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The genus Apilactobacillus currently includes 12 species with validly published names, the majority of which are closely associated with honeybees. A Gram-positive, facultatively anaerobic, catalase-negative and fructose-dependent strain, designated 1-1-2T, was isolated from the gut of a honeybee (Apis mellifera). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 1-1-2ᵀ represents a distinct lineage within the genus Apilactobacillus, with its closest phylogenetic neighbours being Apilactobacillus kunkeei YH-15T (99.8% sequence similarity), Apilactobacillus nanyangensis HN36-1T (99.8%) and Apilactobacillus apinorum Fhon13NT (98.8%). The complete genome of strain 1-1-2T comprised 1,596,221 bp, with a G+C content of 37.1 mol%. Pairwise comparisons of average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between strain 1-1-2T and its closest phylogenetic neighbours – A. kunkeei DSMZ 12361T, A. nanyangensis HN36-1T and A. apinorum Fhon13NT – revealed ANI values ranging from 80.1% to 93.8% and dDDH values ranging from 22.6% to 52.1%. Strain 1-1-2T can also be distinguished from its closest relatives based on phenotypic and chemotaxonomic characteristics. Accordingly, we propose that strain 1-1-2T represents a novel species within the genus Apilactobacillus, for which the name Apilactobacillus intestinapis sp. nov. is proposed, with 1-1-2T (=BCRC 81468T=NBRC 117233T) as the type strain.