Performance of the Alere i RSV assay for point-of-care detection of respiratory syncytial virus in children

Background Respiratory syncytial virus (RSV) is the most important cause of severe acute respiratory tract infection in young children. Alere i RSV is a novel molecular rapid test which identifies respiratory syncytial virus in less than 13 min. Methods We evaluated the clinical performance of the Alere i RSV assay in a pediatric point-of-care setting during winter season 2016 / 2017. Test results from 518 nasopharyngeal swab samples were compared to a real-time reverse transcription PCR reference standard. Results The overall sensitivity and specificity of the Alere i RSV test assay was 93% (CI95 89% – 96%) and 96% (CI95 93% – 98%), respectively. Alere i RSV performed well in children of all age groups. An optimal sensitivity of 98% (CI95 94% - 100%) and specificity of 96% (CI95 90% - 99%) was obtained in children < 6 months. In children ≥ 2 years, sensitivity and specificity remained at 87% (CI95 73% – 96%) and 98% (CI95 92% – 100%), respectively. False negative Alere i RSV test results mostly occurred in samples with low viral load (mean CT value 31.1; CI95 29.6 – 32.6). The Alere i RSV assay is easy to use and can be operated after minimal initial training. Test results are available within 13 min, with most RSV positive samples being identified after approximately 5 min. Conclusion The Alere i RSV assay has the potential to facilitate the detection of RSV in pediatric point-of-care settings. Electronic supplementary material The online version of this article (10.1186/s12879-017-2855-1) contains supplementary material, which is available to authorized users.


Background
Respiratory Syncytial Virus (RSV) is the most important cause of acute respiratory tract infection (aRTI) in neonates and young children worldwide [1]. RSV is a frequent cause of hospitalization in young children and leads to significant morbidity in premature neonates and children with chronic lung or congenital heart disease [2][3][4].
The clinical diagnosis of RSV is hampered by the mostly unspecific symptoms of RSV infection. Early recognition of RSV infection is useful to optimize care management, minimize unnecessary antibiotic use [5] and provide targeted infection control for children hospitalized with RSV infection [6]. In addition, specific antiviral therapy for RSV infection is currently under early clinical evaluation [7], and early detection of RSV infection may become important for timely antiviral treatment in severely sick children.
Pediatricians therefore often apply rapid point-of-care RSV test assays. The major limitation of point-of-care RSV testing is the low sensitivity of commercially available rapid antigen detection tests (RADT). RADT sensitivity is strongly dependent on viral load, and therefore performs best in young infants with classical symptoms of RSV bronchiolitis. In older children and adults with low viral load, the sensitivity is poor and RADT are not recommended in these age groups [8,9].
Alere i RSV is a novel rapid molecular test assay which can identify RSV in less than 13 min. In a previous analysis, we reported an Alere i RSV sensitivity and specificity of 100% (CI 95 89-100%) and 97% (CI 95 89% -100%), respectively [10]. This first analysis focused on young infants, and testing was done under laboratory conditions which may not reflect the performance in point-of-care settings.
In the current study, we addressed these limitations and applied the Alere i RSV test assay in a pediatric point-of-care setting on a larger study population across different pediatric age groups. The objective of this analysis was to report an estimate of the Alere i RSV test performance in a pediatric point-of-care setting.

Study cohort and sampling procedure
Between November 2016 and March 2017, we prospectively collected 533 nasopharyngeal swabs (NPS) in the outpatient department of the Center of Childhood and Adolescent Medicine Heidelberg, Germany. Study inclusion criteria were I) age < 18 years, II) clinical symptoms of an acute respiratory infection, and III) indication for hospitalization according to the clinical judgment of the attending physician. Patients with clinical symptoms of an acute respiratory infection included cases of upper respiratory tract infection (URTI), otitis media, croup, bronchiolitis, bronchitis and pneumonia. Nasopharyngeal swabs were collected by local staff in 1 ml viral transport media (VTM; MSwab; Copan, Brescia, Italy). 200 μl of the VTM were directly used for point-of-care testing with the Alere i RSV assay. The remaining sample was transferred to the virology diagnostic laboratory, and stored in 200 μl aliquots at −80°C until further analysis.
Attending pediatricians prospectively reported medical information on a standardized data sheet, including the duration of clinical symptoms, demographic and clinical data.

Alere i RSV assay
Alere i RSV test assays were applied in the pediatric outpatient department. The test procedure followed the Alere i RSV package insert [11]. In brief, 200 μl of the respiratory sample was added to the sample receiver containing 2.5 ml elution buffer. Two 100 μl volumes were added to the test base with the provided transfer cartridge for isothermal amplification.
Alere i RSV assays were conducted by attending physicians or nurses working in the pediatric outpatient department. All operators were allowed to carry out the test assay only after an initial hands-on-training. Test results were printed and reported on the medical datasheet. Invalid test results were re-tested immediately.

Reference standard (RT-PCR test procedures)
The Alere i RSV assay was evaluated against a CEmarked real-time reverse transcriptase polymerase chain reaction assay (RT-PCR).
FTD 21 results that did not correspond to the Alere i test assay were verified by a second RT-PCR assay. For this purpose, RNA was extracted from an independent sample aliquot and analyzed by altona RealStar PCR (altona RealStar RSV RT-PCR, altona Diagnostics, Hamburg, Germany). To preclude possible discrepancies between the two RT-PCR methods, samples with different results in monoplex and multiplex PCR were again tested by the FTD 21 assay (Additional file 1: Figure S3).
Both the FTD 21 and the altona RealStar assay were initially evaluated using defined RSV A and RSV B positive and negative samples from patients, from the German RSV reference laboratory and from the official German proficiency testing panel. Results with a cycle threshold (C T ) value of <35 were considered positive.
For sub-typing of RSV positive samples, Sanger sequencing targeting the second hyper-variable region of the G gene was performed using primer pairs as previously described [12]. Resulting sequences were assembled and edited using the SEQMAN II software of the Lasergene package (DNAstar, Madison, WI) and allocated to subtype RSV A or RSV B using the Basic Local Alignment Search Tool (BLAST; http://blast.ncbi.nlm.nih.gov).

Statistical analysis and data reporting
Statistical analyses were conducted using Stata/IC13.0 (StataCorp. LP, College Station, TX, USA). Mann-Whitney-U-test was applied to compare C T values in samples with true positive versus false negative Alere i RSV result. The Alere i RSV sensitivity in RSV A versus RSV B positive samples was compared using the χ 2 -Test. P values <0.05 were considered statistically significant. Data reporting was done according to STARD 2015 recommendations [13].

Results
From November 2016 to March 2017, 533 NPS were collected from 499 children presenting with symptoms of acute respiratory tract infection. Fifteen samples were excluded from the final analysis due to unavailability of sample aliquots for RT-PCR testing (n = 7), duplicate sampling of patients during one hospital stay (n = 7), or missed re-testing of an initially invalid Alere i RSV test result (n = 1).
Five hundred eighteen samples (97% of 533 collected NPS) from 492 children were included in the final analysis (Fig. 1). Demographic and clinical characteristics of the study participants are summarized in Table 1.
Alere i RSV was positive in 43% (224/518) and negative in 57% (294/518). In comparison to the RT-PCR reference standard, the Alere i RSV test result was true positive in 213 and true negative in 278 samples, respectively. False positive test results were reported in 11 patients, and 16 patients were identified with false negative Alere i RSV test outcome ( Table 2). The overall Alere i RSV test sensitivity and specificity was 93% (CI 95 89% -96%) and 96% (CI 95 93% -98%), respectively.
In our point-of-care setting, positive test results were identified after a mean duration of 5.1 min (CI 95 4.9-5.2 min; range 4.7-10.0 min). This included both sample pre-heating (3 min) and the amplification reaction. After the first testing, invalid results were reported in 6% (29/ 518). These NPS were directly retested, and valid (positive or negative) results were obtained in all cases.

Discussion
We found that the novel Alere i RSV assay has a sensitivity of 93% (CI 95 89% -96%) and a specificity of 96% (CI 95 93% -98%) in a pediatric point-of-care setting. The test is user-friendly and test results are obtained in less than 13 min, with most positive test results being identified after approximately 5 min.
No direct comparison of Alere i RSV versus RADT was done in our study. Based on published data, the expected RADT sensitivity in young children is approximately 80% [9]. In our study setting, we previously found a RADT sensitivity of 63% (CI 95 55-72%) [14] and 55% (CI 95 45% -64%) [15] over two different winter seasons. The Alere i RSV sensitivity is clearly superior to the expected RADT performance.
In children aged 24-35 months with lower viral load, the use of RADT is particularly limited with reported sensitivity of approximately 60% [16]. In patients ≥2 years of age, we found an Alere i sensitivity and specificity of 87% and 98% in comparison to our RT-PCR reference standard, respectively. The Alere i assay is suitable for point-of-care detection of RSV in children across all age groups.
Other sensitive rapid nucleic acid amplification assays are available for early detection of RSV infection. These assays require a testing time of at least 30 min to more than 1 h [17,18]. Alere i RSV test results are available A limitation of our study is the use of VTM for Alere i RSV testing instead of directly inserting the swab to the Alere test base. Using VTM was required to establish the RT-PCR reference standard. This procedure is in accordance with the Alere i RSV package insert, but implies that samples are 1:5 diluted in comparison to directly inserting the swab. In our analysis, this could have provoked false negative results in samples with low viral load, and regular point-of-care users might prefer direct, non-diluted testing of swab specimens. Second, we compared Alere i RSV test results against a multiplex RT-PCR reference standard. Only divergent results were further evaluated by monoplex RT-PCR. Multiplex RT-PCR is usually slightly less sensitive than monoplex RT-PCR in samples with low viral load. [19] In pediatric patients, viral loads are usually high and in fact, 95% of our RSV positive samples had a C T value <30. We therefore believe that multiplex RT-PCR is a rigorous reference standard in our study cohort, but acknowledge that applying a monoplex RT-PCR reference standard might have resulted in a slightly lower sensitivity of the Alere i RSV assay.
In summary, we evaluated the novel Alere i RSV assay in a pediatric emergency setting against a RT-PCR reference standard. The Alere i RSV performed well in the point-of-care setting, and sensitive test results were obtained across all pediatric age groups within 13 min. The assay requires a shorter test time than other currently available molecular test assays, and provides a significantly higher sensitivity than RADT assays.

Conclusions
The Alere i RSV assay performs well in the pediatric point-of-care setting. The assay is easy to use, and the high sensitivity and specificity of test results help pediatricians to act appropriately both in patients with and without RSV infection.