tetano
Editor, Senior Moderator
Clin Chem
. 2021 Oct 26;hvab238.
doi: 10.1093/clinchem/hvab238. Online ahead of print.
High-Throughput CRISPR-Cas13 SARS-CoV-2 Test
Brendan J Manning[SUP] 1 [/SUP], Wahab A Khan[SUP] 2 3 [/SUP], Jennifer M Peña[SUP] 1 [/SUP], Elizabeth S Fiore[SUP] 1 [/SUP], Heike Boisvert[SUP] 1 [/SUP], Marisa C Tudino[SUP] 1 [/SUP], Rachael E Barney[SUP] 2 [/SUP], Mary K Wilson[SUP] 1 [/SUP], Subha Singh[SUP] 1 [/SUP], Joel A Mowatt[SUP] 1 [/SUP], Hannah J Thompson[SUP] 1 [/SUP], Gregory J Tsongalis[SUP] 2 3 [/SUP], William J Blake[SUP] 1 [/SUP]
Affiliations
Abstract
Background: The ability to control the spread of COVID-19 continues to be hampered by a lack of rapid, scalable, and easily deployable diagnostic solutions.
Methods: : We developed a diagnostic method based on CRISPR that can deliver sensitive, specific, and high-throughput detection of Sudden Acute Respiratory Syndrome-Coronavirus-2 (SARS-CoV-2). The assay utilizes SHERLOCK (Specific High-sensitivity Enzymatic Reporter unLOCKing) for the qualitative detection of SARS-CoV-2 RNA and may be performed directly on a swab or saliva sample without nucleic acid extraction. The assay uses a 384-well format and provides results in less than one hour.
Results: Assay performance was evaluated with 105 (55 negative, 50 positive) remnant SARS-CoV-2 specimens previously identified as positive using Food and Drug Administration emergency use authorized assays and re-tested with a modified version of the Centers for Disease Control and Prevention (CDC) RT-qPCR assay. When combined with magnetic bead-based extraction, the high throughput SHERLOCK SARS-CoV-2 assay was 100% concordant (n = 60) with the CDC RT-qPCR. When used with direct sample addition the high throughput assay was also 100% concordant with the CDC RT-qPCR direct method (n = 45). With direct saliva sample addition, the negative and positive percent agreements were 100% (15/15, 95% CI : 81.8-100%) and 88% (15/17, 95% CI : 63.6-98.5%), respectively, compared with results from a collaborating clinical laboratory.
Conclusions: This high throughput assay identifies SARS-CoV-2 from patient samples with or without nucleic acid extraction with high concordance to RT-qPCR methods. This test enables high complexity laboratories to rapidly increase their testing capacities with simple equipment.
Keywords: Infectious Disease; Molecular Diagnostics; Viral Diseases.
. 2021 Oct 26;hvab238.
doi: 10.1093/clinchem/hvab238. Online ahead of print.
High-Throughput CRISPR-Cas13 SARS-CoV-2 Test
Brendan J Manning[SUP] 1 [/SUP], Wahab A Khan[SUP] 2 3 [/SUP], Jennifer M Peña[SUP] 1 [/SUP], Elizabeth S Fiore[SUP] 1 [/SUP], Heike Boisvert[SUP] 1 [/SUP], Marisa C Tudino[SUP] 1 [/SUP], Rachael E Barney[SUP] 2 [/SUP], Mary K Wilson[SUP] 1 [/SUP], Subha Singh[SUP] 1 [/SUP], Joel A Mowatt[SUP] 1 [/SUP], Hannah J Thompson[SUP] 1 [/SUP], Gregory J Tsongalis[SUP] 2 3 [/SUP], William J Blake[SUP] 1 [/SUP]
Affiliations
- PMID: 34718481
- DOI: 10.1093/clinchem/hvab238
Abstract
Background: The ability to control the spread of COVID-19 continues to be hampered by a lack of rapid, scalable, and easily deployable diagnostic solutions.
Methods: : We developed a diagnostic method based on CRISPR that can deliver sensitive, specific, and high-throughput detection of Sudden Acute Respiratory Syndrome-Coronavirus-2 (SARS-CoV-2). The assay utilizes SHERLOCK (Specific High-sensitivity Enzymatic Reporter unLOCKing) for the qualitative detection of SARS-CoV-2 RNA and may be performed directly on a swab or saliva sample without nucleic acid extraction. The assay uses a 384-well format and provides results in less than one hour.
Results: Assay performance was evaluated with 105 (55 negative, 50 positive) remnant SARS-CoV-2 specimens previously identified as positive using Food and Drug Administration emergency use authorized assays and re-tested with a modified version of the Centers for Disease Control and Prevention (CDC) RT-qPCR assay. When combined with magnetic bead-based extraction, the high throughput SHERLOCK SARS-CoV-2 assay was 100% concordant (n = 60) with the CDC RT-qPCR. When used with direct sample addition the high throughput assay was also 100% concordant with the CDC RT-qPCR direct method (n = 45). With direct saliva sample addition, the negative and positive percent agreements were 100% (15/15, 95% CI : 81.8-100%) and 88% (15/17, 95% CI : 63.6-98.5%), respectively, compared with results from a collaborating clinical laboratory.
Conclusions: This high throughput assay identifies SARS-CoV-2 from patient samples with or without nucleic acid extraction with high concordance to RT-qPCR methods. This test enables high complexity laboratories to rapidly increase their testing capacities with simple equipment.
Keywords: Infectious Disease; Molecular Diagnostics; Viral Diseases.