| Literature DB >> 31270179 |
William Stokes1, Patricia J Simner2, Joel Mortensen3, Margret Oethinger4, Kathleen Stellrecht5,6, Elizabeth Lockamy7, Tricia Lay7, Peggy Bouchy8, Dylan R Pillai9,10,11.
Abstract
The conventional methodology for gastrointestinal pathogen detection remains time-consuming, expensive, and of limited sensitivity. The objective of this study was to evaluate the performance of the BD Max enteric viral panel (Max EVP) assay for identification of viral pathogens in stool specimens from individuals with symptoms of acute gastroenteritis, enteritis, or colitis. Prospective and archival stool specimens from adult and pediatric patients with diarrhea were collected in Cary-Blair medium or unpreserved containers. The results for specimens tested by the Max EVP (on the BD Max platform) were compared to those obtained by the reference method (alternate PCR assays, followed by bidirectional sequencing). Positive percent agreement (PPA) and negative percent agreement (NPA) were calculated. A total of 2,239 specimens were collected, with 2,148 being included for analysis. In this population, 39.6% of specimens were from outpatients, 42.1% were from patients <21 years old, and 49.7% were from females. Prevalence rates for prospective specimens were 7.3%, 4.5%, 3.5%, 2.4%, and 1.2% for norovirus, sapovirus, astrovirus, rotavirus, and adenovirus, respectively. PPA was 92.8%, 84.9%, 93.0%, 100%, and 95.6%, for norovirus, sapovirus, astrovirus, rotavirus, and adenovirus, respectively. NPA was ≥99.4% for all targets. In conjunction with the clinical presentation, laboratory findings, and epidemiological information, the Max EVP assay is effective for the differential diagnosis of enteric disease caused by norovirus, sapovirus, astrovirus, rotavirus, and adenovirus. This assay can be used individually for patients at high risk for a viral enteropathogen (e.g., in outbreak settings) or as an adjunct to other enteric bacterial panels.Entities:
Keywords: BD Max; adenovirus; astrovirus; enteric pathogens; enteric viral panel; gastrointestinal panel; norovirus; rotavirus; sapovirus
Mesh:
Year: 2019 PMID: 31270179 PMCID: PMC6711915 DOI: 10.1128/JCM.00306-19
Source DB: PubMed Journal: J Clin Microbiol ISSN: 0095-1137 Impact factor: 5.948
Reference method final result adjudication algorithm for prospective and archival samples
| Sample set | Historical result (interpretation) | Result | |||
|---|---|---|---|---|---|
| PCR set 1 | PCR set 2 | Sequencing on PCR set 2 | Final RM result | ||
| Prospective | |||||
| Positive | Positive | Positive | Positive | ||
| Positive | Positive | Negative | Positive | ||
| Negative | Positive | Positive | Positive | ||
| Positive | Negative | Not performed | Positive | ||
| Negative | Positive | Negative | Negative | ||
| Negative | Negative | Not performed | Negative | ||
| Archival | |||||
| Positive (confirmed) | Positive | Positive | |||
| Negative (confirmed) | Negative | Negative | |||
| Positive (unconfirmed) | Negative | NA | |||
| Negative (unconfirmed) | Positive | NA | |||
Only PCR set 2 involved bidirectional sequencing for RM testing in both prospective and archival specimens.
Abbreviations: Max, BD Max platform; RM, reference method; NA, not applicable (specimens with unconfirmed historical results were not included in the final performance calculations).
FIG 1Flowchart depicting the study design. a, a further description of nonreportable and nonevaluable specimens can be found in Materials and Methods.
Age group, gender, and health care setting by specimen type
| Characteristic | % (no.) of subjects by specimen type | ||
|---|---|---|---|
| CB | Unpreserved ( | Combined ( | |
| Age group | |||
| 0–1 mo | 0.4 (4) | 0.0 (0) | 0.2 (4) |
| 1 mo–2 yr | 16.4 (188) | 11.2 (112) | 14.0 (300) |
| 2–12 yr | 19.9 (228) | 15.3 (153) | 17.7 (381) |
| 13–18 yr | 10.2 (117) | 6.6 (66) | 8.5 (183) |
| 19–21 yr | 1.7 (20) | 2.1 (21) | 1.9 (41) |
| >21 yr | 49.6 (568) | 63.9 (640) | 56.2 (1,208) |
| Unknown | 1.8 (21) | 1.0 (10) | 1.4 (31) |
| Gender | |||
| Male | 44.9 (514) | 47.0 (471) | 45.9 (985) |
| Female | 52.1 (597) | 46.9 (470) | 49.7 (1,067) |
| Unknown | 3.1 (35) | 6.1 (61) | 4.5 (96) |
| Health care setting | |||
| Inpatient | 27.7 (318) | 49.6 (497) | 37.9 (815) |
| Outpatient | 55.8 (640) | 21.0 (210) | 39.6 (850) |
| Emergency | 7.6 (87) | 14.3 (143) | 10.7 (230) |
| Long-term-care facility | 0.0 (0) | 0.6 (6) | 0.3 (6) |
| Unknown | 8.8 (101) | 14.6 (146) | 11.5 (247) |
CB, Cary-Blair medium.
Performance of the Max EVP by organism, specimen type, and specimen origin
| Organism (% prevalence | No. of samples with the following result: | % agreement (95% CI) | |||||
|---|---|---|---|---|---|---|---|
| True positive | False positive | False negative | True negative | Total | PPA | NPA | |
| Norovirus (7.3%) | |||||||
| Prospective | |||||||
| CB preserved | 74 | 7 | 6 | 835 | 922 | 92.5 (84.6, 96.5) | 99.2 (98.3, 99.6) |
| Unpreserved | 39 | 3 | 4 | 694 | 740 | 90.7 (78.4, 96.3) | 99.6 (98.7, 99.9) |
| Archival | |||||||
| CB preserved | 6 | 1 | 0 | 105 | 112 | 100 (61.0, 100) | 99.1 (94.8, 99.8) |
| Unpreserved | 35 | 0 | 2 | 58 | 95 | 94.6 (82.3, 98.5) | 100 (93.8, 100) |
| Total | 154 | 11 | 12 | 1,692 | 1,869 | 92.8 (87.8, 95.8) | 99.4 (98.8, 99.6) |
| Sapovirus (4.5%) | |||||||
| Prospective | |||||||
| CB preserved | 43 | 9 | 6 | 863 | 921 | 87.8 (75.8, 94.3) | 99.0 (98.1, 99.5) |
| Unpreserved | 24 | 1 | 6 | 720 | 751 | 80.0 (62.7, 90.5) | 99.9 (99.2, 100) |
| Archival | |||||||
| CB preserved | 2 | 0 | 1 | 98 | 101 | 66.7 (20.8, 93.9) | 100 (96.2, 100) |
| Unpreserved | 4 | 1 | 0 | 39 | 44 | 100 (51.0, 100) | 97.5 (87.1, 99.6) |
| Total | 73 | 11 | 13 | 1,720 | 1,817 | 84.9 (75.8, 90.9) | 99.4 (98.9, 99.6) |
| Astrovirus (3.5%) | |||||||
| Prospective | |||||||
| CB preserved | 29 | 1 | 2 | 899 | 931 | 93.5 (79.3, 98.2) | 99.9 (99.4, 100) |
| Unpreserved | 28 | 2 | 2 | 722 | 754 | 93.3 (78.7, 98.2) | 99.7 (99.0, 99.9) |
| Archival | |||||||
| CB preserved | 20 | 1 | 2 | 80 | 103 | 90.9 (72.2, 97.5) | 98.8 (93.3, 99.8) |
| Unpreserved | 3 | 1 | 0 | 45 | 49 | 100 (43.9, 100) | 97.8 (88.7, 99.6) |
| Total | 80 | 5 | 6 | 1,746 | 1,837 | 93.0 (85.6, 96.8) | 99.7 (93.9, 99.9) |
| Rotavirus (2.4%) | |||||||
| Prospective | |||||||
| CB preserved | 31 | 7 | 0 | 888 | 926 | 100 (89.0, 100) | 99.2 (98.4, 99.6) |
| Unpreserved | 11 | 1 | 0 | 735 | 747 | 100 (74.1, 100) | 99.9 (99.2, 100) |
| Archival | |||||||
| CB preserved | 38 | 1 | 0 | 76 | 115 | 100 (90.8, 100) | 98.7 (93.0, 99.8) |
| Unpreserved | 56 | 1 | 0 | 47 | 104 | 100 (93.6, 100) | 97.9 (89.1, 99.6) |
| Total | 136 | 10 | 0 | 1,746 | 1,892 | 100 (97.3, 100) | 99.4 (99.0, 99.7) |
| Adenovirus (1.2%) | |||||||
| Prospective | |||||||
| CB preserved | 15 | 0 | 1 | 914 | 930 | 93.8 (71.7, 98.9) | 100 (99.6, 100) |
| Unpreserved | 4 | 1 | 1 | 747 | 753 | 80.0 (37.6, 96.4) | 99.9 (99.2, 100) |
| Archival | |||||||
| CB preserved | 18 | 0 | 0 | 84 | 102 | 100 (82.4, 100) | 100 (95.6, 100) |
| Unpreserved | 6 | 0 | 0 | 68 | 74 | 100 (61.0, 100) | 100 (94.7, 100) |
| Total | 43 | 1 | 2 | 1,813 | 1,859 | 95.6 (85.2, 98.8) | 99.9 (99.7, 100) |
127/1,751 (7.3%) specimens for norovirus.
80/1,760 (4.5%) specimens for sapovirus.
62/1,773 (3.5%) specimens for astrovirus.
43/1,763 (2.4%) specimens for rotavirus.
21/1,773 (1.2%) specimens for adenovirus.
Abbreviations: Max EVP, BD Max enteric viral panel; PPA, positive percent agreement; NPA, negative percent agreement; CB, Cary-Blair medium.
Prevalence values are based on detection by the reference method among the prospective specimens only.