Genetic analysis of a PER-2 producing Shewanella spp. strain harboring a variety of mobile genetic elements and antibiotic resistant determinants

MARISA ALMUZARA; SABRINA MONTAÑA; TERESE LAZZARO ; SYLVIA UONG; GISELA PARMECIANO DI NOTO; GERMAN M TRAGLIA; ROMINA BAKAI; DANIELA CENTRÓN; ANDRES IRIARTE; CECILIA QUIROGA; MARÍA SOLEDAD RAMÍREZ

Journal of Global Antimicrobial Resistance

Elsevier SCIENCE BV

Año: 2017

2213-7165

ObjectiveThe goal of this work is to investigate the molecular mechanisms that explain themultidrug resistant phenotype found in a novel clinical Shewanella spp. strain(Shew256) recovered from a diabetic patient.MethodsThe whole-genome shotgun sequencing was obtained with Illumina MiSeq-I andNextera XT DNA library. De novo assembly was performed with SPADES. RAST wasused to predict the open reading frames and the predictions were confirmed usingBLAST. Further genomic analysis was carried out using average nucleotide identity(ANI), ACT (Artemis), OrthoMCL, ARG-ANNOT, ISFinder, PHAST, tRNAscan-SE,plasmidSPAdes, PlasmidFinder and MAUVE. PCR reactions and plasmid extractionwere also performed.ResultsThe genomic analysis revealed a total of 456 predicted genes, which are unique toShew256 when compared with the other Shewanella genomes. Moreover, the presenceof different resistance genes, including the presence of a bla PER-2 , were found. A complexclass 1 integron containing the ISCR1 gene, disrupted by two putative transposasegenes were identified. Furthermore, other resistance genes, a transposon containingaph(3?), insertion sequences, phages, and non-coding RNAs were also found.ConclusionEvidences of acquisition of resistance genes and mobile elements that could explain themultidrug resistance phenotype were observed. This Shewanella species represents aprime example of how antibiotic resistance determinants can be acquired by uncommonpathogens.