LAPSE:2020.0105
Published Article
LAPSE:2020.0105
An Analysis of Antimicrobial Resistance of Clinical Pathogens from Historical Samples for Six Countries
Karen Li, Joanna Zheng, Thomas Deng, James Peng, Dagmar Daniel, Qian Jia, Zuyi Huang
January 19, 2020
The spread of antimicrobial resistance pathogens in humans has increasingly become an issue that threatens public health. While the NCBI Pathogen Detection Isolates Browser (NPDIB) database has been collecting clinical isolate samples over time for various countries, few studies have been done to identify genes and pathogens responsible for the antimicrobial resistance in clinical settings. This study conducted the first multivariate statistical analysis of the high-dimensional historical data from the NPDIB database for six different countries from majorly inhabited landmasses, including Australia, Brazil, China, South Africa, the UK, and the US. The similarities among different countries in terms of genes and pathogens were investigated to understand the potential avenues for antimicrobial-resistance gene spreading. The genes and pathogens that were closely involved in antimicrobial resistance were further studied temporally by plotting time profiles of their frequency to evaluate the trend of antimicrobial resistance. It was found that several of these significant genes (i.e., aph(3″)-Ib, aph(6)-Id, blaTEM-1, and qacEdelta1) are shared among all six countries studied. Based on the time profiles, a large number of genes and pathogens showed an increasing occurrence. The most shared pathogens responsible for carrying the most important genes in the six countries in the clinical setting were Acinetobacter baumannii, E. coli and Shigella, Klebsiella pneumoniae and Salmonella enterica. South Africa carried the least similar antimicrobial genes to the other countries in clinical isolates.
Keywords
antimicrobial resistance, clinical pathogens, data analysis, hierarchical clustering, principal component analysis
Subject
Suggested Citation
Li K, Zheng J, Deng T, Peng J, Daniel D, Jia Q, Huang Z. An Analysis of Antimicrobial Resistance of Clinical Pathogens from Historical Samples for Six Countries. (2020). LAPSE:2020.0105
Author Affiliations
Li K: Department of Chemical Engineering, Villanova University, Villanova, PA 19085, USA
Zheng J: Department of Chemical Engineering, Villanova University, Villanova, PA 19085, USA
Deng T: Department of Chemical Engineering, Villanova University, Villanova, PA 19085, USA
Peng J: Department of Chemical Engineering, Villanova University, Villanova, PA 19085, USA
Daniel D: Department of Chemical Engineering, Villanova University, Villanova, PA 19085, USA
Jia Q: Department of Health, Nutrition & Exercise Sciences, Immaculata University, Immaculata, PA 19345, USA
Huang Z: Department of Chemical Engineering, Villanova University, Villanova, PA 19085, USA
Journal Name
Processes
Volume
7
Issue
12
Article Number
E964
Year
2019
Publication Date
2019-12-17
Published Version
ISSN
2227-9717
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Original Submission
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PII: pr7120964, Publication Type: Journal Article
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LAPSE:2020.0105
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doi:10.3390/pr7120964
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Jan 19, 2020
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CC BY 4.0
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Jan 19, 2020
 
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Calvin Tsay
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