Detection of Coccidioides species in clinical specimens by real-time PCR

M. J. Binnicker, S. P. Buckwalter, J. J. Eisberner, R. A. Stewart, A. E. McCullough, S. L. Wohlfiel, N. L. Wengenack

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Abstract

Coccidioides spp. are dimorphic fungal pathogens endemic to the semiarid regions of North, Central, and South America. Currently, direct smear and culture are the most common means of identifying Coccidioides spp. While these methods offer relatively sensitive and specific means of detecting Coccidioides spp., growth in culture may take up to 3 weeks, potentially delaying the diagnosis and initiation of appropriate antifungal therapy. In addition, growth of the organism represents a significant safety risk to laboratory personnel. The need for a rapid and safe means of diagnosing coccidioidomycosis prompted us to develop a real-time PCR assay to detect Coccidioides spp. directly from clinical specimens. Primers and fluorescent resonance energy transfer (FRET) probes were designed to target the internal transcribed spacer 2 region of Coccidioides. The assay's limit of detection is below 50 targets per reaction. An analysis of 40 Coccidioides sp. clinical isolates grown in culture demonstrated 100% sensitivity of the assay. A cross-reactivity panel containing fungi, bacteria, mycobacteria, and viruses was tested and demonstrated 100% specificity for Coccidioides spp. An analysis of 266 respiratory specimens by LightCycler PCR demonstrated 100% sensitivity and 98.4% specificity for Coccidioides spp. compared with culture. Analysis of 66 fresh tissue specimens yielded 92.9% sensitivity and 98.1% specificity versus those of the culture method. The sensitivity of the assay testing 148 paraffin-embedded tissue samples is 73.4%. A rapid method for the detection of Coccidioides spp. directly from clinical material will greatly assist in the timely diagnosis and treatment of patients, while at the same time decreasing the risk of accidental exposure to laboratory personnel.

Original languageEnglish (US)
Pages (from-to)173-178
Number of pages6
JournalJournal of Clinical Microbiology
Volume45
Issue number1
DOIs
StatePublished - Jan 2007

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Coccidioides
Real-Time Polymerase Chain Reaction
Laboratory Personnel
Coccidioidomycosis
Central America
Sensitivity and Specificity
South America
Energy Transfer
Mycobacterium
Growth
North America
Paraffin
Limit of Detection
Fungi
Viruses
Bacteria
Safety

ASJC Scopus subject areas

  • Microbiology (medical)
  • Microbiology

Cite this

Binnicker, M. J., Buckwalter, S. P., Eisberner, J. J., Stewart, R. A., McCullough, A. E., Wohlfiel, S. L., & Wengenack, N. L. (2007). Detection of Coccidioides species in clinical specimens by real-time PCR. Journal of Clinical Microbiology, 45(1), 173-178. https://doi.org/10.1128/JCM.01776-06

Detection of Coccidioides species in clinical specimens by real-time PCR. / Binnicker, M. J.; Buckwalter, S. P.; Eisberner, J. J.; Stewart, R. A.; McCullough, A. E.; Wohlfiel, S. L.; Wengenack, N. L.

In: Journal of Clinical Microbiology, Vol. 45, No. 1, 01.2007, p. 173-178.

Research output: Contribution to journalArticle

Binnicker, MJ, Buckwalter, SP, Eisberner, JJ, Stewart, RA, McCullough, AE, Wohlfiel, SL & Wengenack, NL 2007, 'Detection of Coccidioides species in clinical specimens by real-time PCR', Journal of Clinical Microbiology, vol. 45, no. 1, pp. 173-178. https://doi.org/10.1128/JCM.01776-06
Binnicker MJ, Buckwalter SP, Eisberner JJ, Stewart RA, McCullough AE, Wohlfiel SL et al. Detection of Coccidioides species in clinical specimens by real-time PCR. Journal of Clinical Microbiology. 2007 Jan;45(1):173-178. https://doi.org/10.1128/JCM.01776-06
Binnicker, M. J. ; Buckwalter, S. P. ; Eisberner, J. J. ; Stewart, R. A. ; McCullough, A. E. ; Wohlfiel, S. L. ; Wengenack, N. L. / Detection of Coccidioides species in clinical specimens by real-time PCR. In: Journal of Clinical Microbiology. 2007 ; Vol. 45, No. 1. pp. 173-178.
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