Comparative analysis of 2 commercial molecular tests for the detection of gastroenteric viruses on stool samples

I. Sciandra; L. Piccioni; L. Coltella; S. Ranno; G. Giannelli; F. Falasca; G. Antonelli; C. Concato; O. Turriziani

doi:10.1016/j.diagmicrobio.2019.114893

Comparative analysis of 2 commercial molecular tests for the detection of gastroenteric viruses on stool samples

I. Sciandra, L. Piccioni, L. Coltella, S. Ranno, G. Giannelli, F. Falasca, G. Antonelli, C. Concato, O. Turriziani

Research output: Contribution to journal › Article › peer-review

Abstract

Objective: Our purpose was to compare the performance of 2 recently introduced molecular tests for the identification of gastrointestinal viral infections. Methods: One hundred fecal samples from pediatric patients were analyzed using 2 workflows, each including nucleic acids extraction and multiplex Real-Time PCR: Allplex™ GI-Virus Assay and FTD Viral gastroenteritis. The agreement was evaluated calculating Cohen's kappa and applying McNemar's test. Results and conclusion: Allplex and FTD assays showed 100% overall agreement for Norovirus GI/GII and Sapovirus (κ: 1.00), and 99% for Astrovirus (κ: 0.66). A lower agreement was detected for Adenovirus (89%; κ: 0.72) and Rotavirus (91%, k: 0.53), owing to samples resulted positive only with FTD test. The discrepancies were attributed to a different efficiency of extraction/amplification and to the different Adenovirus serotype specificity of the tests since Allplex detects only AdVF40 and AdVF41. FTD test should be used when non enteric adenovirus could have a clinical significance.

Original language	English
Journal	Diagnostic Microbiology and Infectious Disease
Volume	96
Issue number	1
DOIs	https://doi.org/10.1016/j.diagmicrobio.2019.114893
Publication status	E-pub ahead of print - 2019

Keywords

Enteric viruses
Gastroenteritis
Molecular diagnostic
Multiplex real-time PCR
Syndromic testing

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Comparative analysis of 2 commercial molecular tests for the detection of gastroenteric viruses on stool samples. / Sciandra, I.; Piccioni, L.; Coltella, L.; Ranno, S.; Giannelli, G.; Falasca, F.; Antonelli, G.; Concato, C.; Turriziani, O.

In: Diagnostic Microbiology and Infectious Disease, Vol. 96, No. 1, 2019.

Research output: Contribution to journal › Article › peer-review

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abstract = "Objective: Our purpose was to compare the performance of 2 recently introduced molecular tests for the identification of gastrointestinal viral infections. Methods: One hundred fecal samples from pediatric patients were analyzed using 2 workflows, each including nucleic acids extraction and multiplex Real-Time PCR: Allplex{\texttrademark} GI-Virus Assay and FTD Viral gastroenteritis. The agreement was evaluated calculating Cohen's kappa and applying McNemar's test. Results and conclusion: Allplex and FTD assays showed 100% overall agreement for Norovirus GI/GII and Sapovirus (κ: 1.00), and 99% for Astrovirus (κ: 0.66). A lower agreement was detected for Adenovirus (89%; κ: 0.72) and Rotavirus (91%, k: 0.53), owing to samples resulted positive only with FTD test. The discrepancies were attributed to a different efficiency of extraction/amplification and to the different Adenovirus serotype specificity of the tests since Allplex detects only AdVF40 and AdVF41. FTD test should be used when non enteric adenovirus could have a clinical significance.",

keywords = "Enteric viruses, Gastroenteritis, Molecular diagnostic, Multiplex real-time PCR, Syndromic testing",

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AU - Sciandra, I.

AU - Piccioni, L.

AU - Coltella, L.

AU - Ranno, S.

AU - Giannelli, G.

AU - Falasca, F.

AU - Antonelli, G.

AU - Concato, C.

AU - Turriziani, O.

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N2 - Objective: Our purpose was to compare the performance of 2 recently introduced molecular tests for the identification of gastrointestinal viral infections. Methods: One hundred fecal samples from pediatric patients were analyzed using 2 workflows, each including nucleic acids extraction and multiplex Real-Time PCR: Allplex™ GI-Virus Assay and FTD Viral gastroenteritis. The agreement was evaluated calculating Cohen's kappa and applying McNemar's test. Results and conclusion: Allplex and FTD assays showed 100% overall agreement for Norovirus GI/GII and Sapovirus (κ: 1.00), and 99% for Astrovirus (κ: 0.66). A lower agreement was detected for Adenovirus (89%; κ: 0.72) and Rotavirus (91%, k: 0.53), owing to samples resulted positive only with FTD test. The discrepancies were attributed to a different efficiency of extraction/amplification and to the different Adenovirus serotype specificity of the tests since Allplex detects only AdVF40 and AdVF41. FTD test should be used when non enteric adenovirus could have a clinical significance.

AB - Objective: Our purpose was to compare the performance of 2 recently introduced molecular tests for the identification of gastrointestinal viral infections. Methods: One hundred fecal samples from pediatric patients were analyzed using 2 workflows, each including nucleic acids extraction and multiplex Real-Time PCR: Allplex™ GI-Virus Assay and FTD Viral gastroenteritis. The agreement was evaluated calculating Cohen's kappa and applying McNemar's test. Results and conclusion: Allplex and FTD assays showed 100% overall agreement for Norovirus GI/GII and Sapovirus (κ: 1.00), and 99% for Astrovirus (κ: 0.66). A lower agreement was detected for Adenovirus (89%; κ: 0.72) and Rotavirus (91%, k: 0.53), owing to samples resulted positive only with FTD test. The discrepancies were attributed to a different efficiency of extraction/amplification and to the different Adenovirus serotype specificity of the tests since Allplex detects only AdVF40 and AdVF41. FTD test should be used when non enteric adenovirus could have a clinical significance.

KW - Enteric viruses

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