Open Access

PLoS ONE, volume 15, issue 3, pages e0230301

Comparative analysis of novel MGISEQ-2000 sequencing platform vs Illumina HiSeq 2500 for whole-genome sequencing

Korostin Dmitriy ¹

Kulemin Nikolay ²

Naumov Vladimir ³

Belova Vera A. ¹

Kwon Dmitriy ⁴

Gorbachev Alexey ³

Hide authors affiliations Show authors affiliations: 4 affiliations

Pirogov Russian National Research Medical University, Moscow, Russia |

Pirogov Russian National Research Medical University, Moscow, Russia, |

Zenome.io, Ltd., Moscow, Russia |

⁴

Company Helicon, Ltd., Moscow, Russia |

Publication type: Journal Article

Publication date: 2020-03-16

Public Library of Science (PLoS)

Journal: PLoS ONE

Quartile SCImago

Quartile WOS

Impact factor: 3.7

ISSN: 19326203

DOI: 10.1371/journal.pone.0230301

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Multidisciplinary

Abstract

The MGISEQ-2000 developed by MGI Tech Co. Ltd. (a subsidiary of the BGI Group) is a new competitor of such next-generation sequencing platforms as NovaSeq and HiSeq (Illumina). Its sequencing principle is based on the DNB and the cPAS technologies, which were also used in the previous version of the BGISEQ-500 device. However, the reagents for MGISEQ-2000 have been refined and the platform utilizes updated software. The cPAS method is an advanced technology based on the cPAL previously created by Complete Genomics. In this paper, the authors compare the results of the whole-genome sequencing of a DNA sample from a Russian female donor performed on MGISEQ-2000 and Illumina HiSeq 2500 (both PE150). Two platforms were compared in terms of sequencing quality, number of errors and performance. Additionally, we performed variant calling using four different software packages: Samtools mpileaup, Strelka2, Sentieon, and GATK. The accuracy of SNP detection was similar in the data generated by MGISEQ-2000 and HiSeq 2500, which was used as a reference. At the same time, a separate indel analysis of the overall error rate revealed similar FPR values and lower sensitivity. It may be concluded with confidence that the data generated by the analyzed sequencing systems is characterized by comparable magnitudes of error and that MGISEQ-2000 and HiSeq 2500 can be used interchangeably for similar tasks like whole genome sequencing.

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National Association of the Specialists in Control of Health Care-Associated Infections	National Association of the Specialists in Control of Health Care-Associated Infections, 1, 2.13% National Association of the Specialists in Control of Health Care-Associated Infections 1 publication, 2.13%
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Korostin D. et al. Comparative analysis of novel MGISEQ-2000 sequencing platform vs Illumina HiSeq 2500 for whole-genome sequencing // PLoS ONE. 2020. Vol. 15. No. 3. p. e0230301.

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Korostin D., Kulemin N., Naumov V., Belova V. A., Kwon D., Gorbachev A. Comparative analysis of novel MGISEQ-2000 sequencing platform vs Illumina HiSeq 2500 for whole-genome sequencing // PLoS ONE. 2020. Vol. 15. No. 3. p. e0230301.

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RIS Copy

TY - JOUR

DO - 10.1371/journal.pone.0230301

UR - https://doi.org/10.1371%2Fjournal.pone.0230301

TI - Comparative analysis of novel MGISEQ-2000 sequencing platform vs Illumina HiSeq 2500 for whole-genome sequencing

T2 - PLoS ONE

AU - Korostin, Dmitriy

AU - Kulemin, Nikolay

AU - Naumov, Vladimir

AU - Belova, Vera A.

AU - Kwon, Dmitriy

AU - Gorbachev, Alexey

PY - 2020

DA - 2020/03/16 00:00:00

PB - Public Library of Science (PLoS)

SP - e0230301

IS - 3

VL - 15

SN - 1932-6203

ER -

BibTex |

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@article{2020_Korostin,

author = {Dmitriy Korostin and Nikolay Kulemin and Vladimir Naumov and Vera A. Belova and Dmitriy Kwon and Alexey Gorbachev},

title = {Comparative analysis of novel MGISEQ-2000 sequencing platform vs Illumina HiSeq 2500 for whole-genome sequencing},

journal = {PLoS ONE},

year = {2020},

volume = {15},

publisher = {Public Library of Science (PLoS)},

month = {mar},

url = {https://doi.org/10.1371%2Fjournal.pone.0230301},

number = {3},

pages = {e0230301},

doi = {10.1371/journal.pone.0230301}

}

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Korostin, Dmitriy, et al. “Comparative analysis of novel MGISEQ-2000 sequencing platform vs Illumina HiSeq 2500 for whole-genome sequencing.” PLoS ONE, vol. 15, no. 3, Mar. 2020, p. e0230301. https://doi.org/10.1371%2Fjournal.pone.0230301.

Found error?

Publisher

Public Library of Science (PLoS)

Journal

PLoS ONE

Quartile SCImago

Quartile WOS

Impact factor

3.7

ISSN

19326203 (Print)

Labs

Laboratory of Proteomic analysis

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