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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
medicine
Genotyping of measles virus in clinical specimens on the basis of oligonucleotide microarray hybridization patterns
Journal of Clinical Microbiology, Volume 44, No. 10, Year 2006
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Description
An oligonucleotide microarray hybridization method for identification of most known measles virus (MV) genotypes was developed. Like the conventional genotyping method, the microarray relied on detecting sequence differences in the 450-nucleotide region coding for the COOH-terminal 150 amino acids of the nucleoprotein (N). This region was amplified using PCR primers binding to all known MV genotypes. The microarray included 71 pairs of oligonucleotide probes (oligoprobes) immobilized on glass slides. Each pair consisted of a genotype-specific oligoprobe, which matched the sequence of only one target genotype, and a control oligoprobe, which contained mismatches at the nucleotide positions unique to this genotype. A pattern recognition algorithm based on cluster analysis of the ratios of hybridization signals from specific and control oligoprobes was used to identify the specific MV genotype. Following the initial validation, the method was used for rapid genotyping of two panels of coded samples. The results of this study showed good sensitivity (90.7%), specificity (100%), and genotype agreement (91.8%) for the new method compared to the results of genotyping conducted using phylogenetic analysis of viral sequences of the C terminus of the N gene. In addition, the microarray demonstrated the ability to identify potential new genotypes of MV based on the similarity of their hybridization patterns with those of known MV genotypes. Copyright © 2006, American Society for Microbiology. All Rights Reserved.
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC1594792/bin/jcm_44_10_3752__index.html
https://efashare.b-cdn.net/share/pmc/articles/PMC1594792/bin/jcm_44_10_3752__Supplemental_material.doc
Authors & Co-Authors
Neverov, Alexander A.
United States, Bethesda
Fda Center for Biologics Evaluation and Research
Russian Federation, Koltsovo
State Research Center of Virology and Biotechnology Vector
United States, Silver Spring
Food and Drug Administration
Riddell, Michaela A.
United States, Baltimore
Johns Hopkins Bloomberg School of Public Health
Australia
Victorian Infectious Diseases Reference Laboratory
Moss, William John
United States, Baltimore
Johns Hopkins Bloomberg School of Public Health
Volokhov, Dmitriy V.
United States, Bethesda
Fda Center for Biologics Evaluation and Research
Rota, Paul A.
United States, Atlanta
Centers for Disease Control and Prevention
Lowe, Luis E.
United States, Atlanta
Centers for Disease Control and Prevention
Chibo, Doris
Australia
Victorian Infectious Diseases Reference Laboratory
Smit, Sheilagh Brigitte
South Africa, Johannesburg
National Institute for Communicable Diseases
Griffin, Diane E.
United States, Baltimore
Johns Hopkins Bloomberg School of Public Health
Chumakov, Konstantin M.
United States, Bethesda
Fda Center for Biologics Evaluation and Research
Chizhikov, Vladimir E.
United States, Bethesda
Fda Center for Biologics Evaluation and Research
Statistics
Citations: 25
Authors: 11
Affiliations: 7
Identifiers
Doi:
10.1128/JCM.00998-06
ISSN:
00951137
Research Areas
Genetics And Genomics
Infectious Diseases