Genomic characterisation of an extended-spectrum β-Lactamase- producing Klebsiella pneumoniae isolate assigned to a novel sequence type (6914)

Abstract

Abstract Background Cow milk which is sometimes consumed raw host a plethora of microorganisms of beneficial or food safety concern. The draft genome of an extended-spectrum β-Lactamase-producing Klebsiella pneumoniae subsp. pneumoniae strain Cow102, isolated from cow milk used for production of traditional foods in Nigeria, is reported. Result The genome has a total length of 5,359,907 bp with 70 contigs and GC content of 57.35%. A total of 5,244 protein coding sequences were detected with 31% mapped to a subsystem, and genes coding for amino acids and derivatives being the most prevalent. Multilocus sequence typing revealed that the strain had new allelic profile assigned to the novel 6914 sequence type possessing capsular and lipopolysaccharide antigen K locus 122 with an unknown K type (KL122) and O locus O1/O2v2 with type O2afg, respectively. A total of 28 resistance-related genes, 98 virulence-related genes, two plasmids and five phages were identified in the genome. Comparative analysis indicated translocation was the most common structural rearrangements in the genome. Conclusion Whole-genome sequencing and bioinformatics analysis revealed new allelic profile, structural rearrangements, virulence and drug resistance factors in the genome, however, further studies are required to characterize the capsular K type oof Cow102.