On-Site MinION Sequencing - PubMed

Review

On-Site MinION Sequencing

Lucky R Runtuwene et al. Adv Exp Med Biol. 2019.

Abstract

DNA sequencing has reached an unprecedented level with the advent of Oxford Nanopore Technologies' MinION. The low equipment investment, ease of library preparation, small size, and powered only by a laptop computer enable the portability for on-site sequencing. MinION has had its role in clinical, biosecurity, and environmental fields. Here, we describe the many facets of on-site sequencing with MinION. First, we will present some field works using MinION. We will discuss the requirements for targeted or whole genome sequencing and the challenges faced by each technique. We will also elaborate the bioinformatics procedures available for data analysis in the field. MinION has greatly changed the way we do sequencing by bringing the sequencer closer to the biodiversity. Although numerous limitations exist for MinION to be truly portable, improvements of procedures and equipment will enhance MinION's role in the field.

Similar articles

• Multiplexed Targeted Sequencing for Oxford Nanopore MinION: A Detailed Library Preparation Procedure.

  Karamitros T, Magiorkinis G. Karamitros T, et al. Methods Mol Biol. 2018;1712:43-51. doi: 10.1007/978-1-4939-7514-3_4. Methods Mol Biol. 2018. PMID: 29224067

• Full-Length HLA Class I Genotyping with the MinION Nanopore Sequencer.

  Lang K, Surendranath V, Quenzel P, Schöfl G, Schmidt AH, Lange V. Lang K, et al. Methods Mol Biol. 2018;1802:155-162. doi: 10.1007/978-1-4939-8546-3_10. Methods Mol Biol. 2018. PMID: 29858807

• Approaches to Whole Mitochondrial Genome Sequencing on the Oxford Nanopore MinION.

  Zascavage RR, Hall CL, Thorson K, Mahmoud M, Sedlazeck FJ, Planz JV. Zascavage RR, et al. Curr Protoc Hum Genet. 2019 Dec;104(1):e94. doi: 10.1002/cphg.94. Curr Protoc Hum Genet. 2019. PMID: 31743587

• The Current State of Nanopore Sequencing.

  Pugh J. Pugh J. Methods Mol Biol. 2023;2632:3-14. doi: 10.1007/978-1-0716-2996-3_1. Methods Mol Biol. 2023. PMID: 36781717 Review.

• A world of opportunities with nanopore sequencing.

  Leggett RM, Clark MD. Leggett RM, et al. J Exp Bot. 2017 Nov 28;68(20):5419-5429. doi: 10.1093/jxb/erx289. J Exp Bot. 2017. PMID: 28992056 Review.

Cited by

• KARGAMobile: Android app for portable, real-time, easily interpretable analysis of antibiotic resistance genes via nanopore sequencing.

  Barquero A, Marini S, Boucher C, Ruiz J, Prosperi M. Barquero A, et al. Front Bioeng Biotechnol. 2022 Oct 17;10:1016408. doi: 10.3389/fbioe.2022.1016408. eCollection 2022. Front Bioeng Biotechnol. 2022. PMID: 36324897 Free PMC article.

• Generating long-read sequences using Oxford Nanopore Technology from Diospyros celebica genomic DNA.

  Siregar IZ, Dwiyanti FG, Pratama R, Matra DD, Majiidu M. Siregar IZ, et al. BMC Res Notes. 2021 Feb 27;14(1):75. doi: 10.1186/s13104-021-05484-0. BMC Res Notes. 2021. PMID: 33640010 Free PMC article.

• Nanopore sequencing technology, bioinformatics and applications.

  Wang Y, Zhao Y, Bollas A, Wang Y, Au KF. Wang Y, et al. Nat Biotechnol. 2021 Nov;39(11):1348-1365. doi: 10.1038/s41587-021-01108-x. Epub 2021 Nov 8. Nat Biotechnol. 2021. PMID: 34750572 Free PMC article. Review.

• Application of Nanopore Sequencing in the Diagnosis and Treatment of Pulmonary Infections.

  Chen J, Xu F. Chen J, et al. Mol Diagn Ther. 2023 Nov;27(6):685-701. doi: 10.1007/s40291-023-00669-8. Epub 2023 Aug 11. Mol Diagn Ther. 2023. PMID: 37563539 Free PMC article. Review.

• Real-time SARS-CoV-2 diagnostic and variants tracking over multiple candidates using nanopore DNA sequencing.

  Stüder F, Petit JL, Engelen S, Mendoza-Parra MA. Stüder F, et al. Sci Rep. 2021 Aug 5;11(1):15869. doi: 10.1038/s41598-021-95563-w. Sci Rep. 2021. PMID: 34354202 Free PMC article.

Publication types

MeSH terms

LinkOut - more resources

• Full Text Sources

  • Springer

• Other Literature Sources

  • The Lens - Patent Citations Database