Pertussis, also known as whooping cough, is an acute infectious disease caused by the Bordetella pertussis bacterium. In babies and young children, pertussis is especially dangerous and can result in potentially deadly complications such as pneumonia, apnea, and encephalopathy. The CDC recommends vaccination against whooping cough for young children, preteens, pregnant women, and unvaccinated adults. The protective power of a pertussis vaccine fades over time, so being up-to-date with vaccination is important, particularly for families and caregivers of new babies. The early diagnosis and treatment of pertussis are extremely important to limit disease spread. Laboratory tests such as polymerase chain reaction (PCR), culture, and serology can detect the presence of the B. pertussis bacterium. These tests are highly dependent on the time that has elapsed since initial infection, so the testing strategy should be developed in reference to the time of disease onset. The CDC-recommended laboratory tests for pertussis diagnosis are blood culture and PCR, but serology may be appropriate for late-stage pertussis.
Quick Answers for Clinicians
Early diagnosis and treatment of pertussis (whooping cough) limit its spread to other susceptible people. According to the most recent case definition for pertussis, a positive culture or polymerase chain reaction (PCR) laboratory result is a required criterion for diagnosis. Laboratory testing enables the collection of accurate surveillance data to assess the impact of pertussis and monitor changes in its epidemiology over time. The CDC recommends testing for patients with both high and low suspicion of pertussis for this reason. It is important to note that clinicians should not delay prophylactic treatment for close contacts, especially pregnant women and infants, pending laboratory test results.
A posterior nasopharyngeal (NP) swab or aspirate should be obtained from all persons with a suspected case of pertussis (whooping cough). A posterior NP swab is the preferred sample for adults and adolescents, whereas aspirates are preferable for neonates, infants, and young children. A properly obtained NP swab or aspirate is essential for optimal results. Throat swabs and anterior nasal swabs have an unacceptably low rate of DNA and bacteria recovery and should not be used for pertussis diagnosis. The CDC provides detailed information and instructional videos on best practices for specimen collection on their website.
The Council of State and Territorial Epidemiologists (CSTE) published an approved case definition for pertussis (whooping cough) in position statement 13-ID-15. The CDC also provides this definition on their website.
There are many other useful, up-to-date CDC resources for clinicians and patients. Resources of note include vaccination information for pregnant women and grandparents to limit the spread of pertussis to infants and young children, and Tdap vaccination dosage recommendations for adults.
Indications for Testing
- Paroxysms of cough
- Inspiratory whoop
- Posttussive vomiting
- Apnea with or without cyanosis (in infants younger than 1 year)
However, because early diagnosis and treatment of pertussis might limit its spread, and laboratory testing methods are highly time dependent (see below), it may be appropriate to begin testing in cases of strong suspicion of pertussis earlier than 2 weeks from cough onset.
Laboratory testing is extremely important for the diagnosis and surveillance of pertussis. However, when pertussis is strongly suspected, prophylaxis should be provided to household and other close contacts at high risk without waiting for laboratory confirmation.
The sensitivity of PCR, culture, and serology is heavily impacted by the time from disease onset. Therefore, selection of appropriate laboratory testing strategies is time dependent. The figure below depicts the optimal timing for PCR, culture, and serology testing for pertussis diagnosis.
PCR is a highly sensitive CDC-recommended laboratory test that is especially useful for the timely diagnosis of pertussis. Patients with signs and symptoms consistent with pertussis should be tested by PCR to confirm the diagnosis. Specimens for PCR testing should be obtained by aspiration or by swabbing the posterior nasopharynx. Unlike culture, PCR testing does not require live bacteria for accurate results. The optimal time to collect a sample for PCR testing is in the first 3 weeks of illness while bacterial DNA is still present in the nasopharynx. After the fourth week of illness, the amount of bacteria in the nasopharynx diminishes quickly, which increases the risk of a false-negative result. Although PCR is a powerful test due to its high sensitivity, the CDC recommends that it be ordered in conjunction with culture when feasible. PCR testing is not recommended for asymptomatic patients because false-positive results are more likely in these individuals.
Bacterial culture is a highly specific CDC-recommended laboratory test and is considered the gold standard for pertussis diagnosis because it allows for strain identification and antimicrobial resistance testing. Patients with suspected cases of pertussis should have a nasopharyngeal swab or aspirate obtained from the posterior nasopharynx to confirm the diagnosis. The optimal time to collect a culture specimen is during the first 2 weeks of illness because this is when viable bacteria are present in the nasopharynx. Culture specimens taken after 2 weeks have low specificity and are more likely to produce false-negative results. If the patient has received antibiotic therapy or previous vaccination against B. pertussis, the sensitivity of bacterial culture decreases. Physicians should consider concurrent PCR testing.
Serology is not a CDC-recommended test; however, it is often useful for the diagnosis of late-stage pertussis. The optimal time to collect a sample for serology is 2-8 weeks following cough onset. This is when the antibody titers are highest. However, serology can be performed on samples collected up to 12 weeks after the onset of illness.
Several factors can contribute to inaccurate serology results. These include recent vaccination, previous infection, and cross-reactivity with other Bordetella species. Serology is often ineffective in infants younger than 6 months due to interference from maternal antibodies. As of March 2017, positive serology results from commercial laboratories were no longer considered confirmatory for the purpose of reporting; for that reason, serology is not a CDC-recommended test for pertussis diagnosis.
Serology can be used to determine immune status. Please see the Immunization Status topic for more information.
Comparison of Pertussis Testing Methodologies
ARUP Lab Tests
Semi-Quantitative Enzyme-Linked Immunosorbent Assay/Qualitative Immunoblot
May be useful as evidence of vaccination or past infection; does not determine immunity to B. pertussis
See Immunization Status for more information
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Manual for the Surveillance of Vaccine-Preventable Diseases: Chapter 10 - Pertussis. [Last updated: Nov 2017; Accessed: Dec 2019]Online
Miller M, Binnicker MJ, Campbell S, et al. A Guide to Utilization of the Microbiology Laboratory for Diagnosis of Infectious Diseases: 2018 Update by the Infectious Diseases Society of America and the American Society for Microbiology. Clin Infect Dis. 2018; 67 (6): 813-816.PubMed
CSTE - Revision of the pertussis surveillance case definition to more accurately capture the burden of disease among infantsDavis JP, DeBolt C. Revision of the pertussis surveillance case definition to more accurately capture the burden of disease among infants. CSTE position statement 13-ID-15 CSTE. [Accessed: Dec 2019]Online
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Pertussis: Specimen Collection. [Last reviewed: Nov 2019; Accessed: Dec 2019]Online
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Pertussis / Whooping Cough (Bordetella pertussis) 2014 Case Definition. [Accessed: Dec 2019]Online
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Pertussis (Whooping Cough): Clinicians. [Last reviewed: Oct 2019; Accessed: Dec 2019]Online
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Pertussis (Whooping Cough): About Pertussis. [Last reviewed: Oct 2019; Accessed: Dec 2019]Online
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Pregnancy and Whooping Cough. [Last reviewed: Jun 2017; Accessed: Dec 2019]Online
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Grandparents Can Help Protect Against Whooping Cough with Tdap Vaccine. [Accessed: Dec 2019]Online
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Pertussis (Whooping Cough): Prevention: Adults. [Last reviewed: Aug 2017; Accessed: Dec 2019]Online
CDC - Best Practices for Healthcare Professionals on the Use of Polymerase Chain Reaction (PCR) for Diagnosing PertussisU.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Best Practices for Healthcare Professionals on the Use of Polymerase Chain Reaction (PCR) for Diagnosing Pertussis. [Last reviewed: Aug 2017; Accessed: Dec 2019]Online
van der Zee A, Schellekens JFP, Mooi FR. Laboratory Diagnosis of Pertussis. Clin Microbiol Rev. 2015; 28 (4): 1005-26.PubMed
U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. Pertussis (Whooping Cough) Diagnosis Confirmation. [Last reviewed: Nov 2019; Accessed: Dec 2019]Online
Zouari A, Smaoui H, Kechrid A. The diagnosis of pertussis: which method to choose? Crit Rev Microbiol. 2012; 38 (2): 111-21.