| Literature DB >> 32393482 |
Rose Lee1,2, Katelyn E Zulauf1,3, Cody J Callahan4, Lauren Tamburello5, Kenneth P Smith1,3, Joe Previtera6, Annie Cheng1, Alex Green1,3, Ahmed Abdul Azim2,7, Amanda Yano8, Nancy Doraiswami9, James E Kirby1,3, Ramy A Arnaout10,3,11.
Abstract
The pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a severe international shortage of the nasopharyngeal swabs that are required for collection of optimal specimens, creating a critical bottleneck blocking clinical laboratories' ability to perform high-sensitivity virological testing for SARS-CoV-2. To address this crisis, we designed and executed an innovative, cooperative, rapid-response translational-research program that brought together health care workers, manufacturers, and scientists to emergently develop and clinically validate new swabs for immediate mass production by 3D printing. We performed a multistep preclinical evaluation of 160 swab designs and 48 materials from 24 companies, laboratories, and individuals, and we shared results and other feedback via a public data repository (http://github.com/rarnaout/Covidswab/). We validated four prototypes through an institutional review board (IRB)-approved clinical trial that involved 276 outpatient volunteers who presented to our hospital's drive-through testing center with symptoms suspicious for COVID-19. Each participant was swabbed with a reference swab (the control) and a prototype, and SARS-CoV-2 reverse transcriptase PCR (RT-PCR) results were compared. All prototypes displayed excellent concordance with the control (κ = 0.85 to 0.89). Cycle threshold (CT ) values were not significantly different between each prototype and the control, supporting the new swabs' noninferiority (Mann-Whitney U [MWU] test, P > 0.05). Study staff preferred one of the prototypes over the others and preferred the control swab overall. The total time elapsed between identification of the problem and validation of the first prototype was 22 days. Contact information for ordering can be found at http://printedswabs.org Our experience holds lessons for the rapid development, validation, and deployment of new technology for this pandemic and beyond.Entities:
Keywords: COVID-19; SARS-CoV-2; diagnostic testing; epidemiology; virological testing
Mesh:
Year: 2020 PMID: 32393482 PMCID: PMC7383530 DOI: 10.1128/JCM.00876-20
Source DB: PubMed Journal: J Clin Microbiol ISSN: 0095-1137 Impact factor: 5.948
FIG 1Control and prototype swabs. (a) From left to right, the control swab (C; Copan 501CS01), a repurposed urogenital cleaning swab approved for NP testing through our process (R), prototype 1 (Resolution Medical), prototype 2 (EnvisionTec), prototype 3 (Origin.io), and prototype 4 (HP, Inc.). (b) From top to bottom, close-ups of the heads of the swabs in panel a. Bars, 1 cm. (c) Examples of Gram stains of cheek swabs using control (top) and prototype (bottom) swabs. Bar, 10 μm. (d) Examples of materials testing. Clockwise from top left, head flexibility and robustness to fracture, neck flexibility and robustness to fracture, robustness to repeat insertion into and removal from a tortuous canal (diameter, 3 cm), and break point evaluation.
Preclinical (phase I) evaluation testing parameters and acceptance criteria
| Parameter | Description or comments | Acceptance criteria |
|---|---|---|
| Measurements | ||
| Total length | Length of NP swab from end to end | 15–16 cm |
| Head length | Length of NP swab head used for collection of secretions and cellular material from posterior nasopharynx | 1.5–3.5 cm |
| Head diam | Diam of NP head allowing passage into posterior nasopharynx; must be sufficiently small for passage beyond inferior turbinate without catching on abnormal anatomy, such as septal spurs or a deviated nasal septum, but must otherwise maximize surface area for specimen collection | 1–4 mm |
| Neck diam | A neck thinner than the head and shaft allows flexibility, easing manipulation of the swab in the posterior nasopharynx | 1–2 mm |
| Neck length | Length of neck following the head tip prior to the shaft | 3–3.5 cm |
| Break point location | A break point is a scoring or narrowing that allows the user to break the head off into the viral transport tube. This must be sufficiently easy that breaking can occur without need of, e.g., scissors and without excessive infection risk but not so easy as to risk breaking during insertion into the patient. Distance from head tip to break point must be less than the length of the tube ( | 7–10 cm |
| Surface properties | ||
| Smoothness | Swabs should be sufficiently smooth to touch and minimally abrasive for patient comfort and safety. In particular, the tip should not be sharp, so as to prevent puncture injuries and minimize epistaxis risk. | Sufficient smoothness |
| Adhesiveness or residue | Swabs should not feel sticky or tacky or leave a residue behind with handling, as such residue could in principle have unwanted effects. | Not sticky |
| Odor | Swabs should not have an unusual chemical or metallic odor that could be an allergen or safety hazard to patients. | Must have a tolerable odor (e.g., no odor or very faint “plastic smell” is acceptable; strong, acrid, or glue smell is unacceptable) |
| Mechanical properties | ||
| Head and neck flexibility | Swabs must be flexible enough to be maneuvered into the posterior nasopharynx | Ability to bend head and, separately, neck at least 90 degrees without detachment. Ability of swab neck to revert to initial form following repetitive bending to 45° in both directions 45 times ( |
| Durability/strength | Swabs must be durable enough to not break with reasonable manipulation | Ability to tolerate 20 rough repeated insertions into a 4 mm-inner-diam clear plastic tube curved with a radius of 3 cm ( |
| Additional factors | ||
| Collection sufficiency | Swabs must be able to collect sufficient material for detection of viral nucleic acid. Collection sufficiency was approximated by Gram staining of an interior cheek swab compared to standard Copan swab (model 501CS01) as a control. | At least 10 clusters of bacteria/cells at ×40 magnification ( |
| PCR compatibility | Swabs must not inhibit PCR | Swab material was incubated in standard viral transport medium overnight, spiked with 2× the limit of detection (200 copies/ml) of the SARS-CoV-2 amplicon target, and tested using the Abbott RealTime SARS-CoV-2 assay on the Abbott m2000 platform. |
FIG 2Categorical concordance versus control swab. (a) Two-by-two tables giving counts for each prototype versus the control swab and for control versus replicate control obtained within 24 h from the same individual. Discordant results are in gray, totals for each swab are below and to the right of each box, and the total number of pairs is in bold. K, Cohen’s kappa. (b) Scatterplot of C values for pairs of swabs for which at least one swab was SARS-CoV-2 positive. For discordant pairs, the negative swab was assigned a C value of 37 (the maximum number of cycles run).
FIG 3Subjective feedback. (a) Round-robin A/B testing of net preferences among prototypes 1 to 3 (large bold numbers) and the control (C). Each arrow points from the less preferred to the more preferred swab. Arrow weight indicates strength of relative preference. Preferences were unanimous except where noted with numbers separated by a slash: the first number is the number of responses for the direction indicated by the arrowhead, while the second number is the number of responses that had the opposite preference. The weight of the arrow is proportional to the difference (e.g., 7 − 3 = a net preference of 4). Unless otherwise noted, each arrow represents 12 to 15 separate responses. (b) Numbers of positive and negative comments received from study staff who administered the swabs, tabulated by category. In each plot, negative feedback is to the left of the zero, while positive feedback is to the right. The presence of bars on both the positive and negative sides of zero reflects different opinions among study staff. n, total number of comments received about each prototype from study staff.