Acute hepatopancreatic necrosis disease (AHPND) was first reported in China in 2009 and afterwards in Mexico in 2013. AHPND is caused by Vibrio parahaemolyticus and affects Penaeus monodon and Litopenaeus vannamei shrimp cultures. The bacterium contains the pirA‐ and pirB‐like genes in 69‐ to 70‐Kb plasmids, which encode the toxins that produce the disease. The aim of this study was to determine whether pirA‐ and pirB‐like genes existed in bacterial genera distinct from Vibrio before the first cases of AHPND were documented in Mexico. Two bacterial isolates were selected from shrimp farms in Nayarit in 2006 and analysed by nested‐PCR to determine the presence of pirA‐ and pirB‐like genes. The two isolates chosen did indeed show the presence of these genes, and those findings were confirmed by sequencing. Both strains matched to the bacterial species Micrococcus luteus. Results revealed two important situations: (a) the pirA‐ and pirB‐like genes were present in a bacterial species that has not been reported previously (Micrococcus luteus); and (b) pirA‐ and pirB‐like bacterial genes were present in Mexico before the first AHPND outbreak was reported in China.