par Van Campenhout, Claude
;De Mendonça, Ricardo
;Alexiou, Barbara
;De Clercq, Sarah
;Racu, Marie-Lucie
;Royer-Chardon, Claire
;Rusu, Stefan
;Van Eycken, Marie
;Artesi, Maria;Durkin, Keith
;Mardulyn, Patrick
;Bours, Vincent;Decaestecker, Christine
;Remmelink, Myriam
;Salmon, Isabelle
;D'Haene, Nicky ![](/vufind/images/ULB/publications_list.png)
Référence The Journal of molecular diagnostics, 23, 9, page (1065-1077)
Publication Publié, 2021
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
![](/vufind/images/ULB/publications_list.png)
Référence The Journal of molecular diagnostics, 23, 9, page (1065-1077)
Publication Publié, 2021
Article révisé par les pairs
Résumé : | Implementation of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) testing in the daily practice of pathology laboratories requires procedure adaptation to formalin-fixed, paraffin-embedded (FFPE) samples. So far, one study reported the feasibility of SARS-CoV-2 genome sequencing on FFPE tissues with only one contributory case of two. This study optimized SARS-CoV-2 genome sequencing using the Ion AmpliSeq SARS-CoV-2 Panel on 22 FFPE lung tissues from 16 deceased coronavirus disease 2019 (COVID-19) patients. SARS-CoV-2 was detected in all FFPE blocks using a real-time RT-qPCR targeting the E gene with crossing point (Cp) values ranging from 16.02 to 34.16. Sequencing was considered as contributory (i.e. with a uniformity >55%) for 17 FFPE blocks. Adapting the number of target amplification PCR cycles according to the RT-qPCR Cp values allowed optimization of the sequencing quality for the contributory blocks (i.e. 20 PCR cycles for blocks with a Cp value <28 and 25 PCR cycles for blocks with a Cp value between 28 and 30). Most blocks with a Cp value >30 were non-contributory. Comparison of matched frozen and FFPE tissues revealed discordance for only three FFPE blocks, all with a Cp value >28. Variant identification and clade classification was possible for 13 patients. This study validates SARS-CoV-2 genome sequencing on FFPE blocks and opens the possibility to explore correlation between virus genotype and histopathologic lesions. |