Successful Detection of Delta and Omicron Variants of SARS-CoV-2 by Veterinary Diagnostic Laboratory Participants in an Interlaboratory Comparison Exercise

• Published in: The journal of applied laboratory medicine Vol. 8; no. 4; pp. 726 - 741
• Main Authors: Deng, Kaiping, Nemser, Sarah M, Frost, Kirstin, Goodman, Laura B, Ip, Hon S, Killian, Mary Lea, Ulaszek, Jodie, Kiener, Shannon, Kmet, Matthew, Uhlig, Steffen, Hettwer, Karina, Colson, Bertrand, Nichani, Kapil, Schlierf, Anja, Tkachenko, Andriy, Miller, Megan R, Reddy, Ravinder, Tyson, Gregory H
• Format: Journal Article
• Language: English
• Published: US Oxford University Press 05.07.2023
• Subjects: Animals; Cats; COVID-19 - diagnosis; COVID-19 - veterinary; COVID-19 Testing; Dogs; Humans; Laboratories; Pandemics; RNA; SARS-CoV-2 - genetics
• ISSN: 2576-9456; 2475-7241
• DOI: 10.1093/jalm/jfad018

Abstract Background Throughout the COVID-19 pandemic, veterinary diagnostic laboratories have tested diagnostic samples for SARS-CoV-2 both in animals and over 6 million human samples. An evaluation of the performance of those laboratories is needed using blinded test samples to ensure that laboratories report reliable data to the public. This interlaboratory comparison exercise (ILC3) builds on 2 prior exercises to assess whether veterinary diagnostic laboratories can detect Delta and Omicron variants spiked in canine nasal matrix or viral transport medium. Methods The ILC organizer was an independent laboratory that prepared inactivated Delta variant at levels of 25 to 1000 copies per 50 µL of nasal matrix for blinded analysis. Omicron variant at 1000 copies per 50 µL of transport medium was also included. Feline infectious peritonitis virus (FIPV) RNA was used as a confounder for specificity assessment. Fourteen test samples were prepared for each participant. Participants used their routine diagnostic procedures for RNA extraction and real-time reverse transcriptase-PCR. Results were analyzed according to International Organization for Standardization (ISO) 16140–2:2016. Results Overall, laboratories demonstrated 93% detection for Delta and 97% for Omicron at 1000 copies per 50 µL. Specificity was 97% for blank samples and 100% for blank samples with FIPV. No differences in Cycle Threshold (Ct) values were significant for samples with the same virus levels between N1 and N2 markers, nor between the 2 variants. Conclusions The results indicated that all ILC3 participants were able to detect both Delta and Omicron variants. The canine nasal matrix did not significantly affect SARS-CoV-2 detection.