  gyrB  showed a higher intraspecies diversity (≥ 96%) than 16S rRNA delineating the 28 isolates into three groups. Group-I consisted of seven Indian isolates clustered with  A. sobria  (MK484163.1ATCC), group-II comprised of five Indian and two Taiwanese isolates clustered with  A. veronii  AF417626.1ATCC while group-III had 11 Indian and three Taiwanese isolates grouped with  A. hydrophila  (AY987520.1 and DQ519366.1) reference strains. None of our isolates clustered with  A. caviae  (AJ868400.1ATCC) reference strain. These findings suggest that  A. sobria ,  A. veronii  and  A. hydrophila  could be the etiological agents of diseases observed in farmed fish and soft-shelled turtles ( Pelodiscus sinensis ) examined in this study. Overall, our findings accentuate the importance of combining phenotyping with genotyping for correct taxonomic classification of  Aeromonas  spp. in Aquaculture.    Supplementary Information  The online version contains supplementary material available at 10.1186/s13104-021-05716-3.

Aeromonas species obtained from different farmed aquatic species in India and Taiwan show high phenotypic relatedness despite species diversity