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Article

In Silico Evaluation of the PCR Performance of Different Tests for Detection of WSSV

by
Arturo Sánchez-Paz
,
Trinidad Encinas-García
and
Fernando Mendoza-Cano
*
Laboratorio de Virología, Centro de Investigaciones Biológicas del Noroeste (CIBNOR), S.C. (Unidad Hermosillo), Calle Hermosa 101, Fraccionamiento Los Ángeles, Hermosillo 83206, Sonora, Mexico
*
Author to whom correspondence should be addressed.
Fishes 2024, 9(1), 5; https://doi.org/10.3390/fishes9010005
Submission received: 27 October 2023 / Revised: 15 December 2023 / Accepted: 18 December 2023 / Published: 20 December 2023
(This article belongs to the Special Issue Diseases in Fish and Shellfish, 2nd Edition)
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Abstract

In this study, the primers of different protocols for the detection of White Spot Syndrome Virus (WSSV) were analyzed in silico to evaluate their potential performance in PCR. As with any biological entity, this virus evolves constantly. Thus, this analysis showed that a few primers, including those recommended by the World Organization for Animal Health (WOAH), might mismatch with some isolates of WSSV, specially with isolates more recently sequenced. Furthermore, a set of primers recommended by WOAH, showed the potential to self-dimer and form hairpin loop structures, which could affect the efficiency of PCR, resulting in an inaccurate diagnostic result. From our perspective, and considering the evolutionary trajectory of this virus, it may be time for the WOAH to update the PCR protocols recommended for WSSV detection, which remains as a highly prevalent and lethal virus.
Keywords: WSSV; WOAH; in silico analysis; primers; viral evolution WSSV; WOAH; in silico analysis; primers; viral evolution

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MDPI and ACS Style

Sánchez-Paz, A.; Encinas-García, T.; Mendoza-Cano, F. In Silico Evaluation of the PCR Performance of Different Tests for Detection of WSSV. Fishes 2024, 9, 5. https://doi.org/10.3390/fishes9010005

AMA Style

Sánchez-Paz A, Encinas-García T, Mendoza-Cano F. In Silico Evaluation of the PCR Performance of Different Tests for Detection of WSSV. Fishes. 2024; 9(1):5. https://doi.org/10.3390/fishes9010005

Chicago/Turabian Style

Sánchez-Paz, Arturo, Trinidad Encinas-García, and Fernando Mendoza-Cano. 2024. "In Silico Evaluation of the PCR Performance of Different Tests for Detection of WSSV" Fishes 9, no. 1: 5. https://doi.org/10.3390/fishes9010005

APA Style

Sánchez-Paz, A., Encinas-García, T., & Mendoza-Cano, F. (2024). In Silico Evaluation of the PCR Performance of Different Tests for Detection of WSSV. Fishes, 9(1), 5. https://doi.org/10.3390/fishes9010005

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