Flo min106d spoton r9.4 flow cell

Manufactured by Oxford Nanopore

Sourced in United Kingdom

The FLO-MIN106D (SpotON R9.4) flow cell is a core component of the Oxford Nanopore sequencing platform. It provides the physical platform for DNA/RNA sample preparation and analysis. The flow cell contains a number of individual nanopores through which the samples are processed and sequenced.

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Lab products found in correlation

Minion sequencing, by Oxford Nanopore (2 mentions) Guppy v 3, by Oxford Nanopore (2 mentions) Minknow v 1, by Oxford Nanopore (2 mentions) Nextera dna flex library preparation kit, by Illumina (2 mentions) S aureus genotyping kit 2, by Abbott (2 mentions) Dneasy blood and tissue kit, by Qiagen (2 mentions) Miseq reagent kit v2, by Illumina (1 mentions) Miseq reagent kit v2 500 cycle, by Illumina (1 mentions)

Spelling variants of this product

FLO-MIN106D (18 citations) R9 flow cell (9 citations) FLO-MIN106D R9.4.1 (8 citations) SpotON Flow Cell (7 citations)

2 protocols using flo min106d spoton r9.4 flow cell

Hybrid Genome Assembly of S. aureus

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The 55 LRE and transconjugants underwent WGS using genomic DNA extracted using the S. aureus Genotyping Kit 2.0 [Abbott (Alere Technologies), Germany] and the QIAGEN DNeasy Blood and Tissue Kit (QIAGEN, UK). Libraries prepared with the Nextera DNA Flex Library Preparation Kit (Illumina, The Netherlands) underwent paired-end sequencing using the 500-cycle MiSeq Reagent Kit v2 (Illumina). Libraries were scaled to yield ≥50× coverage.
For isolates selected for hybrid assembly, DNA was extracted using the GenFind v3 kit (Beckman Coulter, USA). Long-read sequencing was performed in multiplex using MinION sequencing (Oxford Nanopore Technologies, UK), the 1D Genomic DNA sequencing kit (SQK-LSK109) and 1D Native Barcoding Kit (EXP-NBD103). Libraries were sequenced on an Mk1B (MIN101B) MinION platform with a FLO-MIN106D (SpotON R9.4) flow cell and using MinKNOW v1.7.10 (Oxford Nanopore). Basecalls were performed on MinION FAST5 files using Guppy v3.1.5 (Oxford Nanopore) and demultiplexing was performed using qCat v1.0.1 (https://github.com/nanoporetech/qcat).

Egan S.A., Shore A.C., O’Connell B., Brennan G.I, & Coleman D.C. (2020). Linezolid resistance in Enterococcus faecium and Enterococcus faecalis from hospitalized patients in Ireland: high prevalence of the MDR genes optrA and poxtA in isolates with diverse genetic backgrounds. Journal of Antimicrobial Chemotherapy, 75(7), 1704-1711.

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Whole-Genome Sequencing of Enterococcal Isolates

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Thirty-nine enterococcal isolates and selected transconjugant derivatives (Table I and Table S2, see online supplementary material) underwent WGS using genomic DNA extracted with the S. aureus Genotyping Kit 2.0 [Abbott (Alere Technologies GmbH), Jena, Germany] and the Qiagen DNeasy blood and tissue kit (Qiagen, Hilden, Germany) [24] . Libraries prepared with the Nextera DNA Flex Library Preparation Kit (Illumina, Inc., San Diego, CA, USA) underwent paired-end sequencing using the 500-cycle MiSeq Reagent Kit v2 (Illumina) [24] . Libraries were scaled to yield 50x coverage.
LVREfm isolate O_03 (Patient B) was selected for hybrid assembly to determine the genetic organization of an optrAencoding conjugative plasmid it harboured. For this isolate, DNA was extracted using the Qiagen HMW MagAttract kit (Qiagen). Long-read sequencing was performed using MinION sequencing (Oxford Nanopore Technologies, Oxford, UK) using the one-dimensional genomic DNA sequencing kit (SQK-LSK109) and an MK1B (MIN101B) MinION platform with a FLO-MIN106D (SpotON R9.4) flow cell and MinKNOW v1.7.10 (Oxford Nanopore Technologies). Basecalls were performed on MinION FAST5 files using Guppy v3.1.5 (Oxford Nanopore Technologies), and demultiplexing was performed using qCat v1.0.1 (https:// github.com/nanoporetech/qcat).

Egan S.A., Corcoran S., McDermott H., Fitzpatrick M., Hoyne A., McCormack O., Cullen A., Brennan G.I., O'Connell B, & Coleman D.C. (2020). Hospital outbreak of linezolid-resistant and vancomycin-resistant ST80 Enterococcus faecium harbouring an optrA-encoding conjugative plasmid investigated by whole-genome sequencing. The Journal of hospital infection, 105(4).

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