Nanopore Sequencing of S. epidermidis FB146

One microgram of extracted S. epidermidis FB146 gDNA was subjected to
library construction using a 1D Genomic DNA Ligation Sequencing Kit (SQK-LSK109, Oxford
Nanopore Technologies, Oxford, UK) and sequenced on a MinION sequencer (Mk1B, Oxford
Nanopore Technologies) according to the manufacturer’s protocol. The resulting reads were
corrected and assembled into contigs with Canu version 1.9 [36 (link)] using the default configuration with the option for a total contig
size of 3 Mbp. The raw reads were registered in DDBJ (accession number: PRJDB12978).

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SHIRASAWA H., NISHIYAMA C., HIRANO R., KOYANAGI T., OKUDA S., TAKAGI H, & KURIHARA S. (2022). Isolation of the high polyamine-producing bacterium Staphylococcus epidermidis FB146 from fermented foods and identification of polyamine-related genes. Bioscience of Microbiota, Food and Health, 42(1), 24-33.

Publication 2022

1D Genomic DNA Ligation Sequencing Kit (SQK-LSK109,

Genomic Ligation

Corresponding Organization :

Other organizations : Kindai University, Ishikawa Prefectural University, Niigata University

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Variable analysis

independent variables

Library construction using a 1D Genomic DNA Ligation Sequencing Kit (SQK-LSK109, Oxford Nanopore Technologies, Oxford, UK)
Sequencing on a MinION sequencer (Mk1B, Oxford Nanopore Technologies)

dependent variables

Corrected and assembled reads into contigs

control variables

One microgram of extracted S. epidermidis FB146 gDNA
Canu version 1.9 used for read correction and assembly with default configuration and option for a total contig size of 3 Mbp

controls

No positive or negative controls were explicitly mentioned in the information provided.

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