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Metagenomic search of viral coinfections in herpes simplex encephalitis patients

Little is known about concomitant central nervous system (CNS) infections by more than one virus. Current diagnostics are based on molecular tests for particular pathogens making it difficult to identify multi-viral infections. In the present study, we applied DNA- and RNA-based next-generation sequ...

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Autores principales: Perlejewski, Karol, Radkowski, Marek, Rydzanicz, Małgorzata, Dzieciątkowski, Tomasz, Silling, Steffi, Wieczorek, Magdalena, Makowiecki, Michał, Horban, Andrzej, Laskus, Tomasz
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer International Publishing 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10645616/
https://www.ncbi.nlm.nih.gov/pubmed/37490185
http://dx.doi.org/10.1007/s13365-023-01157-9
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author Perlejewski, Karol
Radkowski, Marek
Rydzanicz, Małgorzata
Dzieciątkowski, Tomasz
Silling, Steffi
Wieczorek, Magdalena
Makowiecki, Michał
Horban, Andrzej
Laskus, Tomasz
author_facet Perlejewski, Karol
Radkowski, Marek
Rydzanicz, Małgorzata
Dzieciątkowski, Tomasz
Silling, Steffi
Wieczorek, Magdalena
Makowiecki, Michał
Horban, Andrzej
Laskus, Tomasz
author_sort Perlejewski, Karol
collection PubMed
description Little is known about concomitant central nervous system (CNS) infections by more than one virus. Current diagnostics are based on molecular tests for particular pathogens making it difficult to identify multi-viral infections. In the present study, we applied DNA- and RNA-based next-generation sequencing metagenomics (mNGS) to detect viruses in cerebrospinal fluids from 20 patients with herpes simplex encephalitis. Coinfection was detected in one patient: sequences in cerebrospinal fluids matched enterovirus A (2.660 reads; 4% of recovered genome) and enterovirus B (1.571 reads; 13% of recovered genome). Subsequent PCR combined with serotyping allowed to identify human echovirus 6, a representative of enterovirus B. Several other mNGS hits (human pegivirus, Merkel cell polyomavirus, human papillomavirus type 5) were not considered to represent a genuine signal as they could not be confirmed by specific RT-PCR/PCR. HSV DNA, while being detectable by PCR in every patient, was detected by mNGS in only one. In conclusion, contaminations and false signals may complicate mNGS interpretation; however, the method can be useful in diagnostics of viral coinfections in CNS, particularly in the case of rare pathogens.
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spelling pubmed-106456162023-11-14 Metagenomic search of viral coinfections in herpes simplex encephalitis patients Perlejewski, Karol Radkowski, Marek Rydzanicz, Małgorzata Dzieciątkowski, Tomasz Silling, Steffi Wieczorek, Magdalena Makowiecki, Michał Horban, Andrzej Laskus, Tomasz J Neurovirol Article Little is known about concomitant central nervous system (CNS) infections by more than one virus. Current diagnostics are based on molecular tests for particular pathogens making it difficult to identify multi-viral infections. In the present study, we applied DNA- and RNA-based next-generation sequencing metagenomics (mNGS) to detect viruses in cerebrospinal fluids from 20 patients with herpes simplex encephalitis. Coinfection was detected in one patient: sequences in cerebrospinal fluids matched enterovirus A (2.660 reads; 4% of recovered genome) and enterovirus B (1.571 reads; 13% of recovered genome). Subsequent PCR combined with serotyping allowed to identify human echovirus 6, a representative of enterovirus B. Several other mNGS hits (human pegivirus, Merkel cell polyomavirus, human papillomavirus type 5) were not considered to represent a genuine signal as they could not be confirmed by specific RT-PCR/PCR. HSV DNA, while being detectable by PCR in every patient, was detected by mNGS in only one. In conclusion, contaminations and false signals may complicate mNGS interpretation; however, the method can be useful in diagnostics of viral coinfections in CNS, particularly in the case of rare pathogens. Springer International Publishing 2023-07-25 2023 /pmc/articles/PMC10645616/ /pubmed/37490185 http://dx.doi.org/10.1007/s13365-023-01157-9 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Perlejewski, Karol
Radkowski, Marek
Rydzanicz, Małgorzata
Dzieciątkowski, Tomasz
Silling, Steffi
Wieczorek, Magdalena
Makowiecki, Michał
Horban, Andrzej
Laskus, Tomasz
Metagenomic search of viral coinfections in herpes simplex encephalitis patients
title Metagenomic search of viral coinfections in herpes simplex encephalitis patients
title_full Metagenomic search of viral coinfections in herpes simplex encephalitis patients
title_fullStr Metagenomic search of viral coinfections in herpes simplex encephalitis patients
title_full_unstemmed Metagenomic search of viral coinfections in herpes simplex encephalitis patients
title_short Metagenomic search of viral coinfections in herpes simplex encephalitis patients
title_sort metagenomic search of viral coinfections in herpes simplex encephalitis patients
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10645616/
https://www.ncbi.nlm.nih.gov/pubmed/37490185
http://dx.doi.org/10.1007/s13365-023-01157-9
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