Here, we report the draft genome sequence of Wohlfahrtiimonas chitiniclastica strain 20, isolated from a chicken carcass originated from indoor broiler farming and identified using matrix-assisted laser desorption ionization–time of flight (MALDI-TOF) mass spectrometry followed by sequencing of the 16S rRNA gene.

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We report the draft genome sequences of two commensal Enterococcus faecalis strains (designated Ca-2 and Ca-18) recovered from the cloacae of two healthy American black vultures ( Coragyps atratus ) in Rio de Janeiro, Brazil. The strains were found to carry a variety of antimicrobial resistance and virulence-associated genes.

Here, we present the draft genome sequence of Enterococcus faecium strain E1298, a representative of the clonal complex 17 (CC17), identified as sequence type 1274 (ST1274) and resistant to multiple classes of antimicrobials, isolated from the cloaca of a tropical screech owl (Megascops choliba) in Rio de Janeiro, Brazil.

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Enterococcal high-level resistance to streptomycin (HLR-S) (MIC ≥ 2000 µg/ml), conferred by production of a variety of aminoglycoside modifying enzymes (AMES), has been reported worldwide and a nucleotidyltransferase (ANT) enzyme encoded by the ant(6’)-Ia gene is frequently associated with this phenotype. However, during a study conducted by our group on whole genome sequencing (WGS) analyses of Enterococcus faecium isolates, we observed that 32 E. faecium strains identified as susceptible to high-levels of streptomycin by the disk diffusion method had the of ant(6’)-Ia gene annotated in their genomes. Antimicrobial susceptibility to streptomycin was reassessed by phenotypic testing and the presence of the ant(6’)-Ia gene was confirmed by PCR in all the isolates. Alignment of the ant(6’)-Ia gene with a reference sequence revealed a deletion of the first 48 nucleotides and four nonsynonymous mutations, leading to the substitution of a Glutamine to Methionine and an Aspartic Acid to Asparagine in the amino acid sequence. The protein structure was modelled by using the Phyre2 platform and the results indicated alterations in the N-terminus region leading to changes in the predicted binding site. Also, by searching the NCBI database we identified the genomes of 71 strains carrying the mutated gene. MLST analysis revealed that most strains carrying the mutated gene, including those described in this study belonged to hospital-adapted lineages, suggesting the occurrence of clonal dissemination of a subset of mutated isolates.HIGHLIGHTSThe presence of a mutated ant(6’)-Ia gene was identified among Enterococcus faecium isolates expressing phenotypic susceptibility to high levels of streptomycin.Nonsynonymous mutations and inactivating changes in the ant(6’)-Ia gene led to incongruities between phenotypes and genotypes.Alterations in the amino acid sequence had impacts on protein structure, with changes in the N-terminus region and the binding site.