Klebsiella pneumoniae strain:KPN_004 Genome sequencing and assembly. Klebsiella pneumoniae strain:KPN_004

Treatment of bacterial infections are become difficult day after day. This is due to increase of multi-drug resistant pathogenic strains and the matter of concern is, those MDR strains are commonly found in poultry products also. Poultry products are most consumable protein which is also considered as cheaper protein source. K. pneumonia found from different sources considered as a major pathogen causing respiratory tract infections and hospital acquired infections. Those strains are commonly found in poultry products, and they showed resistance to many different types of commonly used antibiotics. This concern influenced to conduct the present study with the aims of isolation and molecular characterization of MDR K. pneumonia from poultry chickens and further confirmed those strains as MDR through whole genome sequencing. To achieve these goals bacterial isolates were isolated from poultry chickens of small-scaled poultry firms of Noakhali region. Further from those isolates, K. pneumonia were identified by biochemical and molecular analysis which included 16s rRNA di-deoxy Sanger sequencing. MDR K. pneumonia isolates were characterized by phenotypic and genotypic detection of antibiotic resistant which included 17 different antibiotics from 12 classes and blaCTX, blaTEM, blaSHV, blaNDM, sul1, sul2, tet A, tet B, mcr1 genes. Identified K. pneumonia isolates showed resistant to most of the drugs used. MAR indices of those isolates were found from 0.94 to 0.64 which recognized those isolates as MDR. Further blaTEM, blaSHV, sul1, tet A and mcr1 gene was detected by PCR amplification. Finally whole genome sequence analysis of one K. pneumonia isolate revealed that this isolate contains K15 type capsular polysaccharides and O4 type lipopolysaccharides. Also, this isolate contains Aminoglycosides, Fluoroquinolones, Penicillin, Phenicol, Sulphonamides, Tetracycline and Trimethoprim resistant genes. Following those resistant genes this isolates contains 54 different toxic compound resistant genes. Furthermore, this strain has a close relation to ASM3051226 strain from non-human host except carbapenem resistant profiling. Two isolates are belonging from same sequencing type ST273. Core genome phylogenetic analysis also revealed that our studied strain clustered with ERR8098498 and ASM3051226 with a small difference in Carbapenem resistant profiling. Moreover, variation in ST273 cluster indicated the inter-transmission of ST273 strains between human and poultry host.