Prolonged detection of complete viral genomes demonstrated by SARS-CoV-2 sequencing of serial respiratory specimens

被引:1
作者
Zuckerman, Neta S. [1 ]
Bucris, Efrat [1 ]
Erster, Oran [1 ]
Mandelboim, Michal [1 ,2 ]
Adler, Amos [2 ,3 ]
Burstein, Saar [4 ]
Protter, Noam [4 ]
Szwarcwort-Cohen, Moran [5 ]
Mendelson, Ella [1 ,2 ]
Mor, Orna [1 ,2 ]
机构
[1] Chaim Sheba Med Ctr, Minist Hlth, Cent Virol Lab, Ramat Gan, Israel
[2] Tel Aviv Univ, Sackler Fac Med, Sch Publ Hlth, Dept Epidemiol & Prevent Med, Tel Aviv, Israel
[3] Tel Aviv Sourasky Med Ctr, Clin Microbiol, Tel Aviv, Israel
[4] IDF Med Corps, Ramat Gan, Israel
[5] Rambam Hlth Care Campus, Virol Lab, Haifa, Israel
来源
PLOS ONE | 2021年 / 16卷 / 08期
关键词
D O I
10.1371/journal.pone.0255691
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Accurate and timely diagnosis of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is clinically essential, and is required also to monitor confirmed cases aiming to prevent further spread. Positive real-time PCR results at late time points following initial diagnosis may be clinically misleading as this methodology cannot account for the infection capabilities and the existence of whole genome sequences. In this study, 47 serial respiratory samples were tested by Allplex-nCoV test (Seegene), a triplex of three assays targeting the SARS-CoV-2 RdRP, E and N genes and subsequently assessed by next generation sequencing (NGS). COVID19 patients were tested at an early stage of the disease, when all these viral gene targets were positive, and at an advanced stage, when only the N gene target was positive in the Allplex-nCoV test. The corresponding NGS results showed the presence of complete viral genome copies at both early and advanced stages of the disease, although the total number of mapped sequences was lower in samples from advanced disease stages. We conclude that reduced viral transmission at this late disease stage may result from the low quantities of complete viral sequences and not solely from transcription favoring the N gene.
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页数:7
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