Development of multiplex PCR based NGS protocol for whole genome sequencing of West Nile virus lineage 2 directly from biological samples using Oxford Nanopore platform
Само за регистроване кориснике
2023
Аутори
Tešović, BojanaNišavić, Jakov
Banović-Đeri, Bojana
Petrović, Tamaš
Radalj, Andrea
Šekler, Milanko
Matović, Kazimir
Debeljak, Zoran
Vasković, Nikola
Dmitrić, Marko
Vidanović, Dejan
Чланак у часопису (Објављена верзија)
Метаподаци
Приказ свих података о документуАпстракт
West Nile virus (WNV) can affect humans, birds, horses and another mammals, causing asymptomatic infection, mild febrile disease, neurological and systematic disease and death. In order to gain insight into the
prevalence of WNV, a monitoring program has been established in the Republic of Serbia. Whole genome
sequencing is essential for the molecular epizootiological analysis of virus entry and transmission routes,
especially in high-risk regions. This paper describes the development of a multiplex PCR based NGS protocol
for whole genome sequencing of WNV lineage 2 directly from biological samples using Oxford Nanopore
(ONT) platform. The results obtained using this platform, confirmed by Sanger sequencing, indicate that this
protocol can be applied to obtain whole sequences of the WNV genome, even when the virus concentration
in the sample is medium, Ct value is approximately 30. The use of this protocol does not require prior virus
isolation on cell culture nor the depletion... of host nucleic acids.
Кључне речи:
West Nile virus / lineage 2 / multiplex PCR / next generation sequencing / MinION / Oxford Nanopore platformИзвор:
Diagnostic Microbiology and Infectious Disease, 2023, 105, 2, 115852-Издавач:
- Elsevier
Колекције
Институција/група
Fakultet veterinarske medicineTY - JOUR AU - Tešović, Bojana AU - Nišavić, Jakov AU - Banović-Đeri, Bojana AU - Petrović, Tamaš AU - Radalj, Andrea AU - Šekler, Milanko AU - Matović, Kazimir AU - Debeljak, Zoran AU - Vasković, Nikola AU - Dmitrić, Marko AU - Vidanović, Dejan PY - 2023 UR - https://vet-erinar.vet.bg.ac.rs/handle/123456789/2520 AB - West Nile virus (WNV) can affect humans, birds, horses and another mammals, causing asymptomatic infection, mild febrile disease, neurological and systematic disease and death. In order to gain insight into the prevalence of WNV, a monitoring program has been established in the Republic of Serbia. Whole genome sequencing is essential for the molecular epizootiological analysis of virus entry and transmission routes, especially in high-risk regions. This paper describes the development of a multiplex PCR based NGS protocol for whole genome sequencing of WNV lineage 2 directly from biological samples using Oxford Nanopore (ONT) platform. The results obtained using this platform, confirmed by Sanger sequencing, indicate that this protocol can be applied to obtain whole sequences of the WNV genome, even when the virus concentration in the sample is medium, Ct value is approximately 30. The use of this protocol does not require prior virus isolation on cell culture nor the depletion of host nucleic acids. PB - Elsevier T2 - Diagnostic Microbiology and Infectious Disease T1 - Development of multiplex PCR based NGS protocol for whole genome sequencing of West Nile virus lineage 2 directly from biological samples using Oxford Nanopore platform VL - 105 IS - 2 SP - 115852 DO - 10.1016/j.diagmicrobio.2022.115852 ER -
@article{ author = "Tešović, Bojana and Nišavić, Jakov and Banović-Đeri, Bojana and Petrović, Tamaš and Radalj, Andrea and Šekler, Milanko and Matović, Kazimir and Debeljak, Zoran and Vasković, Nikola and Dmitrić, Marko and Vidanović, Dejan", year = "2023", abstract = "West Nile virus (WNV) can affect humans, birds, horses and another mammals, causing asymptomatic infection, mild febrile disease, neurological and systematic disease and death. In order to gain insight into the prevalence of WNV, a monitoring program has been established in the Republic of Serbia. Whole genome sequencing is essential for the molecular epizootiological analysis of virus entry and transmission routes, especially in high-risk regions. This paper describes the development of a multiplex PCR based NGS protocol for whole genome sequencing of WNV lineage 2 directly from biological samples using Oxford Nanopore (ONT) platform. The results obtained using this platform, confirmed by Sanger sequencing, indicate that this protocol can be applied to obtain whole sequences of the WNV genome, even when the virus concentration in the sample is medium, Ct value is approximately 30. The use of this protocol does not require prior virus isolation on cell culture nor the depletion of host nucleic acids.", publisher = "Elsevier", journal = "Diagnostic Microbiology and Infectious Disease", title = "Development of multiplex PCR based NGS protocol for whole genome sequencing of West Nile virus lineage 2 directly from biological samples using Oxford Nanopore platform", volume = "105", number = "2", pages = "115852", doi = "10.1016/j.diagmicrobio.2022.115852" }
Tešović, B., Nišavić, J., Banović-Đeri, B., Petrović, T., Radalj, A., Šekler, M., Matović, K., Debeljak, Z., Vasković, N., Dmitrić, M.,& Vidanović, D.. (2023). Development of multiplex PCR based NGS protocol for whole genome sequencing of West Nile virus lineage 2 directly from biological samples using Oxford Nanopore platform. in Diagnostic Microbiology and Infectious Disease Elsevier., 105(2), 115852. https://doi.org/10.1016/j.diagmicrobio.2022.115852
Tešović B, Nišavić J, Banović-Đeri B, Petrović T, Radalj A, Šekler M, Matović K, Debeljak Z, Vasković N, Dmitrić M, Vidanović D. Development of multiplex PCR based NGS protocol for whole genome sequencing of West Nile virus lineage 2 directly from biological samples using Oxford Nanopore platform. in Diagnostic Microbiology and Infectious Disease. 2023;105(2):115852. doi:10.1016/j.diagmicrobio.2022.115852 .
Tešović, Bojana, Nišavić, Jakov, Banović-Đeri, Bojana, Petrović, Tamaš, Radalj, Andrea, Šekler, Milanko, Matović, Kazimir, Debeljak, Zoran, Vasković, Nikola, Dmitrić, Marko, Vidanović, Dejan, "Development of multiplex PCR based NGS protocol for whole genome sequencing of West Nile virus lineage 2 directly from biological samples using Oxford Nanopore platform" in Diagnostic Microbiology and Infectious Disease, 105, no. 2 (2023):115852, https://doi.org/10.1016/j.diagmicrobio.2022.115852 . .