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Benchmarking state-of-the-art approaches for norovirus genome assembly in metagenome sample. / Мелешко, Дмитрий Алексеевич; Коробейников, Антон Иванович.

In: Biology, Vol. 12, No. 8, 1066, 29.07.2023.

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

Harvard

Мелешко, ДА & Коробейников, АИ 2023, 'Benchmarking state-of-the-art approaches for norovirus genome assembly in metagenome sample', Biology, vol. 12, no. 8, 1066. https://doi.org/10.3390/biology12081066

APA

Мелешко, Д. А., & Коробейников, А. И. (2023). Benchmarking state-of-the-art approaches for norovirus genome assembly in metagenome sample. Biology, 12(8), [1066]. https://doi.org/10.3390/biology12081066

Vancouver

Мелешко ДА, Коробейников АИ. Benchmarking state-of-the-art approaches for norovirus genome assembly in metagenome sample. Biology. 2023 Jul 29;12(8). 1066. https://doi.org/10.3390/biology12081066

Author

Мелешко, Дмитрий Алексеевич ; Коробейников, Антон Иванович. / Benchmarking state-of-the-art approaches for norovirus genome assembly in metagenome sample. In: Biology. 2023 ; Vol. 12, No. 8.

BibTeX

@article{745482ad97d24aed8008735c651d01f7,
title = "Benchmarking state-of-the-art approaches for norovirus genome assembly in metagenome sample",
abstract = "A recently published article in BMCGenomics by Fuentes-Trillo et al. contains a comparison of assembly approaches of several noroviral samples via different tools and preprocessing strategies. It turned out that the study used outdated versions of tools as well as tools that were not designed for the viral assembly task. In order to improve the suboptimal assemblies, authors suggested different sophisticated preprocessing strategies that seem to make only minor contributions to the results. We have reproduced the analysis using state-of-the-art tools designed for viral assembly, and we demonstrate that tools from the SPAdes toolkit (rnaviralSPAdes and coronaSPAdes) allow one to assemble the samples from the original study into a single contig without any additional preprocessing.",
keywords = "benchmarking, noroviruses, viral assembly",
author = "Мелешко, {Дмитрий Алексеевич} and Коробейников, {Антон Иванович}",
year = "2023",
month = jul,
day = "29",
doi = "10.3390/biology12081066",
language = "English",
volume = "12",
journal = "Biology",
issn = "2079-7737",
publisher = "MDPI AG",
number = "8",

}

RIS

TY - JOUR

T1 - Benchmarking state-of-the-art approaches for norovirus genome assembly in metagenome sample

AU - Мелешко, Дмитрий Алексеевич

AU - Коробейников, Антон Иванович

PY - 2023/7/29

Y1 - 2023/7/29

N2 - A recently published article in BMCGenomics by Fuentes-Trillo et al. contains a comparison of assembly approaches of several noroviral samples via different tools and preprocessing strategies. It turned out that the study used outdated versions of tools as well as tools that were not designed for the viral assembly task. In order to improve the suboptimal assemblies, authors suggested different sophisticated preprocessing strategies that seem to make only minor contributions to the results. We have reproduced the analysis using state-of-the-art tools designed for viral assembly, and we demonstrate that tools from the SPAdes toolkit (rnaviralSPAdes and coronaSPAdes) allow one to assemble the samples from the original study into a single contig without any additional preprocessing.

AB - A recently published article in BMCGenomics by Fuentes-Trillo et al. contains a comparison of assembly approaches of several noroviral samples via different tools and preprocessing strategies. It turned out that the study used outdated versions of tools as well as tools that were not designed for the viral assembly task. In order to improve the suboptimal assemblies, authors suggested different sophisticated preprocessing strategies that seem to make only minor contributions to the results. We have reproduced the analysis using state-of-the-art tools designed for viral assembly, and we demonstrate that tools from the SPAdes toolkit (rnaviralSPAdes and coronaSPAdes) allow one to assemble the samples from the original study into a single contig without any additional preprocessing.

KW - benchmarking

KW - noroviruses

KW - viral assembly

UR - https://www.mendeley.com/catalogue/c35913cd-0715-3518-becd-133500c0e148/

U2 - 10.3390/biology12081066

DO - 10.3390/biology12081066

M3 - Article

C2 - 37626951

VL - 12

JO - Biology

JF - Biology

SN - 2079-7737

IS - 8

M1 - 1066

ER -

ID: 106999471