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High-throughput identification of clinically important bacterial pathogens using DNA microarray

Authors
 Seung Min Yoo  ;  Sang Yup Lee  ;  Kyung Hee Chang  ;  So Young Yoo  ;  Nae Choon Yoo  ;  Ki Chang Keum  ;  Won Min Yoo  ;  June Myung Kim  ;  Jun Yong Choi 
Citation
 MOLECULAR AND CELLULAR PROBES, Vol.23(3-4) : 171-177, 2009 
Journal Title
MOLECULAR AND CELLULAR PROBES
ISSN
 0890-8508 
Issue Date
2009
MeSH
Bacteria/genetics* ; Bacteria/isolation & purification* ; Bacteria/pathogenicity ; Bacterial Infections/diagnosis* ; Bacterial Infections/microbiology* ; Communicable Diseases/microbiology ; DNA, Ribosomal Spacer/genetics ; Enterobacter cloacae/genetics ; Enterobacter cloacae/isolation & purification ; Enterobacter cloacae/pathogenicity ; Enterococcus faecium/genetics ; Enterococcus faecium/isolation & purification ; Enterococcus faecium/pathogenicity ; Humans ; Oligonucleotide Array Sequence Analysis/methods* ; Reproducibility of Results ; Sensitivity and Specificity
Keywords
DNA Microarray ; Infectious disease ; Bacterial pathogen ; Probe ; Diagnosis
Abstract
Rapid and accurate detection of pathogenic bacteria is important for the treatment of patients with suitable antibiotics. Here we report the development of a diagnostic DNA microarray for the high-throughput identification of 39 pathogenic bacteria selected based on their high prevalence rate and/or difficulty of cultivation. the 23S ribosomal DNA and 16S-23S rDNA intergenic spacer region were used as target DNAs for pathogen detection. Universal- and species-specific probes were designed based on the unique and common sites within the target DNA sequences. New target DNA sequences were determined for the detection of 19 bacterial pathogens. the usefulness of the designed probes was validated using 39 reference bacteria and also with 515 clinical isolates from various clinical samples including blood, stool, pus, sputum, urine and cerebrospinal fluid. the DNA microarray developed in this study allowed efficient detection of bacterial pathogens with the specificities of 100%. the sensitivities were 100% as well except for the two pathogens, Enterobacter cloacae (75%) and Enterococcus faecium (85%). These results suggest that the DNA microarray-based assay developed in this study outperforms current diagnostic systems with respect to sensitivity, specificity, and high-throughput detection, and thus should be useful in pathogen diagnosis in the clinical setting
Full Text
http://www.sciencedirect.com/science/article/pii/S0890850809000279
DOI
10.1016/j.mcp.2009.03.004
Appears in Collections:
1. College of Medicine (의과대학) > Dept. of Internal Medicine (내과학교실) > 1. Journal Papers
1. College of Medicine (의과대학) > Dept. of Plastic and Reconstructive Surgery (성형외과학교실) > 1. Journal Papers
1. College of Medicine (의과대학) > Dept. of Radiation Oncology (방사선종양학교실) > 1. Journal Papers
Yonsei Authors
Keum, Ki Chang(금기창) ORCID logo https://orcid.org/0000-0003-4123-7998
Kim, June Myung(김준명)
Yoo, Nae Choon(유내춘)
Yoo, Won Min(유원민)
Chang, Kyung Hee(장경희)
Choi, Jun Yong(최준용) ORCID logo https://orcid.org/0000-0002-2775-3315
URI
https://ir.ymlib.yonsei.ac.kr/handle/22282913/104409
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