Utility of DNA Microarrays for Detection of Viruses in Acute Respiratory Tract Infections in Children

Chiu, Charles Y.; Urisman, Anatoly; Greenhow, Tara L.; Rouskin, Silvi; Yagi, Shigeo; Schnurr, David; Wright, Carolyn; Drew, W. Lawrence; Wang, David; Weintrub, Peggy S.; DeRisi, Joseph L.; Ganem, Don

doi:10.1016/j.jpeds.2007.12.035

« Previous Next »The Journal of Pediatrics
Volume 153, Issue 1 , Pages 76-83.e1, July 2008

Utility of DNA Microarrays for Detection of Viruses in Acute Respiratory Tract Infections in Children

Charles Y. Chiu, MD, PhD
- Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA
- Department of Medicine, University of California San Francisco, San Francisco, CA
- Division of Infectious Diseases, University of California San Francisco, San Francisco, CA
- These authors contributed equally to this manuscript.
Anatoly Urisman, PhD
- Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA
- Department of Medicine, University of California San Francisco, San Francisco, CA
- These authors contributed equally to this manuscript.
Tara L. Greenhow, MD
- Department of Pediatric Infectious Diseases, Children's Hospital and Research Center, Oakland, CA
Silvi Rouskin, BS
- Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA
Shigeo Yagi, PhD
- Viral and Rickettsial Disease Laboratory, California Department of Health Services, Richmond, CA
David Schnurr, PhD
- Viral and Rickettsial Disease Laboratory, California Department of Health Services, Richmond, CA
Carolyn Wright, MS
- Department of Laboratory Medicine, University of California San Francisco, San Francisco, CA
W. Lawrence Drew, MD, PhD
- Department of Laboratory Medicine, University of California San Francisco, San Francisco, CA
- Department of Medicine, University of California San Francisco, San Francisco, CA
- Division of Infectious Diseases, University of California San Francisco, San Francisco, CA
David Wang, PhD
- Departments of Microbiology and Pathology and Immunology, Washington University, St. Louis, MO.
Peggy S. Weintrub, MD
- Department of Pediatrics, University of California San Francisco, San Francisco, CA
- Division of Infectious Diseases, University of California San Francisco, San Francisco, CA
Joseph L. DeRisi, PhD
- Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA
- Department of Medicine, University of California San Francisco, San Francisco, CA
- Howard Hughes Medical Institute, University of California San Francisco, San Francisco, CA
Don Ganem, MD, PhD
- Department of Microbiology, University of California San Francisco, San Francisco, CA
- Department of Medicine, University of California San Francisco, San Francisco, CA
- Division of Infectious Diseases, University of California San Francisco, San Francisco, CA
- Howard Hughes Medical Institute, University of California San Francisco, San Francisco, CA
- Reprint requests: Dr Don Ganem, Medicine/Microbiology and Immunology, University of California San Francisco, 513 Parnassus Ave, Room HSW 1522, Box 0552, San Francisco, CA 94143.

Received 13 August 2007; received in revised form 9 November 2007; accepted 18 December 2007. published online 10 March 2008.

Objective

To assess the utility of a panviral DNA microarray platform (Virochip) in the detection of viruses associated with pediatric respiratory tract infections (RTIs).

Study design

The Virochip was compared with conventional direct fluorescent antibody (DFA)- and polymerase chain reaction (PCR)-based testing for the detection of respiratory viruses in 278 consecutive nasopharyngeal aspirate samples from 222 children.

Results

The Virochip was superior in performance to DFA, showing a 19% increase in the detection of 7 respiratory viruses included in standard DFA panels, and was similar to virus-specific PCR (sensitivity, 85% to 90%; specificity, ≥99%; positive predictive value, 94% to 96%; negative predictive value, 97% to 98%) in the detection of respiratory syncytial virus, influenza A, and rhinoviruses/enteroviruses. The Virochip also detected viruses not routinely tested for or missed by DFA and PCR, as well as double infections and infections in critically ill patients that DFA failed to detect.

Conclusions

Given its favorable sensitivity and specificity profile and expanded spectrum for detection, microarray-based viral testing holds promise for clinical diagnosis of pediatric RTIs.

Abbreviations: AdV, Adenovirus, CoV, Coronavirus, DFA, Direct fluorescent antibody, EV, Enterovirus, FluA/B, Influenza A/B, HMPV, Human metapneumovirus, HPIV, Human parainfluenza virus, NPA, Nasopharyngeal aspirate, PCR, Polymerase chain reaction, RSV, Respiratory syncytial virus, RT, Reverse-transcriptase, RTI, Respiratory tract infection, RV, Rhinovirus, UCSF, University of California San Francisco

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Supported by a Genentech Graduate Fellowship (A.U.) and grants from the Glaser Pediatric Network (T.G.), the Sandler Program for Asthma Research (J.D.), the Howard Hughes Medical Institute (J.D. and D.G.), and the Doris Duke Charitable Foundation (C.C., J.D., and D.G.).

Supplemental information on the output of the E-Predict analysis is available from the authors upon request.

PII: S0022-3476(07)01189-4

doi:10.1016/j.jpeds.2007.12.035

« Previous Next »The Journal of Pediatrics
Volume 153, Issue 1 , Pages 76-83.e1, July 2008

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