Open AccessComparing conventional, biochemical and genotypic methods for accurate identification of Klebsiella pneumoniae in Sudan
Author(s) -
Einas A. Osman,
Nagwa El Amin,
Emad A. E. Adrees,
Leena Al-Hassan,
Maowia M. Mukhtar
Publication year - 2020
Publication title -
access microbiology
Language(s) - English
Resource type - Journals
ISSN - 2516-8290
DOI - 10.1099/acmi.0.000096
Subject(s) - klebsiella pneumoniae , rpob , klebsiella pneumonia , microbiology and biotechnology , genotype , biology , pneumonia , identification (biology) , antibiotic resistance , klebsiella , streptococcus pneumoniae , antibiotics , medicine , 16s ribosomal rna , bacteria , gene , genetics , pseudomonas aeruginosa , escherichia coli , botany
Klebsiella pneumoniaeis recognized as one of the most important healthcare-associated pathogens worldwide due to its tendency to develop antibiotic resistance and cause fatal outcomes. Bacterial identification methods such as culture and biochemical tests are routinely used with limited accuracy in many low- and middle-income countries, including Sudan. The aim of this study was to test the accuracy of identification ofK. pneumoniaein Khartoum, Sudan. Two hundred and fiftyK. pneumoniaeisolates were collected and identified using conventional phenotypic methods, biochemically using API 20E and genotypically by amplification of 16S−23S rDNA and sequencing of rpoB , gapA and pgi . Only 139 (55.6 %) of the isolates were confirmed asK. pneumoniaegenotypically by PCR and 44.4 % were identified as non- K. pneumoniae . The results demonstrate that the identification panels used by the hospitals were inaccurately identifying K. pneumonia and led to overestimation of the prevalence of this organism. The current identification methods used in Khartoum hospitals are highly inaccurate, and therefore we recommend the use of a comprehensive biochemical panel or molecular methods, when possible, for accurate identification ofK. pneumoniae .