Detection of typhoidal and paratyphoidal salmonella in blood by real-time polymerase chain reaction

Sharon M. Tennant, Deanna Toema, Farah Qamar, Najeeha Iqbal, Mary Adetinuke Boyd, Joanna M. Marshall, William C. Blackwelder, Yukun Wu, Farheen Quadri, Asia Khan, Fatima Aziz, Kumail Ahmad, Adil Kalam, Ehtisham Asif, Shahida Qureshi, Erum Khan, Anita K. Zaidi, Myron M. Levine

Research output: Contribution to journalArticlepeer-review

34 Citations (Scopus)


Background. The gold standard for diagnosis of enteric fever caused by Salmonella Typhi or Salmonella Paratyphi A or B is bone marrow culture. However, because bone marrow aspiration is highly invasive, many hospitals and large health centers perform blood culture instead. As blood culture has several limitations, there is a need for novel typhoid diagnostics with improved sensitivity and more rapid time to detection. Methods. We developed a clyA-based real-time polymerase chain reaction (qPCR) method to detect Salmonella Typhi and Salmonella Paratyphi A simultaneously in blood. The sensitivity and specificity of this probeset was first evaluated in vitro in the laboratory and then in a typhoid-endemic population, in Karachi, Pakistan, and in healthy US volunteers. Results. We optimized a DNA extraction and real-time PCR-based method that could reliably detect 1 colony-forming unit/mL of Salmonella Typhi. The probe set was able to detect clinical Salmonella Typhi and Salmonella Paratyphi A strains and also diarrheagenic Escherichia coli, but not invasive E. coli or other invasive bacteria. In the field, the clyA qPCR diagnostic was 40% as sensitive as blood culture. However, when qPCR-positive specimens were considered to be true positives, blood culture only exhibited 28.57% sensitivity. Specificity was ≥90% for all comparisons and in the healthy US volunteers. qPCR was significantly faster than blood culture in terms of detection of typhoid and paratyphoid. Conclusions. Based on lessons learned, we recommend that future field trials of this and other novel diagnostics that detect typhoidal and nontyphoidal Salmonella employ multiple methodologies to define a "positive" sample.

Original languageEnglish
Pages (from-to)S241-S250
JournalClinical Infectious Diseases
Publication statusPublished - 1 Nov 2015


  • PCR
  • Salmonella
  • blood
  • diagnostic
  • typhoid


Dive into the research topics of 'Detection of typhoidal and paratyphoidal salmonella in blood by real-time polymerase chain reaction'. Together they form a unique fingerprint.

Cite this